GSE6731

Genome-wide gene expression differences between Crohn’s and ulcerative colitis from endoscopic pinch biopsies:

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

View matching samples

28 case / 4 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: microarray
Organism: Homo sapiens
Whole-study samples: 36 samples
Specimen: Biopsy
Reported/interpreted study design: Disease/model vs control Design classification does not establish patient pairs.

Comparison type: Tumor vs normal
Contributors: Wu F, Dassopoulos T, Cope L, Maitra A, Brant SR, Harris ML, Bayless TM, Parmigiani G, Chakravarti S
Contact name: Shukti Chakravarti
Submission date: 2007-01-12
Last update: 2018-12-13
Organization: Johns Hopkins University School of Medicine
Department: Medicine
Public date: 2007-03-01
Experiment types: Expression profiling by array
Platforms: GPL8300 [HG_U95Av2] Affymetrix Human Genome U95 Version 2 Array
Series type: Series
SubSeries: Not available
BioProject: PRJNA98959

Summary

Ulcerative colitis (UC) and Crohn’s disease (CD) are inflammatory bowel diseases (IBD) with variable, overlapping clinical features and complex pathophysiologies. To identify pathogenic processes underlying these disease subtypes, using single endoscopic pinch biopsies to estabolish 36 expression profiles, we elucidated gene expression patterns of active and inactive areas of UC and CD, and compared these to infectious colitis and healthy controls. Keywords: RNA

Overall design

To identify pathogenic processes underlying these disease subtypes, using single endoscopic pinch biopsies, we elucidated gene expression patterns of active and inactive areas of UC and CD, and compared these to infectious colitis and healthy controls. An unsupervised classification of a total of 36 samples yielded promising separation between IBD affected, unaffected, non-IBD colitis and normal controls, suggesting distinctive gene expression patterns for each sample type. The Significance Analysis of Microarays (SAM) software to select biologically significant changes in gene expression between groups. The criteria selected for SAM analysis are, a median false discovery rate (FDR) ≤ 0.00001%, fold change >2, and a Log2 mean expression index > 6.64.

Source Evidence

4 sources

Source	Contribution	Status
GEO	Original dataset metadata, sample metadata, source links, and GEO data availability flags. Sample records 36 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-6731	Available
PubMed	Primary GEO citations and related PubMed articles that mention this dataset. 4 linked publications 3 DOIs Primary publication Genome-wide gene expression differences in Crohn's disease and ulcerative colitis from endoscopic pinch biopsies: insights into distinctive pathogenesis. Inflammatory bowel diseases, 2007 PubMed DOI Related publications Identification of useful genes from multiple microarrays for ulcerative colitis diagnosis based on machine learning methods. Scientific reports, 2022 PubMed DOI Identifying hub genes and miRNAs in Crohn's disease by bioinformatics analysis. Frontiers in genetics, 2022 PubMed DOI Bioinformatic analysis of potential candidates for therapy of inflammatory bowel disease. European review for medical and pharmacological sciences, 2015 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

Review before analysis

85% 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

3/15 pts

Unassigned or review-needed samples remain before analysis.

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

4 samples are still unassigned.

Next Steps

Resolve unassigned or review-needed samples in the grouping table.

Analysis Preparation Checklist

4/6 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

Needs review

0 review-needed samples and 4 unassigned samples remain.

Resolve ambiguous and unassigned samples before finalizing the contrast.

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.

One or more samples are unassigned and need manual grouping decisions.

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

Assay differs from search intent Microarray Search intent expects bulk RNA-seq. Assay came from Normalization rules.
Disease context Crohn's disease, inflammatory bowel disease, ulcerative colitis Disease context came from Normalization rules.
Likely case group Crohn's disease 28 samples
Likely control group Normal tissue 4 samples

Intent Interpretation

Downgrade or exclusion reason Downgraded assay: microarray cohorts are separated from the RNA-seq intent. Derived from current-intent ranking reasons.

Ranking Facts

Supporting evidence

Comparison: Disease/model vs control. Specimen: Biopsy. Comparison suitability: 0%.
Interpreted disease metadata: Crohn's disease, Infectious disease or host response, Inflammatory bowel disease, Ulcerative colitis.
Processed data is available for downstream review.
External evidence: Expression Atlas curated experiment link is available.
External evidence: PubMed links 4 publications; 3 DOIs available: PMID 17262812, PMID 26636514, PMID 35705632, PMID 36118873.
Publication context: Genome-wide gene expression differences in Crohn's disease and ulcerative colitis from endoscopic pinch biopsies: insights into distinctive pathogenesis.. Inflammatory bowel diseases, 2007. PMID 17262812. DOI 10.1002/ibd.20110.
Publication context: Bioinformatic analysis of potential candidates for therapy of inflammatory bowel disease.. European review for medical and pharmacological sciences, 2015. PMID 26636514.
Publication context: Identification of useful genes from multiple microarrays for ulcerative colitis diagnosis based on machine learning methods.. Scientific reports, 2022. PMID 35705632. DOI 10.1038/s41598-022-14048-6.
Publication context: 1 additional linked PubMed publications are available.

Cautions

Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
Disease/control design without a tumor/normal comparison is outside tumor/normal triage.
Overall score capped because comparison suitability is weak for the selected search intent.
Comparison suitability score is below the Phase 1 recommended threshold.

Dataset Warnings

Microarray expression context was detected; compare separately from RNA-seq cohorts.
Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Normalized Fields

177 fields

Field Value Source Derived by Confidence Evidence Reason

anatomical_source colon GSM155568 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155569 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155570 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155571 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155572 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155573 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155574 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155575 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155576 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155577 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155578 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155579 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155580 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155581 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155582 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155583 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155584 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155585 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155586 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon with Crohn's disease sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155587 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155588 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155589 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155590 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155591 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155592 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155593 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155594 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155595 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon from adult with UC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155596 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with INF sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155597 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with INF sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155598 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with affected colon from adult with IC sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM155599 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon source_name: colonoscopic biopsy from adult with unaffected colon from adult with IC sample-anatomical-source-v1 sample-local anatomical source

assay_type microarray GSE6731 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence microarray dataset_accession: GSE6731 dataset_title: Genome-wide gene expression differences between Crohn’s and ulcerative colitis from endoscopic pinch biopsies: organism: Homo sapiens a... keyword match keyword match: microarray

collection_method biopsy GSM155564 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N65s2 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155565 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N66s1 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155566 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N69s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155567 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N79s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155568 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-33-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155569 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-49-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155570 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-51-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155571 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-53-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155572 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-58-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155573 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-76-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-1 controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155574 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-76-Aff2 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-2 controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155575 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-33-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155576 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-45-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155577 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-45-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155578 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-48-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155579 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-48-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155580 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-49-un1 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155581 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-51-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155582 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-53-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155583 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-58-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155584 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-59-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155585 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-59-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155586 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-76-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155587 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-32-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155588 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-35-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155589 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-38-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155590 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-55-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155591 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-71-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155592 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-32-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155593 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-33-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155594 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-38-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155595 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-55-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155596 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy INF-156 colonoscopic biopsy from adult with affected colon from adult with INF disease affected colon of an adult with bacterial infectious colitis (INF). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155597 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy INF-157 colonoscopic biopsy from adult with affected colon from adult with INF disease affected colon of an adult with bacterial infectious colitis (INF). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155598 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy IC-44-Aff colonoscopic biopsy from adult with affected colon from adult with IC disease affected colon of an adult with indeterminate colitis (IC). controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM155599 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy IC-44-un colonoscopic biopsy from adult with unaffected colon from adult with IC disease unaffected colon of an adult with indeterminate colitis (IC). controlled vocabulary controlled vocabulary collection method match: biopsy

disease Crohn's disease GSE6731 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease dataset_accession: GSE6731 dataset_title: Genome-wide gene expression differences between Crohn’s and ulcerative colitis from endoscopic pinch biopsies: organism: Homo sapiens a... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease inflammatory bowel disease GSE6731 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence inflammatory bowel dataset_accession: GSE6731 dataset_title: Genome-wide gene expression differences between Crohn’s and ulcerative colitis from endoscopic pinch biopsies: organism: Homo sapiens a... controlled vocabulary controlled vocabulary disease match: inflammatory bowel

disease ulcerative colitis GSE6731 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis dataset_accession: GSE6731 dataset_title: Genome-wide gene expression differences between Crohn’s and ulcerative colitis from endoscopic pinch biopsies: organism: Homo sapiens a... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease Crohn's disease GSM155568 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-33-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155569 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-49-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155570 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-51-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155571 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-53-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155572 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-58-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155573 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-76-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-1 controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155574 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-76-Aff2 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-2 controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155575 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-33-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155576 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-45-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155577 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-45-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155578 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-48-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155579 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-48-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155580 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-49-un1 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155581 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-51-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155582 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-53-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155583 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-58-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155584 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-59-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155585 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-59-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM155586 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease CD-76-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease ulcerative colitis GSM155587 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-32-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155588 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-35-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155589 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-38-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155590 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-55-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155591 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-71-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155592 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-32-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155593 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-33-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155594 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-38-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM155595 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis UC-55-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary disease match: ulcerative colitis

organism Homo sapiens GSE6731 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence homo sapiens dataset_accession: GSE6731 dataset_title: Genome-wide gene expression differences between Crohn’s and ulcerative colitis from endoscopic pinch biopsies: organism: Homo sapiens a... keyword match keyword match: homo sapiens

primary_tissue primary tissue GSM155564 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N65s2 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155565 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N66s1 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155566 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N69s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155567 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy N79s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155568 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-33-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155569 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-49-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155570 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-51-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155571 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-53-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155572 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-58-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155573 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-76-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-1 controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155574 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-76-Aff2 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-2 controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155575 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-33-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155576 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-45-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155577 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-45-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155578 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-48-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155579 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-48-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155580 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-49-un1 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155581 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-51-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155582 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-53-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155583 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-58-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155584 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-59-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155585 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-59-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155586 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy CD-76-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155587 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-32-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155588 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-35-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155589 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-38-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155590 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-55-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155591 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-71-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155592 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-32-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155593 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-33-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155594 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-38-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155595 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy UC-55-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155596 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy INF-156 colonoscopic biopsy from adult with affected colon from adult with INF disease affected colon of an adult with bacterial infectious colitis (INF). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155597 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy INF-157 colonoscopic biopsy from adult with affected colon from adult with INF disease affected colon of an adult with bacterial infectious colitis (INF). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155598 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy IC-44-Aff colonoscopic biopsy from adult with affected colon from adult with IC disease affected colon of an adult with indeterminate colitis (IC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM155599 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy IC-44-un colonoscopic biopsy from adult with unaffected colon from adult with IC disease unaffected colon of an adult with indeterminate colitis (IC). controlled vocabulary controlled vocabulary primary tissue match: biopsy

sample_type normal tissue GSM155564 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal N65s2 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM155565 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal N66s1 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM155566 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal N69s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue GSM155567 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence normal N79s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary sample type match: normal

tissue colon GSM155564 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon N65s2 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155565 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon N66s1 colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155566 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon N69s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155567 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon N79s colonoscopic biopsy from normal adult normal sigmoid colon of adult controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155568 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-33-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155569 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-49-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155570 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-51-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155571 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-53-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155572 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-58-Aff colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155573 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-76-Aff1 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-1 controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155574 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-76-Aff2 colonoscopic biopsy from adult with affected colon with Crohn's disease disease affected colon of an adult with Crohn's disease (CD). Replicate-2 controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155575 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-33-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155576 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-45-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155577 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-45-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155578 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-48-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155579 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-48-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155580 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-49-un1 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155581 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-51-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155582 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-53-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155583 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-58-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155584 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-59-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155585 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-59-un2 colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155586 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon CD-76-un colonoscopic biopsy from adult with unaffected colon with Crohn's disease disease unaffected colon of a adult with Crohn's disease (CD) controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155587 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-32-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155588 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-35-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155589 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-38-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155590 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-55-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155591 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-71-Aff colonoscopic biopsy from adult with affected colon from adult with UC disease affected colon of an adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155592 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-32-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155593 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-33-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155594 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-38-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155595 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon UC-55-un colonoscopic biopsy from adult with unaffected colon from adult with UC disease unaffected colon of a adult with ulcerative colitis (UC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155596 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon INF-156 colonoscopic biopsy from adult with affected colon from adult with INF disease affected colon of an adult with bacterial infectious colitis (INF). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155597 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon INF-157 colonoscopic biopsy from adult with affected colon from adult with INF disease affected colon of an adult with bacterial infectious colitis (INF). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155598 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon IC-44-Aff colonoscopic biopsy from adult with affected colon from adult with IC disease affected colon of an adult with indeterminate colitis (IC). controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM155599 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon IC-44-un colonoscopic biopsy from adult with unaffected colon from adult with IC disease unaffected colon of an adult with indeterminate colitis (IC). controlled vocabulary controlled vocabulary tissue match: colon

Sample Group Preview

36 rows shown Show Hide

Study totals: Case 28 | Control 4 | Unassigned 4 | Excluded 0 | Ambiguous 0 36 rows shown

Group	Role	Accession	Title	Source / characteristics	Reason
Crohn's disease	Case	GSM155568	CD-33-Aff	Colonoscopic biopsy from adult with affected colon with Crohn's disease Disease affected colon of an adult with Crohn's disease (CD).	Case marker detected.
Crohn's disease	Case	GSM155569	CD-49-Aff1	Colonoscopic biopsy from adult with affected colon with Crohn's disease Disease affected colon of an adult with Crohn's disease (CD).	Case marker detected.
Crohn's disease	Case	GSM155570	CD-51-Aff	Colonoscopic biopsy from adult with affected colon with Crohn's disease Disease affected colon of an adult with Crohn's disease (CD).	Case marker detected.
Crohn's disease	Case	GSM155571	CD-53-Aff	Colonoscopic biopsy from adult with affected colon with Crohn's disease Disease affected colon of an adult with Crohn's disease (CD).	Case marker detected.
Crohn's disease	Case	GSM155572	CD-58-Aff	Colonoscopic biopsy from adult with affected colon with Crohn's disease Disease affected colon of an adult with Crohn's disease (CD).	Case marker detected.
Crohn's disease	Case	GSM155573	CD-76-Aff1	Colonoscopic biopsy from adult with affected colon with Crohn's disease Disease affected colon of an adult with Crohn's disease (CD). Replicate-1	Case marker detected.
Crohn's disease	Case	GSM155574	CD-76-Aff2	Colonoscopic biopsy from adult with affected colon with Crohn's disease Disease affected colon of an adult with Crohn's disease (CD). Replicate-2	Case marker detected.
Crohn's disease	Case	GSM155575	CD-33-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155576	CD-45-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155577	CD-45-un2	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155578	CD-48-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155579	CD-48-un2	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155580	CD-49-un1	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155581	CD-51-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155582	CD-53-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155583	CD-58-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155584	CD-59-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155585	CD-59-un2	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Crohn's disease	Case	GSM155586	CD-76-un	Colonoscopic biopsy from adult with unaffected colon with Crohn's disease Disease unaffected colon of a adult with Crohn's disease (CD)	Case marker detected.
Ulcerative colitis	Case	GSM155587	UC-32-Aff	Colonoscopic biopsy from adult with affected colon from adult with UC Disease affected colon of an adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155588	UC-35-Aff	Colonoscopic biopsy from adult with affected colon from adult with UC Disease affected colon of an adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155589	UC-38-Aff	Colonoscopic biopsy from adult with affected colon from adult with UC Disease affected colon of an adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155590	UC-55-Aff	Colonoscopic biopsy from adult with affected colon from adult with UC Disease affected colon of an adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155591	UC-71-Aff	Colonoscopic biopsy from adult with affected colon from adult with UC Disease affected colon of an adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155592	UC-32-un	Colonoscopic biopsy from adult with unaffected colon from adult with UC Disease unaffected colon of a adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155593	UC-33-un	Colonoscopic biopsy from adult with unaffected colon from adult with UC Disease unaffected colon of a adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155594	UC-38-un	Colonoscopic biopsy from adult with unaffected colon from adult with UC Disease unaffected colon of a adult with ulcerative colitis (UC).	Case marker detected.
Ulcerative colitis	Case	GSM155595	UC-55-un	Colonoscopic biopsy from adult with unaffected colon from adult with UC Disease unaffected colon of a adult with ulcerative colitis (UC).	Case marker detected.
Normal tissue	Control	GSM155564	N65s2	Colonoscopic biopsy from normal adult Normal sigmoid colon of adult	Control marker detected.
Normal tissue	Control	GSM155565	N66s1	Colonoscopic biopsy from normal adult Normal sigmoid colon of adult	Control marker detected.
Normal tissue	Control	GSM155566	N69s	Colonoscopic biopsy from normal adult Normal sigmoid colon of adult	Control marker detected.
Normal tissue	Control	GSM155567	N79s	Colonoscopic biopsy from normal adult Normal sigmoid colon of adult	Control marker detected.
Unassigned	Unassigned	GSM155596	INF-156	Colonoscopic biopsy from adult with affected colon from adult with INF Disease affected colon of an adult with bacterial infectious colitis (INF).	No explicit case or control marker detected.
Unassigned	Unassigned	GSM155597	INF-157	Colonoscopic biopsy from adult with affected colon from adult with INF Disease affected colon of an adult with bacterial infectious colitis (INF).	No explicit case or control marker detected.
Unassigned	Unassigned	GSM155598	IC-44-Aff	Colonoscopic biopsy from adult with affected colon from adult with IC Disease affected colon of an adult with indeterminate colitis (IC).	No explicit case or control marker detected.
Unassigned	Unassigned	GSM155599	IC-44-un	Colonoscopic biopsy from adult with unaffected colon from adult with IC Disease unaffected colon of an adult with indeterminate colitis (IC).	No explicit case or control marker detected.

Use as Discovery Cohort

External Validation Finder

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

Summary

Overall design

Source Evidence

Primary publication

Related publications

Metadata Quality Components

Analysis Readiness

Blockers

Next Steps

Analysis Preparation Checklist

Bioinformatician Review

Why This Is Ranked Here

Applied Review Decisions

Derived Classifications

Intent Interpretation

Ranking Facts

Supporting evidence

Cautions

Dataset Warnings

Normalized Fields

Sample Group Preview

Use as Discovery Cohort