Gene expression profiling study by RNA-seq in colorectal cancer

Whole-study status Recommended

Scores and metadata are strong enough for direct review.

Whole-study downloads — these do not apply your sample requirements.

Selected cohort requirements

Samples meeting selected requirements: 0 cases / 0 controls

36 case / 18 control samples elsewhere in the study have incomplete or conflicting evidence; they are not included above

Patient pairs verified in indexed sample metadata: 0

A case/control comparison meeting these requirements is not confirmed.

Counts describe samples, not independent patients. Pair verification uses explicit subject identifiers in indexed sample metadata. Zero verified pairs does not establish that the study is unpaired; reported matched-normal design alone is insufficient.

Source: GEO
Assay: bulk RNA-seq
Organism: Homo sapiens
Whole-study samples: 54 samples
Specimen: Tissue
Reported/interpreted study design: Tumor vs normal; consult patient linkage Design classification does not establish patient pairs.

Comparison type: Tumor vs normal
Contributors: Kim J, Kim S
Contact name: Seon-Kyu,,Kim
Submission date: Sep 11 2013
Last update: Jun 05 2024
Organization: Korea Research Institutue of Bioscience & Biotechnology
Department: Personalized Genomic Medicine Research Center
Public date: Aug 31 2014
Experiment types: Expression profiling by high throughput sequencing
Platforms: GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Series type: Series
SubSeries: Not available
BioProject: PRJNA218851

Summary

The objective of this study is to identify a prognostic signature in colorectal cancer (CRC) patients with diverse progression and heterogeneity of CRCs. We generated RNA-seq data of 54 samples (normal colon, primary CRC, and liver metastasis) from 18 CRC patients and, from the RNA-seq data, identified significant genes associated with aggressiveness of CRC. Through diverse statistical methods including generalized linear model likelihood ratio test, two significantly activated regulators were identified. In the validation cohorts, two activated regulators were independent risk factors and potential chemotherapy-sensitive agenets in colorectal cancers.

Overall design

RNA-seq data of 54 samples (normal colon, primary CRC, and liver metastasis) were generated from 18 CRC patients. Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light. Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR. Sequencing was performed in paired end reads (2x100 bp) using Hiseq-2000 (Illumina).

Source Evidence

4 sources

Source	Contribution	Status
GEO	Original dataset metadata, sample metadata, source links, and GEO data availability flags. Sample records 54 GSM samples	Primary source
recount3	Planned trusted source for processed count availability.	No match found
Expression Atlas	Curated expression experiment linkage and source URL. Expression Atlas accession E-GEOD-50760	Available
PubMed	Primary GEO citations and related PubMed articles that mention this dataset. 19 linked publications 18 DOIs Primary publication A nineteen gene-based risk score classifier predicts prognosis of colorectal cancer patients. Molecular oncology, 2014 PubMed DOI A prognostic index based on an eleven gene signature to predict systemic recurrences in colorectal cancer. Experimental & molecular medicine, 2019 PubMed DOI CILP2 is a potential biomarker for the prediction and therapeutic target of peritoneal metastases in colorectal cancer. Scientific reports, 2024 PubMed DOI Complex Behavior of ALDH1A1 and IGFBP1 in Liver Metastasis from a Colorectal Cancer. PloS one, 2016 PubMed DOI Related publications Prognostic model development for classification of colorectal adenocarcinoma by using machine learning model based on feature selection technique boruta. Scientific reports, 2023 PubMed DOI Toward Colorectal Cancer Biomarkers: The Role of Genetic Variation, Wnt Pathway, and Long Noncoding RNAs. Omics : a journal of integrative biology, 2021 PubMed DOI Bioinformatics screening of colorectal-cancer causing molecular signatures through gene expression profiles to discover therapeutic targets and candidate agents. BMC medical genomics, 2023 PubMed DOI Genome-wide mutation profiles of colorectal tumors and associated liver metastases at the exome and transcriptome levels. Oncotarget, 2015 PubMed DOI FOXP3 promotes colorectal carcinoma liver metastases by evaluating MMP9 expression via regulating S-adenosylmethionine metabolism. Annals of translational medicine, 2020 PubMed DOI OTOP2, Inversely Modulated by miR-3148, Inhibits CRC Cell Migration, Proliferation and Epithelial-Mesenchymal Transition: Evidence from Bioinformatics Data Mining and Experimental Verification. Cancer management and research, 2022 PubMed DOI Reliable epithelial-mesenchymal transition biomarkers for colorectal cancer detection. Biomarkers in medicine, 2022 PubMed DOI Molecular insights into the development of hepatic metastases in colorectal cancer: a metastasis prediction study. European review for medical and pharmacological sciences, 2020 PubMed DOI Effect of ISM1 on the Immune Microenvironment and Epithelial-Mesenchymal Transition in Colorectal Cancer. Frontiers in cell and developmental biology, 2021 PubMed DOI Identification of key claudin genes associated with survival prognosis and diagnosis in colon cancer through integrated bioinformatic analysis. Frontiers in genetics, 2023 PubMed DOI Unlocking the Potential of the CA2, CA7, and ITM2C Gene Signatures for the Early Detection of Colorectal Cancer: A Comprehensive Analysis of RNA-Seq Data by Utilizing Machine Learning Algorithms. Genes, 2023 PubMed DOI Colorectal Cancer Biomarker Identification via Joint DNA-Methylation and Transcriptomics Analysis Workflow. Genes, 2025 PubMed DOI Sp1 contributes to overexpression of stanniocalcin 2 through regulation of promoter activity in colon adenocarcinoma. World journal of gastroenterology, 2019 PubMed DOI PCK1 and DHODH drive colorectal cancer liver metastatic colonization and hypoxic growth by promoting nucleotide synthesis. eLife, 2019 PubMed DOI ARNTL2 knockdown suppressed the invasion and migration of colon carcinoma: decreased SMOC2-EMT expression through inactivation of PI3K/AKT pathway. American journal of translational research, 2020 PubMed	Available

Metadata Quality Components

Persisted metadata quality

100 pts

Clarity: 100%
Weight: 100 pts

Sample source clarity: All samples have source metadata and clear GSE/GSM accessions. Group clarity: Rule-based grouping found both case and control samples. Disease clarity: Disease or condition metadata normalized. Tissue clarity: Anatomical source metadata normalized. Treatment clarity: No unclear treatment split detected in the sample metadata. Replicate clarity: No pooled sample or technical replicate flags detected. Data availability clarity: Dataset-level processed or raw data availability is explicit.

Analysis Readiness

Ready after review

100% DE readiness

Contrast completeness

25/25 pts

Both case and control groups are present in the proposed grouping.

Minimum group size

20/20 pts

Each contrast group has at least 2 samples.

Processed data availability

20/20 pts

Processed data is marked available in the GEO index.

Sample decision clarity

15/15 pts

All samples are assigned to a case or control group.

Blocking warnings

10/10 pts

No dataset warnings are present.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

No readiness blockers detected.

Next Steps

Verify the proposed sample assignments and case-versus-control comparison against the GEO metadata before using them in DESeq2 or another differential-expression tool.
Confirm processed count files and sample identifiers match the exported metadata.

Analysis Preparation Checklist

5/6 ready

Group labels reviewed

Needs review

Siftome proposed case and control labels, but no reviewer confirmation is stored yet.

Open the sample grouping CSV and confirm group labels before analysis.

Minimum sample count met

Ready

Both groups meet the minimum of 2 samples.

Confirm whether the cohort is large enough for the intended statistical analysis.

Processed counts available

Ready

Processed data availability is marked true in the GEO index.

Verify that downloaded processed files contain usable count or expression identifiers.

Ambiguous samples handled

Ready

No review-needed or unassigned samples are present in the proposed grouping.

Review the grouping table for biologically meaningful differences that the automated checks may not detect.

Exclusion decisions recorded

Ready

No hard-excluded samples were detected by the current rules.

Record any manual exclusions in the downstream analysis notes.

Source traceability preserved

Ready

The dataset and sample accessions can be traced back to GEO.

Keep GEO accessions with exported metadata.

Bioinformatician Review

Standard analyst review

Proceed only after the analyst confirms grouping, exclusions, and source files.

By Siftome standards, no expert review was triggered.

Why This Is Ranked Here

Tumor vs normal

Recommended Scores and metadata are strong enough for direct review.

Applied Review Decisions

No active review decisions affect this ranking.

Derived Classifications

Disease context Colorectal cancer Disease context came from Normalization rules.
Likely case group Colorectal cancer 36 samples
Likely control group Normal tissue 18 samples

Ranking Facts

Supporting evidence

Comparison: Tumor vs unmatched normal. Specimen: Tissue. Comparison suitability: 100%.
Prioritized assay: bulk RNA-seq is the active assay expectation.
Interpreted disease metadata: Colorectal cancer.
Processed data is available for downstream review.
External evidence: Expression Atlas curated experiment link is available.
External evidence: PubMed links 19 publications; 18 DOIs available: PMID 25049118, PMID 26109429, PMID 27152521, PMID 31236000, PMID 31578316.
Publication context: A nineteen gene-based risk score classifier predicts prognosis of colorectal cancer patients.. Molecular oncology, 2014. PMID 25049118. DOI 10.1016/j.molonc.2014.06.016.
Publication context: Genome-wide mutation profiles of colorectal tumors and associated liver metastases at the exome and transcriptome levels.. Oncotarget, 2015. PMID 26109429. DOI 10.18632/oncotarget.4246.
Publication context: Complex Behavior of ALDH1A1 and IGFBP1 in Liver Metastasis from a Colorectal Cancer.. PloS one, 2016. PMID 27152521. DOI 10.1371/journal.pone.0155160.
Publication context: 16 additional linked PubMed publications are available.

Dataset Warnings

No dataset warnings

Normalized Fields

311 fields

Field Value Source Derived by Confidence Evidence Reason

anatomical_source colon GSM1228184 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228185 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228186 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228187 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228188 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228189 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228190 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228191 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228192 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228193 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228194 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228195 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228196 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228197 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228198 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228199 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228200 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228201 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal tissue: primary colorectal cancer sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228202 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228203 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228204 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228205 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228206 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228207 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228208 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228209 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228210 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228211 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228212 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228213 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228214 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228215 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228216 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228217 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228218 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1228219 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colonic tissue: normal-looking surrounding colonic epithelium sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228220 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228221 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228222 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228223 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228224 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228225 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228226 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228227 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228228 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228229 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228230 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228231 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228232 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228233 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228234 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228235 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228236 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

anatomical_source liver GSM1228237 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence liver tissue: metastatic colorectal cancer to the liver sample-anatomical-source-v1 sample-local anatomical source

assay_type bulk RNA-seq GSE50760 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence bulk rna-seq dataset_accession: GSE50760 dataset_title: Gene expression profiling study by RNA-seq in colorectal cancer organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... keyword match keyword match: bulk rna-seq

assay_type bulk RNA-seq GSM1228184 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228185 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228186 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228187 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228188 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228189 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228190 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228191 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228192 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228193 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228194 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228195 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228196 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228197 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228198 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228199 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228200 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228201 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228202 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228203 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228204 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228205 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228206 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228207 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228208 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228209 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228210 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228211 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228212 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228213 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228214 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228215 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228216 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228217 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228218 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228219 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228220 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228221 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228222 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228223 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228224 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228225 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228226 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228227 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228228 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228229 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228230 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228231 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228232 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228233 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228234 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228235 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228236 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

assay_type bulk RNA-seq GSM1228237 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed by agarose gel electrophoresis and ethidium bromide staining, followed by visual examination under ultraviolet light.; Sequencing library was prepared using TruSeq RNA Sample Preparation kit v2 (Illumina, CA, USA) according to the manufacturer’s protocols. Briefly, mRNA was purified from total RNA using poly-T oligo-attached magnetic beads, fragmented, and converted into cDNAs. Then, adapters were ligated and the fragments were amplified on a PCR.; Base calling was performed by Illumina Genome Studio(V2010.1).; A reference genome sequence data of Homo sapiens was obtained from University of California Santa Cruz (UCSC) Genome Browser Gateway (assembly ID: hg19). Reference genome index was built by using bowtie2-build component of Bowtie2 (ver. 2.0, http://bowtie-bio.sourceforge.net/bowtie2) and SAMtools (ver. 0.1.18, http://samtools.sourceforge.net/).; To estimate average and standard deviation of fragment size of paired-end reads, reference transcriptome was generated by MakeTranscriptome component of USeq tool (ver. 8.4.4, http://useq.sourceforge.net/). Then, generated reference transcriptome was indexed by Novoindex followed by reads mapping to transcriptome and measurements of average and standard deviation of fragment size in paired-end reads using Novoalign provided by Novocraft software (ver. 2.8.3, http://www.novocraft.com/). Tophat2 was applied to tissue samples for mapping reads to reference genome and estimated average and standard deviation of fragment size of each sample were used as parameters of Tophat2.; The fragments  per  kilobase  of  transcript  per  million  fragments  mapped (FPKM) of each sample was estimated by Cufflinks software (V2.0.2).; Genome_build: hg19; Supplementary_files_format_and_content: tab-delimited text format with FPFM values; RNA-Seq assay_evidence_text: Total RNA was isolated by RNeasy Mini Kit (Qiagen, CA, USA), according to the manufacturer's protocol. The quality and integrity of the RNA were confirmed b... geo-sample-snapshot-evidence-v5 sample snapshot evidence

disease colorectal cancer GSE50760 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence crc dataset_accession: GSE50760 dataset_title: Gene expression profiling study by RNA-seq in colorectal cancer organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... controlled vocabulary controlled vocabulary disease match: crc

disease colorectal cancer GSM1228184 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_2-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228185 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_3-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228186 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_5-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228187 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_6-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228188 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_7-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228189 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_8-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228190 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_9-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228191 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_10-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228192 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_12-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228193 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_13-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228194 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_17-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228195 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_18-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228196 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_19-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228197 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_20-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228198 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_21-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228199 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_22-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228200 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_23-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228201 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer primary colorectal cancer AMC_24-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228220 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_2-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228221 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_3-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228222 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_5-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228223 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_6-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228224 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_7-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228225 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_8-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228226 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_9-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228227 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_10-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228228 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_12-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228229 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_13-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228230 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_17-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228231 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_18-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228232 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_19-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228233 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_20-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228234 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_21-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228235 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_22-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228236 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_23-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

disease colorectal cancer GSM1228237 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colorectal cancer metastasized cancer AMC_24-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary disease match: colorectal cancer

organism Homo sapiens GSE50760 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence homo sapiens dataset_accession: GSE50760 dataset_title: Gene expression profiling study by RNA-seq in colorectal cancer organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... keyword match keyword match: homo sapiens

organism Homo sapiens GSM1228184 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228185 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228186 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228187 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228188 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228189 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228190 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228191 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228192 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228193 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228194 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228195 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228196 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228197 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228198 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228199 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228200 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228201 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228202 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228203 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228204 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228205 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228206 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228207 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228208 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228209 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228210 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228211 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228212 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228213 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228214 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228215 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228216 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228217 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228218 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228219 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228220 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228221 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228222 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228223 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228224 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228225 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228226 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228227 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228228 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228229 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228230 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228231 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228232 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228233 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228234 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228235 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228236 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

organism Homo sapiens GSM1228237 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence organism_evidence_text: Homo sapiens organism_evidence_text: Homo sapiens geo-sample-snapshot-evidence-v5 sample snapshot evidence

sample_type normal tissue GSM1228202 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_2-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228203 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_3-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228204 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_5-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228205 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_6-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228206 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_7-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228207 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_8-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228208 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_9-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228209 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_10-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228210 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_12-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228211 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_13-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228212 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_17-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228213 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_18-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228214 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_19-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228215 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_20-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228216 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_21-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228217 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_22-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228218 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_23-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM1228219 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal normal colon AMC_24-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample GSM1228220 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_2-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228221 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_3-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228222 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_5-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228223 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_6-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228224 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_7-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228225 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_8-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228226 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_9-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228227 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_10-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228228 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_12-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228229 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_13-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228230 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_17-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228231 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_18-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228232 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_19-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228233 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_20-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228234 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_21-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228235 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_22-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228236 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_23-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

sample_type tumor sample GSM1228237 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence metastatic metastasized cancer AMC_24-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary sample type match: metastatic

tissue colon GSE50760 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon dataset_accession: GSE50760 dataset_title: Gene expression profiling study by RNA-seq in colorectal cancer organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... controlled vocabulary controlled vocabulary tissue match: colon

tissue liver GSE50760 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver dataset_accession: GSE50760 dataset_title: Gene expression profiling study by RNA-seq in colorectal cancer organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228184 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_2-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228185 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_3-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228186 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_5-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228187 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_6-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228188 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_7-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228189 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_8-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228190 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_9-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228191 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_10-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228192 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_12-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228193 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_13-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228194 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_17-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228195 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_18-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228196 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_19-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228197 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_20-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228198 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_21-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228199 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_22-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228200 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_23-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228201 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal primary colorectal cancer AMC_24-1 primary colorectal cancer tissue: primary colorectal cancer; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue colon GSM1228202 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_2-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228203 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_3-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228204 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_5-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228205 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_6-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228206 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_7-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228207 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_8-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228208 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_9-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228209 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_10-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228210 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_12-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228211 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_13-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228212 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_17-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228213 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_18-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228214 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_19-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228215 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_20-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228216 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_21-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228217 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_22-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228218 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_23-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228219 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon normal colon AMC_24-2 normal colon tissue: normal-looking surrounding colonic epithelium; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1228220 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_2-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228220 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_2-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228221 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_3-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228221 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_3-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228222 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_5-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228222 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_5-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228223 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_6-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228223 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_6-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228224 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_7-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228224 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_7-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228225 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_8-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228225 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_8-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228226 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_9-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228226 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_9-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228227 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_10-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228227 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_10-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228228 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_12-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228228 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_12-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228229 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_13-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228229 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_13-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228230 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_17-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228230 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_17-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228231 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_18-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228231 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_18-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228232 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_19-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228232 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_19-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228233 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_20-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228233 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_20-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228234 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_21-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228234 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_21-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228235 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_22-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228235 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_22-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228236 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_23-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228236 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_23-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

tissue colon GSM1228237 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence colorectal metastasized cancer AMC_24-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: colorectal

tissue liver GSM1228237 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence liver metastasized cancer AMC_24-3 metastasized cancer tissue: metastatic colorectal cancer to the liver; ajcc stage: Stage IV controlled vocabulary controlled vocabulary tissue match: liver

Sample Group Preview

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Study totals: Case 36 | Control 18 | Unassigned 0 | Excluded 0 | Ambiguous 0 54 rows shown

Group	Role	Accession	Title	Source / characteristics	Reason
Colorectal cancer	Case	GSM1228184	Primary colorectal cancer AMC_2-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228185	Primary colorectal cancer AMC_3-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228186	Primary colorectal cancer AMC_5-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228187	Primary colorectal cancer AMC_6-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228188	Primary colorectal cancer AMC_7-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228189	Primary colorectal cancer AMC_8-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228190	Primary colorectal cancer AMC_9-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228191	Primary colorectal cancer AMC_10-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228192	Primary colorectal cancer AMC_12-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228193	Primary colorectal cancer AMC_13-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228194	Primary colorectal cancer AMC_17-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228195	Primary colorectal cancer AMC_18-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228196	Primary colorectal cancer AMC_19-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228197	Primary colorectal cancer AMC_20-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228198	Primary colorectal cancer AMC_21-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228199	Primary colorectal cancer AMC_22-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228200	Primary colorectal cancer AMC_23-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Colorectal cancer	Case	GSM1228201	Primary colorectal cancer AMC_24-1	Primary colorectal cancer Tissue: Primary colorectal cancer; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228220	Metastasized cancer AMC_2-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228221	Metastasized cancer AMC_3-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228222	Metastasized cancer AMC_5-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228223	Metastasized cancer AMC_6-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228224	Metastasized cancer AMC_7-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228225	Metastasized cancer AMC_8-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228226	Metastasized cancer AMC_9-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228227	Metastasized cancer AMC_10-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228228	Metastasized cancer AMC_12-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228229	Metastasized cancer AMC_13-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228230	Metastasized cancer AMC_17-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228231	Metastasized cancer AMC_18-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228232	Metastasized cancer AMC_19-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228233	Metastasized cancer AMC_20-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228234	Metastasized cancer AMC_21-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228235	Metastasized cancer AMC_22-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228236	Metastasized cancer AMC_23-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Tumor sample	Case	GSM1228237	Metastasized cancer AMC_24-3	Metastasized cancer Tissue: Metastatic colorectal cancer to the liver; Ajcc stage: Stage IV	Case marker detected.
Normal tissue	Control	GSM1228202	Normal colon AMC_2-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228203	Normal colon AMC_3-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228204	Normal colon AMC_5-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228205	Normal colon AMC_6-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228206	Normal colon AMC_7-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228207	Normal colon AMC_8-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228208	Normal colon AMC_9-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228209	Normal colon AMC_10-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228210	Normal colon AMC_12-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228211	Normal colon AMC_13-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228212	Normal colon AMC_17-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228213	Normal colon AMC_18-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228214	Normal colon AMC_19-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228215	Normal colon AMC_20-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228216	Normal colon AMC_21-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228217	Normal colon AMC_22-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228218	Normal colon AMC_23-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.
Normal tissue	Control	GSM1228219	Normal colon AMC_24-2	Normal colon Tissue: Normal-looking surrounding colonic epithelium; Ajcc stage: Stage IV	Sample-local control marker detected.

Use as Discovery Cohort

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Carry Siftome's disease, organism, specimen, assay, data type, and accession into a validation project. Uncertain fields remain Unknown.

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Use as Discovery Cohort