mRNA and small RNA associated with Crohn's disease behavior [RNA-Seq]

Whole-study status Not suitable

Dataset does not meet the current suitability threshold.

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

Selected cohort requirements

Samples meeting selected requirements: 0 cases / 0 controls

20 case / 13 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: 33 samples
Specimen: Biopsy
Reported/interpreted study design: Disease/model vs control Design classification does not establish patient pairs.

Comparison type: Tumor vs normal
Contributors: Sheikh SZ, Sethupathy P, Furey TS, Peck BC, Weiser M, Peck B
Contact name: Bailey Peck
Submission date: 2015-02-23
Last update: 2019-05-15
Organization: University of North Carolina at Chapel Hill
Department: Genetics
Public date: 2015-07-15
Experiment types: Expression profiling by high throughput sequencing
Platforms: GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Series type: SubSeries
SubSeries: Not available
BioProject: PRJNA276116

Summary

There is a need for reliable prognostic markers that can guide therapeutic intervention in Crohn’s disease (CD). We examined whether different behavioral phenotypes in CD can be classified based on colonic miRNA or mRNA expression and if miRNAs have prognostic utility for CD. We perform high-throughput sequencing of small RNA and mRNA isolated from colon tissue from CD patients and non-IBD (NIBD) controls. To identify miRNA and genes associated with specific behavioral phenotypes of CD, patients were stratified according to disease behavior (non-stricturing, non-penetrating; stricturing; penetrating) and compared miRNA profiles in each class with those of the NIBD group. Using a novel statistical simulation approach applied to colonic RNA-seq data for CD patients and NIBD controls, we identify at drivers of gene expression profiles associated with CD.

Overall design

Macroscopically non-inflamed colon tissue from well-characterized Crohn's disease patients and normal controls were obtained. Small RNA-seq and RNA-seq were performed on these samples. Additionally, we investigated the effect of inflammation on miRNA expression by performing small RNA-seq on matched colon samples obtained from macroscopically inflamed regions from a subset (six) of these patients with Crohn's Disease.

Source Evidence

4 sources

Source	Contribution	Status
GEO	Original dataset metadata, sample metadata, source links, and GEO data availability flags. Sample records 33 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-66207	Available
PubMed	Primary GEO citations and related PubMed articles that mention this dataset. 3 linked publications 3 DOIs Primary publication MicroRNAs Classify Different Disease Behavior Phenotypes of Crohn's Disease and May Have Prognostic Utility. Inflammatory bowel diseases, 2015 PubMed DOI Related publications Identification and multimodal characterization of a specialized epithelial cell type associated with Crohn's disease. Nature communications, 2024 PubMed DOI An alternative splicing signature in human Crohn's disease. BMC gastroenterology, 2021 PubMed DOI	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

Review before analysis

97% 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

7/10 pts

Warnings are present, but none are critical blockers.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

Secondary RNA assay context should be analyzed separately from ordinary bulk RNA-seq.

Next Steps

Review blockers and update sample grouping or dataset selection before analysis.

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

Bioinformatician review required

Ask a bioinformatician to review grouping, count availability, exclusions, and design before DE.

Analysis readiness has blockers that must be resolved before DE.

Assay context may require expert handling before DESeq2-style analysis.

Why This Is Ranked Here

Tumor vs normal

Not suitable Dataset does not meet the current suitability threshold.

Applied Review Decisions

No active review decisions affect this ranking.

Derived Classifications

Disease context Crohn's disease, colorectal cancer, inflammatory bowel disease Disease context came from Normalization rules.
Likely case group Inflamed tissue 20 samples
Likely control group Mixed controls 13 samples

Ranking Facts

Supporting evidence

Comparison: Disease/model vs control. Specimen: Biopsy. Comparison suitability: 0%.
Prioritized assay: bulk RNA-seq is the active assay expectation.
Interpreted disease metadata: Colorectal cancer, Crohn's disease, Inflammatory bowel disease.
Processed data is available for downstream review.
External evidence: Expression Atlas curated experiment link is available.
External evidence: PubMed links 3 publications; 3 DOIs available: PMID 26164662, PMID 34749666, PMID 39169060.
Publication context: MicroRNAs Classify Different Disease Behavior Phenotypes of Crohn's Disease and May Have Prognostic Utility.. Inflammatory bowel diseases, 2015. PMID 26164662. DOI 10.1097/MIB.0000000000000478.
Publication context: An alternative splicing signature in human Crohn's disease.. BMC gastroenterology, 2021. PMID 34749666. DOI 10.1186/s12876-021-02001-2.
Publication context: Identification and multimodal characterization of a specialized epithelial cell type associated with Crohn's disease.. Nature communications, 2024. PMID 39169060. DOI 10.1038/s41467-024-51580-7.

Cautions

Disease/control design without a tumor/normal comparison is outside tumor/normal triage.
Small RNA, miRNA, circRNA, or extracellular-vesicle RNA context downgraded for primary mRNA tissue ranking.
Overall score capped because comparison suitability is weak for the selected search intent.
Overall score capped because secondary RNA assays are not primary mRNA tissue RNA-seq.
Comparison suitability score is below the Phase 1 recommended threshold.

Dataset Warnings

Multiple sample type labels or exclusion flags were detected.
Secondary RNA assay context such as small RNA, miRNA, circRNA, or non-coding RNA was detected.

Normalized Fields

150 fields

Field Value Source Derived by Confidence Evidence Reason

anatomical_source colon GSM1616912 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616913 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616914 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616915 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616916 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616917 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616918 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616919 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616920 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616921 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616922 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616923 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616924 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616925 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616926 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616927 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616928 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616929 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616930 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616931 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616932 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616933 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616934 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616935 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616936 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616937 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616938 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616939 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616940 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616941 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616942 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616943 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM1616944 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: Colon sample-anatomical-source-v1 sample-local anatomical source

assay_type bulk RNA-seq GSE66207 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence bulk rna-seq dataset_accession: GSE66207 dataset_title: mRNA and small RNA associated with Crohn's disease behavior [RNA-Seq] organism: Homo sapiens assay_type: bulk RNA-seq processed_data_a... keyword match keyword match: bulk rna-seq

collection_method biopsy GSM1616932 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy Normal colon biopsy, female age 53 [RNA-Seq, 22_NIBD_NI] Colon age: 53; Sex: female; disease: Normal; disease_stage: NA; inflamed: No; montreal classification: NA controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM1616934 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy Normal colon biopsy acquired during surgery for diverticulitis,female age 60 [RNA-Seq, 25_NIBD_NI] Colon age: 60; Sex: female; disease: Normal, diverticulitis; disease_stage: NA... controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM1616936 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy Normal colon biopsy acquired during surgery for colon cancer, female age 82 [RNA-Seq, 30_NIBD_NI] Colon age: 82; Sex: female; disease: Normal, Colon cancer; disease_stage: NA; i... controlled vocabulary controlled vocabulary collection method match: biopsy

control_type healthy control GSM1616940 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence normal control Normal colon acquired during surgery for large polyp, male age 65 [RNA-Seq, 42_NIBD_NI] Colon age: 65; Sex: male; disease: Normal control, large polyp; disease_stage: NA; inflam... controlled vocabulary controlled vocabulary control type match: normal control

disease Crohn's disease GSE66207 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease dataset_accession: GSE66207 dataset_title: mRNA and small RNA associated with Crohn's disease behavior [RNA-Seq] organism: Homo sapiens assay_type: bulk RNA-seq processed_data_a... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease inflammatory bowel disease GSE66207 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence ibd dataset_accession: GSE66207 dataset_title: mRNA and small RNA associated with Crohn's disease behavior [RNA-Seq] organism: Homo sapiens assay_type: bulk RNA-seq processed_data_a... controlled vocabulary controlled vocabulary disease match: ibd

disease Crohn's disease GSM1616912 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B2/stricturing Crohn's disease [RNA-Seq, 20_CD_NI_B2] Colon age: 15; Sex: male; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification: A... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616913 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B2/stricturing Crohn's disease [RNA-Seq, 21_CD_NI_B2] Colon age: 51; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616914 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 29_CD_NI_B3] Colon age: 59; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616915 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B2/stricturing Crohn's disease [RNA-Seq, 51_CD_NI_B2] Colon age: 30; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616916 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 54_CD_NI_B1] Colon age: 20; Sex: male; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetrating; ... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616917 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 62_CD_NI_B3] Colon age: 45; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616918 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 63_CD_NI_B1] Colon age: 49; Sex: male; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetrating; ... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616919 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 64_CD_NI_B3] Colon age: 49; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616920 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 405_CD_NI_B1] Colon age: 56; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616921 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 407_CD_NI_B3] Colon age: 43; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616922 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 408_CD_NI_B1] Colon age: 23; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616923 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 413_CD_NI_B1] Colon age: 32; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616924 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B2/stricturing Crohn's disease [RNA-Seq, 420_CD_NI_B2] Colon age: 37; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616925 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B2/stricturing Crohn's disease [RNA-Seq, 422_CD_NI_B2] Colon age: 21; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616926 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 424_CD_NI_B3] Colon age: 34; Sex: male; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616927 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 429_CD_NI_B1] Colon age: 25; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616928 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 431_CD_NI_B1] Colon age: 20; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616929 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 434_CD_NI_B3] Colon age: 31; Sex: male; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616930 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B2/stricturing Crohn's disease [RNA-Seq, 440_CD_NI_B2] Colon age: 76; Sex: male; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1616931 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease B3/penetrating Crohn's disease [RNA-Seq, 450_CD_NI_B3] Colon age: 28; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease colorectal cancer GSM1616933 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon cancer Normal colon acquired during Hartmann reversal after colon cancer, male age 52 [RNA-Seq, 23_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Hartmann reversal after colon can... controlled vocabulary controlled vocabulary disease match: colon cancer

disease colorectal cancer GSM1616936 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon cancer Normal colon biopsy acquired during surgery for colon cancer, female age 82 [RNA-Seq, 30_NIBD_NI] Colon age: 82; Sex: female; disease: Normal, Colon cancer; disease_stage: NA; i... controlled vocabulary controlled vocabulary disease match: colon cancer

disease colorectal cancer GSM1616937 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon cancer Normal colon acquired during surgery for colon cancer, male age 44 [RNA-Seq, 32_NIBD_NI] Colon age: 44; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary disease match: colon cancer

disease colorectal cancer GSM1616939 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon cancer Normal colon acquired during surgery for colon cancer, male age 52 [RNA-Seq, 39_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary disease match: colon cancer

organism Homo sapiens GSE66207 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence homo sapiens dataset_accession: GSE66207 dataset_title: mRNA and small RNA associated with Crohn's disease behavior [RNA-Seq] organism: Homo sapiens assay_type: bulk RNA-seq processed_data_a... keyword match keyword match: homo sapiens

primary_tissue primary tissue GSM1616932 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy Normal colon biopsy, female age 53 [RNA-Seq, 22_NIBD_NI] Colon age: 53; Sex: female; disease: Normal; disease_stage: NA; inflamed: No; montreal classification: NA controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM1616934 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy Normal colon biopsy acquired during surgery for diverticulitis,female age 60 [RNA-Seq, 25_NIBD_NI] Colon age: 60; Sex: female; disease: Normal, diverticulitis; disease_stage: NA... controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM1616936 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy Normal colon biopsy acquired during surgery for colon cancer, female age 82 [RNA-Seq, 30_NIBD_NI] Colon age: 82; Sex: female; disease: Normal, Colon cancer; disease_stage: NA; i... controlled vocabulary controlled vocabulary primary tissue match: biopsy

sample_type inflamed tissue GSM1616912 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B2/stricturing Crohn's disease [RNA-Seq, 20_CD_NI_B2] Colon age: 15; Sex: male; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification: A... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616913 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B2/stricturing Crohn's disease [RNA-Seq, 21_CD_NI_B2] Colon age: 51; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616914 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 29_CD_NI_B3] Colon age: 59; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616915 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B2/stricturing Crohn's disease [RNA-Seq, 51_CD_NI_B2] Colon age: 30; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616916 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 54_CD_NI_B1] Colon age: 20; Sex: male; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetrating; ... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616917 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 62_CD_NI_B3] Colon age: 45; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616918 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 63_CD_NI_B1] Colon age: 49; Sex: male; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetrating; ... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616919 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 64_CD_NI_B3] Colon age: 49; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616920 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 405_CD_NI_B1] Colon age: 56; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616921 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 407_CD_NI_B3] Colon age: 43; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616922 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 408_CD_NI_B1] Colon age: 23; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616923 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 413_CD_NI_B1] Colon age: 32; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616924 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B2/stricturing Crohn's disease [RNA-Seq, 420_CD_NI_B2] Colon age: 37; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616925 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B2/stricturing Crohn's disease [RNA-Seq, 422_CD_NI_B2] Colon age: 21; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616926 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 424_CD_NI_B3] Colon age: 34; Sex: male; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616927 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 429_CD_NI_B1] Colon age: 25; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616928 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 431_CD_NI_B1] Colon age: 20; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616929 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 434_CD_NI_B3] Colon age: 31; Sex: male; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616930 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B2/stricturing Crohn's disease [RNA-Seq, 440_CD_NI_B2] Colon age: 76; Sex: male; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616931 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed B3/penetrating Crohn's disease [RNA-Seq, 450_CD_NI_B3] Colon age: 28; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type inflamed tissue GSM1616932 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon biopsy, female age 53 [RNA-Seq, 22_NIBD_NI] Colon age: 53; Sex: female; disease: Normal; disease_stage: NA; inflamed: No; montreal classification: NA controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616932 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon biopsy, female age 53 [RNA-Seq, 22_NIBD_NI] Colon age: 53; Sex: female; disease: Normal; disease_stage: NA; inflamed: No; montreal classification: NA controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616933 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during Hartmann reversal after colon cancer, male age 52 [RNA-Seq, 23_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Hartmann reversal after colon can... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616933 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during Hartmann reversal after colon cancer, male age 52 [RNA-Seq, 23_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Hartmann reversal after colon can... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616934 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon biopsy acquired during surgery for diverticulitis,female age 60 [RNA-Seq, 25_NIBD_NI] Colon age: 60; Sex: female; disease: Normal, diverticulitis; disease_stage: NA... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616934 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon biopsy acquired during surgery for diverticulitis,female age 60 [RNA-Seq, 25_NIBD_NI] Colon age: 60; Sex: female; disease: Normal, diverticulitis; disease_stage: NA... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616935 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for diverticulitis, male age 70 [RNA-Seq, 27_NIBD_NI] Colon age: 70; Sex: male; disease: Normal, diverticulitis; disease_stage: NA; inflamed... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616935 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for diverticulitis, male age 70 [RNA-Seq, 27_NIBD_NI] Colon age: 70; Sex: male; disease: Normal, diverticulitis; disease_stage: NA; inflamed... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616936 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon biopsy acquired during surgery for colon cancer, female age 82 [RNA-Seq, 30_NIBD_NI] Colon age: 82; Sex: female; disease: Normal, Colon cancer; disease_stage: NA; i... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616936 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon biopsy acquired during surgery for colon cancer, female age 82 [RNA-Seq, 30_NIBD_NI] Colon age: 82; Sex: female; disease: Normal, Colon cancer; disease_stage: NA; i... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616937 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for colon cancer, male age 44 [RNA-Seq, 32_NIBD_NI] Colon age: 44; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616937 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for colon cancer, male age 44 [RNA-Seq, 32_NIBD_NI] Colon age: 44; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616938 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for colonic inertia, female age 41 [RNA-Seq, 36_NIBD_NI] Colon age: 41; Sex: female; disease: Normal, colonic inertia, TI submucosal hemorrh... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616938 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for colonic inertia, female age 41 [RNA-Seq, 36_NIBD_NI] Colon age: 41; Sex: female; disease: Normal, colonic inertia, TI submucosal hemorrh... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616939 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for colon cancer, male age 52 [RNA-Seq, 39_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616939 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for colon cancer, male age 52 [RNA-Seq, 39_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616940 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for large polyp, male age 65 [RNA-Seq, 42_NIBD_NI] Colon age: 65; Sex: male; disease: Normal control, large polyp; disease_stage: NA; inflam... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616940 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for large polyp, male age 65 [RNA-Seq, 42_NIBD_NI] Colon age: 65; Sex: male; disease: Normal control, large polyp; disease_stage: NA; inflam... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616941 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for colonic inertia, female age 45 [RNA-Seq, 43_NIBD_NI] Colon age: 45; Sex: female; disease: Normal, colonic inertia; disease_stage: NA; in... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616941 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for colonic inertia, female age 45 [RNA-Seq, 43_NIBD_NI] Colon age: 45; Sex: female; disease: Normal, colonic inertia; disease_stage: NA; in... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616942 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for adenoma, male age 70 [RNA-Seq, 48_NIBD_NI] Colon age: 70; Sex: male; disease: Normal, Adenoma; disease_stage: NA; inflamed: No; montreal... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616942 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for adenoma, male age 70 [RNA-Seq, 48_NIBD_NI] Colon age: 70; Sex: male; disease: Normal, Adenoma; disease_stage: NA; inflamed: No; montreal... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616943 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for adenoma, male age 62 [RNA-Seq, 49_NIBD_NI] Colon age: 62; Sex: male; disease: Normal, Adenoma; disease_stage: NA; inflamed: No; montreal... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616943 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for adenoma, male age 62 [RNA-Seq, 49_NIBD_NI] Colon age: 62; Sex: male; disease: Normal, Adenoma; disease_stage: NA; inflamed: No; montreal... controlled vocabulary controlled vocabulary sample type match: normal

sample_type inflamed tissue GSM1616944 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence inflamed Normal colon acquired during surgery for small intestine neuroendocrine tumor, female age 49 [RNA-Seq, 50_NIBD_NI] Colon age: 49; Sex: female; disease: Normal, SI Neuroendocrine... controlled vocabulary controlled vocabulary sample type match: inflamed

sample_type normal tissue GSM1616944 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal Normal colon acquired during surgery for small intestine neuroendocrine tumor, female age 49 [RNA-Seq, 50_NIBD_NI] Colon age: 49; Sex: female; disease: Normal, SI Neuroendocrine... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample GSM1616944 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence tumor Normal colon acquired during surgery for small intestine neuroendocrine tumor, female age 49 [RNA-Seq, 50_NIBD_NI] Colon age: 49; Sex: female; disease: Normal, SI Neuroendocrine... controlled vocabulary controlled vocabulary sample type match: tumor

tissue colon GSE66207 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon dataset_accession: GSE66207 dataset_title: mRNA and small RNA associated with Crohn's disease behavior [RNA-Seq] organism: Homo sapiens assay_type: bulk RNA-seq processed_data_a... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616912 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B2/stricturing Crohn's disease [RNA-Seq, 20_CD_NI_B2] Colon age: 15; Sex: male; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification: A... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616913 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B2/stricturing Crohn's disease [RNA-Seq, 21_CD_NI_B2] Colon age: 51; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616914 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 29_CD_NI_B3] Colon age: 59; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616915 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B2/stricturing Crohn's disease [RNA-Seq, 51_CD_NI_B2] Colon age: 30; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616916 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 54_CD_NI_B1] Colon age: 20; Sex: male; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetrating; ... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616917 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 62_CD_NI_B3] Colon age: 45; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616918 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 63_CD_NI_B1] Colon age: 49; Sex: male; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetrating; ... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616919 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 64_CD_NI_B3] Colon age: 49; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification:... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616920 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 405_CD_NI_B1] Colon age: 56; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616921 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 407_CD_NI_B3] Colon age: 43; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616922 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 408_CD_NI_B1] Colon age: 23; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616923 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 413_CD_NI_B1] Colon age: 32; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616924 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B2/stricturing Crohn's disease [RNA-Seq, 420_CD_NI_B2] Colon age: 37; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616925 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B2/stricturing Crohn's disease [RNA-Seq, 422_CD_NI_B2] Colon age: 21; Sex: female; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616926 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 424_CD_NI_B3] Colon age: 34; Sex: male; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616927 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 429_CD_NI_B1] Colon age: 25; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616928 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 431_CD_NI_B1] Colon age: 20; Sex: female; disease: Crohn's Disease; disease_stage: B1/non-strictuing, non-penetratin... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616929 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 434_CD_NI_B3] Colon age: 31; Sex: male; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616930 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B2/stricturing Crohn's disease [RNA-Seq, 440_CD_NI_B2] Colon age: 76; Sex: male; disease: Crohn's Disease; disease_stage: B2/stricturing; inflamed: No; montreal classification: ... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616931 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon B3/penetrating Crohn's disease [RNA-Seq, 450_CD_NI_B3] Colon age: 28; Sex: female; disease: Crohn's Disease; disease_stage: B3/penetrating; inflamed: No; montreal classification... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616932 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon biopsy, female age 53 [RNA-Seq, 22_NIBD_NI] Colon age: 53; Sex: female; disease: Normal; disease_stage: NA; inflamed: No; montreal classification: NA controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616933 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during Hartmann reversal after colon cancer, male age 52 [RNA-Seq, 23_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Hartmann reversal after colon can... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616934 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon biopsy acquired during surgery for diverticulitis,female age 60 [RNA-Seq, 25_NIBD_NI] Colon age: 60; Sex: female; disease: Normal, diverticulitis; disease_stage: NA... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616935 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for diverticulitis, male age 70 [RNA-Seq, 27_NIBD_NI] Colon age: 70; Sex: male; disease: Normal, diverticulitis; disease_stage: NA; inflamed... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616936 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon biopsy acquired during surgery for colon cancer, female age 82 [RNA-Seq, 30_NIBD_NI] Colon age: 82; Sex: female; disease: Normal, Colon cancer; disease_stage: NA; i... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616937 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for colon cancer, male age 44 [RNA-Seq, 32_NIBD_NI] Colon age: 44; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616938 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for colonic inertia, female age 41 [RNA-Seq, 36_NIBD_NI] Colon age: 41; Sex: female; disease: Normal, colonic inertia, TI submucosal hemorrh... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616939 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for colon cancer, male age 52 [RNA-Seq, 39_NIBD_NI] Colon age: 52; Sex: male; disease: Normal, Colon cancer; disease_stage: NA; inflamed: No... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616940 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for large polyp, male age 65 [RNA-Seq, 42_NIBD_NI] Colon age: 65; Sex: male; disease: Normal control, large polyp; disease_stage: NA; inflam... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616941 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for colonic inertia, female age 45 [RNA-Seq, 43_NIBD_NI] Colon age: 45; Sex: female; disease: Normal, colonic inertia; disease_stage: NA; in... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616942 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for adenoma, male age 70 [RNA-Seq, 48_NIBD_NI] Colon age: 70; Sex: male; disease: Normal, Adenoma; disease_stage: NA; inflamed: No; montreal... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616943 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for adenoma, male age 62 [RNA-Seq, 49_NIBD_NI] Colon age: 62; Sex: male; disease: Normal, Adenoma; disease_stage: NA; inflamed: No; montreal... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM1616944 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon Normal colon acquired during surgery for small intestine neuroendocrine tumor, female age 49 [RNA-Seq, 50_NIBD_NI] Colon age: 49; Sex: female; disease: Normal, SI Neuroendocrine... controlled vocabulary controlled vocabulary tissue match: colon

tissue intestine GSM1616944 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine Normal colon acquired during surgery for small intestine neuroendocrine tumor, female age 49 [RNA-Seq, 50_NIBD_NI] Colon age: 49; Sex: female; disease: Normal, SI Neuroendocrine... controlled vocabulary controlled vocabulary tissue match: intestine

Sample Group Preview

33 rows shown Show Hide

Study totals: Case 20 | Control 13 | Unassigned 0 | Excluded 0 | Ambiguous 0 33 rows shown

Group	Role	Accession	Title	Source / characteristics	Reason
Inflamed tissue	Case	GSM1616912	B2/stricturing Crohn's disease [RNA-Seq, 20_CD_NI_B2]	Colon Age: 15; Sex: Male; Disease: Crohn's Disease; Disease_stage: B2/stricturing; Inflamed: No; Montreal classification: A1L1B2	Case marker detected.
Inflamed tissue	Case	GSM1616913	B2/stricturing Crohn's disease [RNA-Seq, 21_CD_NI_B2]	Colon Age: 51; Sex: Female; Disease: Crohn's Disease; Disease_stage: B2/stricturing; Inflamed: No; Montreal classification: A2L2B2	Case marker detected.
Inflamed tissue	Case	GSM1616914	B3/penetrating Crohn's disease [RNA-Seq, 29_CD_NI_B3]	Colon Age: 59; Sex: Female; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L3B3	Case marker detected.
Inflamed tissue	Case	GSM1616915	B2/stricturing Crohn's disease [RNA-Seq, 51_CD_NI_B2]	Colon Age: 30; Sex: Female; Disease: Crohn's Disease; Disease_stage: B2/stricturing; Inflamed: No; Montreal classification: A2L3B2	Case marker detected.
Inflamed tissue	Case	GSM1616916	B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 54_CD_NI_B1]	Colon Age: 20; Sex: Male; Disease: Crohn's Disease; Disease_stage: B1/non-strictuing, non-penetrating; Inflamed: No; Montreal classification: A1L2B1	Case marker detected.
Inflamed tissue	Case	GSM1616917	B3/penetrating Crohn's disease [RNA-Seq, 62_CD_NI_B3]	Colon Age: 45; Sex: Female; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L3B3	Case marker detected.
Inflamed tissue	Case	GSM1616918	B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 63_CD_NI_B1]	Colon Age: 49; Sex: Male; Disease: Crohn's Disease; Disease_stage: B1/non-strictuing, non-penetrating; Inflamed: No; Montreal classification: A1L3B1	Case marker detected.
Inflamed tissue	Case	GSM1616919	B3/penetrating Crohn's disease [RNA-Seq, 64_CD_NI_B3]	Colon Age: 49; Sex: Female; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L3B3	Case marker detected.
Inflamed tissue	Case	GSM1616920	B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 405_CD_NI_B1]	Colon Age: 56; Sex: Female; Disease: Crohn's Disease; Disease_stage: B1/non-strictuing, non-penetrating; Inflamed: No; Montreal classification: A2L2B1	Case marker detected.
Inflamed tissue	Case	GSM1616921	B3/penetrating Crohn's disease [RNA-Seq, 407_CD_NI_B3]	Colon Age: 43; Sex: Female; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L2B3p	Case marker detected.
Inflamed tissue	Case	GSM1616922	B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 408_CD_NI_B1]	Colon Age: 23; Sex: Female; Disease: Crohn's Disease; Disease_stage: B1/non-strictuing, non-penetrating; Inflamed: No; Montreal classification: A2L2B1	Case marker detected.
Inflamed tissue	Case	GSM1616923	B3/penetrating Crohn's disease [RNA-Seq, 413_CD_NI_B1]	Colon Age: 32; Sex: Female; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L2B1	Case marker detected.
Inflamed tissue	Case	GSM1616924	B2/stricturing Crohn's disease [RNA-Seq, 420_CD_NI_B2]	Colon Age: 37; Sex: Female; Disease: Crohn's Disease; Disease_stage: B2/stricturing; Inflamed: No; Montreal classification: A2L2B2p	Case marker detected.
Inflamed tissue	Case	GSM1616925	B2/stricturing Crohn's disease [RNA-Seq, 422_CD_NI_B2]	Colon Age: 21; Sex: Female; Disease: Crohn's Disease; Disease_stage: B2/stricturing; Inflamed: No; Montreal classification: A1L3B2	Case marker detected.
Inflamed tissue	Case	GSM1616926	B3/penetrating Crohn's disease [RNA-Seq, 424_CD_NI_B3]	Colon Age: 34; Sex: Male; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L3B3	Case marker detected.
Inflamed tissue	Case	GSM1616927	B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 429_CD_NI_B1]	Colon Age: 25; Sex: Female; Disease: Crohn's Disease; Disease_stage: B1/non-strictuing, non-penetrating; Inflamed: No; Montreal classification: A2L3B1	Case marker detected.
Inflamed tissue	Case	GSM1616928	B1/non-strituring, non-penetrating Crohn's disease [RNA-Seq, 431_CD_NI_B1]	Colon Age: 20; Sex: Female; Disease: Crohn's Disease; Disease_stage: B1/non-strictuing, non-penetrating; Inflamed: No; Montreal classification: A1L2B1	Case marker detected.
Inflamed tissue	Case	GSM1616929	B3/penetrating Crohn's disease [RNA-Seq, 434_CD_NI_B3]	Colon Age: 31; Sex: Male; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L3B3	Case marker detected.
Inflamed tissue	Case	GSM1616930	B2/stricturing Crohn's disease [RNA-Seq, 440_CD_NI_B2]	Colon Age: 76; Sex: Male; Disease: Crohn's Disease; Disease_stage: B2/stricturing; Inflamed: No; Montreal classification: A2L3B2	Case marker detected.
Inflamed tissue	Case	GSM1616931	B3/penetrating Crohn's disease [RNA-Seq, 450_CD_NI_B3]	Colon Age: 28; Sex: Female; Disease: Crohn's Disease; Disease_stage: B3/penetrating; Inflamed: No; Montreal classification: A2L1B3	Case marker detected.
Normal tissue	Control	GSM1616932	Normal colon biopsy, female age 53 [RNA-Seq, 22_NIBD_NI]	Colon Age: 53; Sex: Female; Disease: Normal; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616933	Normal colon acquired during Hartmann reversal after colon cancer, male age 52 [RNA-Seq, 23_NIBD_NI]	Colon Age: 52; Sex: Male; Disease: Normal, Hartmann reversal after colon cancer; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616934	Normal colon biopsy acquired during surgery for diverticulitis,female age 60 [RNA-Seq, 25_NIBD_NI]	Colon Age: 60; Sex: Female; Disease: Normal, diverticulitis; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616935	Normal colon acquired during surgery for diverticulitis, male age 70 [RNA-Seq, 27_NIBD_NI]	Colon Age: 70; Sex: Male; Disease: Normal, diverticulitis; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616936	Normal colon biopsy acquired during surgery for colon cancer, female age 82 [RNA-Seq, 30_NIBD_NI]	Colon Age: 82; Sex: Female; Disease: Normal, Colon cancer; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616937	Normal colon acquired during surgery for colon cancer, male age 44 [RNA-Seq, 32_NIBD_NI]	Colon Age: 44; Sex: Male; Disease: Normal, Colon cancer; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616938	Normal colon acquired during surgery for colonic inertia, female age 41 [RNA-Seq, 36_NIBD_NI]	Colon Age: 41; Sex: Female; Disease: Normal, colonic inertia, TI submucosal hemorrhage (but looked inflamed on macro); Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616939	Normal colon acquired during surgery for colon cancer, male age 52 [RNA-Seq, 39_NIBD_NI]	Colon Age: 52; Sex: Male; Disease: Normal, Colon cancer; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Healthy control	Control	GSM1616940	Normal colon acquired during surgery for large polyp, male age 65 [RNA-Seq, 42_NIBD_NI]	Colon Age: 65; Sex: Male; Disease: Normal control, large polyp; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616941	Normal colon acquired during surgery for colonic inertia, female age 45 [RNA-Seq, 43_NIBD_NI]	Colon Age: 45; Sex: Female; Disease: Normal, colonic inertia; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616942	Normal colon acquired during surgery for adenoma, male age 70 [RNA-Seq, 48_NIBD_NI]	Colon Age: 70; Sex: Male; Disease: Normal, Adenoma; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616943	Normal colon acquired during surgery for adenoma, male age 62 [RNA-Seq, 49_NIBD_NI]	Colon Age: 62; Sex: Male; Disease: Normal, Adenoma; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.
Normal tissue	Control	GSM1616944	Normal colon acquired during surgery for small intestine neuroendocrine tumor, female age 49 [RNA-Seq, 50_NIBD_NI]	Colon Age: 49; Sex: Female; Disease: Normal, SI Neuroendocrine tumor; Disease_stage: NA; Inflamed: No; Montreal classification: NA	Sample-local control marker detected.

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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