GSE179285

Embark cross-sectional study of inactive and active lesions from the ileum and colon of inflammatory bowel disease patients

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

70 case / 184 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.

Summary

Hypothesis: Gene expression differences in biopsies from patients with inflammatory bowel disease can be used to identify molecular heterogeneity within patients with active disease. Methods: Patients with a diagnosis of Crohn's disease, ulcerative colitis or normal healthy controls (with or without infectious colitis) underwent ileocolonoscopy. In healthy controls, biopsies were taken in the sigmoid colon (n=21), ascending/descending colon (n=25) and the terminal ileum (n=12). In patients with Crohn's disease, biopsies were taken in the ascending/descending colon (n=107) and terminal ileum (n=70) in uninflamed areas in all patients; in patients with mucosal lesions, additional biopsies were taken in inflamed regions of the ascending/descending colon (n=35) and terminal ileum (n=55). In ulcerative colitis patients, paired uninflamed sigmoid (n=48) and inflamed sigmoid biopsies (n=46) were taken. Biopsies were placed in RNAlater at the clinical site, frozen and shipped to Genentech, where they were disrupted using TissueLyzer beads, then RNA was isolated using RNeasy columns. RNA was hybridized to Agilent human 4x44kv1 arrays, dual channel, using universal reference.

Overall design

Intestinal biopsies were collected from active lesions and inactive adjacent regions in patients with either Crohn's disease or ulcerative colitis. Matched non-IBD controls with no obvious intestinal disease are included for comparison.

Source Evidence

4 sources
Source Contribution Status
GEO

Original dataset metadata, sample metadata, source links, and GEO data availability flags.

Sample records
254 GSM samples
Primary source
recount3

Planned trusted source for processed count availability.

No match found
Expression Atlas

Planned source for curated expression experiment links.

No match found
PubMed

Primary GEO citations and related PubMed articles that mention this dataset.

21 linked publications 21 DOIs

Primary publication

  1. Regulation and Role of αE Integrin and Gut Homing Integrins in Migration and Retention of Intestinal Lymphocytes during Inflammatory Bowel Disease. Journal of immunology (Baltimore, Md. : 1950), 2021

Related publications

  1. Exploration of shared diagnostic genes and mechanisms between crohn's disease and ischemic stroke by integrated comprehensive bioinformatics analysis and machine learning. Mammalian genome : official journal of the International Mammalian Genome Society, 2025
  2. Exploring the therapeutic potential of annexin A1-derived peptide Ac(2-26) in modulating NLRP3 inflammasome activation in Crohn's disease. Molecular and cellular biochemistry, 2025
  3. Identifying the importance of PCK1 in maintaining ileal epithelial barrier integrity in Crohn's disease. Gene, 2024
  4. Utilizing an integrated bioinformatics and machine learning approach to uncover biomarkers linking ulcerative colitis to purine metabolism-related genes. Heliyon, 2024
  5. DsbA-L safeguards T cell mitochondrial redox homeostasis to restrain Th17 differentiation and colitis. Cell death & disease, 2026
  6. Identification and multimodal characterization of a specialized epithelial cell type associated with Crohn's disease. Nature communications, 2024
  7. Integrated multiple microarray studies by robust rank aggregation to identify immune-associated biomarkers in Crohn's disease based on three machine learning methods. Scientific reports, 2023
  8. Identification and immune landscape of sarcopenia-related molecular clusters in inflammatory bowel disease by machine learning and integrated bioinformatics. Scientific reports, 2024
  9. Molecular insights into ulcerative colitis and orbital inflammation. Scientific reports, 2025
  10. Identification of immune-related hub genes contributing to the pathogenesis, diagnosis, and remission of ulcerative colitis by integrated bioinformatic analyses. Medicine, 2023
  11. Candidate Biomarkers for Crohn's Disease: Hub Genes and Regulatory miRNAs Identified by Bioinformatics Analysis. Biochemistry research international, 2026
  12. Identification and immunological characterization of cuproptosis-related molecular clusters in ulcerative colitis. BMC gastroenterology, 2023
  13. Identification of key genes as diagnostic biomarkers for IBD using bioinformatics and machine learning. Journal of translational medicine, 2025
  14. Bioinformatics analysis-based mining of potential markers for inflammatory bowel disease and their immune relevance. Translational cancer research, 2024
  15. Integrated analysis of multiple microarray studies to establish differential diagnostic models of Crohn's disease and ulcerative colitis based on a metalloproteinase-associated module. Frontiers in immunology, 2022
  16. Exploring the common mechanism of vascular dementia and inflammatory bowel disease: a bioinformatics-based study. Frontiers in immunology, 2024
  17. Common diagnostic biomarkers and molecular mechanisms of Helicobacter pylori infection and inflammatory bowel disease. Frontiers in immunology, 2024
  18. Multiomics integration of single-cell transcriptomics and bulk sequencing data identifies key biomarkers and predictive models for IBD subtype classification. Frontiers in medicine, 2026
  19. Exploring the molecular characteristics of inflammatory bowel disease from the perspective of hypoxia-related genes. Frontiers in pharmacology, 2025
  20. Integrating Transcriptomics and Machine Learning to Uncover the FLI1-PARP14-Immune Axis in Ulcerative Colitis Activity and Pathogenesis. Genes, 2025
Available

Metadata Quality Components

Analysis Readiness

Ready after review
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

No readiness blockers detected.

Next Steps

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

Analysis Preparation Checklist

5/6 ready

Group labels reviewed

Needs review

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

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

Minimum sample count met

Ready

Both groups meet the minimum of 2 samples.

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

Processed counts available

Ready

Processed data availability is marked true in the GEO index.

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

Ambiguous samples handled

Ready

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

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

Exclusion decisions recorded

Ready

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

Record any manual exclusions in the downstream analysis notes.

Source traceability preserved

Ready

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

Keep GEO accessions with exported metadata.

Bioinformatician Review

Bioinformatician review required

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

  • 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 Inflamed tissue 70 samples
  • Likely control group Mixed controls 184 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: Tissue. 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: PubMed links 21 publications; 21 DOIs available: PMID 34561227, PMID 36479126, PMID 36792688, PMID 37370003, PMID 37904419.
  • Publication context: Regulation and Role of αE Integrin and Gut Homing Integrins in Migration and Retention of Intestinal Lymphocytes during Inflammatory Bowel Disease.. Journal of immunology (Baltimore, Md. : 1950), 2021. PMID 34561227. DOI 10.4049/jimmunol.2100220.
  • Publication context: Integrated analysis of multiple microarray studies to establish differential diagnostic models of Crohn's disease and ulcerative colitis based on a metalloproteinase-associated module.. Frontiers in immunology, 2022. PMID 36479126. DOI 10.3389/fimmu.2022.1022850.
  • Publication context: Integrated multiple microarray studies by robust rank aggregation to identify immune-associated biomarkers in Crohn's disease based on three machine learning methods.. Scientific reports, 2023. PMID 36792688. DOI 10.1038/s41598-022-26345-1.
  • Publication context: 18 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

Normalized Fields

showing 500 of 1085 fields

Sample Group Preview

showing 100 of 254 preview rows
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Study totals: Case 70 | Control 184 | Unassigned 0 | Excluded 0 | Ambiguous 0 showing 100 of 254 preview rows
Group Role Accession Title Source / characteristics Reason
Inflamed tissue Case GSM5413225 1506_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 8 Case marker detected.
Inflamed tissue Case GSM5413226 1679_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Male; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 6 Case marker detected.
Inflamed tissue Case GSM5413228 1339_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 7 Case marker detected.
Inflamed tissue Case GSM5413230 1908_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 3 Case marker detected.
Inflamed tissue Case GSM5413231 1904_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 1 Case marker detected.
Inflamed tissue Case GSM5413233 1820_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 6 Case marker detected.
Inflamed tissue Case GSM5413234 1349_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 4 Case marker detected.
Inflamed tissue Case GSM5413236 1328_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Female; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 6 Case marker detected.
Inflamed tissue Case GSM5413240 1505_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 7 Case marker detected.
Inflamed tissue Case GSM5413241 2104_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 2 Case marker detected.
Inflamed tissue Case GSM5413244 1415_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 1 Case marker detected.
Inflamed tissue Case GSM5413247 2501_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 4 Case marker detected.
Inflamed tissue Case GSM5413248 1929_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 5 Case marker detected.
Inflamed tissue Case GSM5413250 1821_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: Re Case marker detected.
Inflamed tissue Case GSM5413251 1359_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 6 Case marker detected.
Inflamed tissue Case GSM5413252 1508_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 4 Case marker detected.
Inflamed tissue Case GSM5413254 1816_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 3 Case marker detected.
Inflamed tissue Case GSM5413255 2503_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 4 Case marker detected.
Inflamed tissue Case GSM5413257 1714_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Male; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 4 Case marker detected.
Inflamed tissue Case GSM5413259 2302_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 6 Case marker detected.
Inflamed tissue Case GSM5413262 1686_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 1 Case marker detected.
Inflamed tissue Case GSM5413265 1921_UC inflamed sigmoid colon UC inflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 3 Case marker detected.
Inflamed tissue Case GSM5413273 1687_UC inflamed ascending/descending colon UC inflamed ascending/descending colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Inflamed; Tissue: Colon; Batch: 7 Case marker detected.
Inflamed tissue Case GSM5413280 1695_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 5 Case marker detected.
Inflamed tissue Case GSM5413284 2207_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 8 Case marker detected.
Inflamed tissue Case GSM5413289 1815_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 5 Case marker detected.
Inflamed tissue Case GSM5413290 1818_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: Re Case marker detected.
Inflamed tissue Case GSM5413292 1351_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 2 Case marker detected.
Inflamed tissue Case GSM5413295 2205_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 6 Case marker detected.
Inflamed tissue Case GSM5413299 2007_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 5 Case marker detected.
Inflamed tissue Case GSM5413303 1340_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 7 Case marker detected.
Inflamed tissue Case GSM5413309 1698_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 2 Case marker detected.
Inflamed tissue Case GSM5413312 1345_Crohn's inflamed ascending/descending colon Crohn's inflamed ascending/descending colon Sex: Male; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Colon; Batch: 2 Case marker detected.
Inflamed tissue Case GSM5413314 1345_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Male; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 2 Case marker detected.
Inflamed tissue Case GSM5413318 1822_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 8 Case marker detected.
Inflamed tissue Case GSM5413320 1806_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Male; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 8 Case marker detected.
Inflamed tissue Case GSM5413327 2002_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 3 Case marker detected.
Inflamed tissue Case GSM5413330 1331_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 7 Case marker detected.
Inflamed tissue Case GSM5413334 1680_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Female; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 2 Case marker detected.
Inflamed tissue Case GSM5413338 1696_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 8 Case marker detected.
Inflamed tissue Case GSM5413341 1336_Crohn's inflamed ascending/descending colon Crohn's inflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Colon; Batch: 5 Case marker detected.
Inflamed tissue Case GSM5413342 1421_Crohn's inflamed ascending/descending colon Crohn's inflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Colon; Batch: 6 Case marker detected.
Inflamed tissue Case GSM5413345 1813_Crohn's inflamed ascending/descending colon Crohn's inflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Colon; Batch: 3 Case marker detected.
Inflamed tissue Case GSM5413350 1413_Crohn's inflamed ascending/descending colon Crohn's inflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Colon; Batch: 3 Case marker detected.
Inflamed tissue Case GSM5413351 1413_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 3 Case marker detected.
Inflamed tissue Case GSM5413358 1823_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: Re Case marker detected.
Inflamed tissue Case GSM5413361 1700_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 4 Case marker detected.
Inflamed tissue Case GSM5413363 1504_Crohn's inflamed ascending/descending colon Crohn's inflamed ascending/descending colon Sex: Female; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Colon; Batch: 5 Case marker detected.
Inflamed tissue Case GSM5413370 1352_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 4 Case marker detected.
Inflamed tissue Case GSM5413371 1357_Crohn's inflamed terminal ileum Crohn's inflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Inflamed; Tissue: Ileum; Batch: 6 Case marker detected.
20 additional case samples are hidden from this preview.
Non-inflamed tissue Control GSM5413223 1416_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 7 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413224 2204_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 8 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413227 1339_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 7 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413229 2003_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 2 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413232 1904_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413235 1718_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413237 1328_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Female; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 6 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413238 2008_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 4 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413239 1414_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413242 2104_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 2 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413243 1415_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413245 1348_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 2 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413246 1819_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 4 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413249 1821_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 8 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413253 1816_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 3 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413256 1714_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Male; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 4 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413258 2009_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: Re Sample-local control marker detected.
Non-inflamed tissue Control GSM5413260 2302_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: Re Sample-local control marker detected.
Non-inflamed tissue Control GSM5413261 1912_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413263 1686_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413264 1688_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413266 1921_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 3 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413267 1692_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 7 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413268 1690_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 7 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413269 2001_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413270 2001_UC uninflamed ascending/descending colon UC uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413271 1918_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413272 1906_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413274 1907_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 7 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413275 2101_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413276 1811_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413277 1691_UC uninflamed sigmoid colon UC uninflamed sigmoid colon Sex: Not determined; Diagnosis: Ulcerative colitis; Inflammation: Uninflamed; Tissue: Colon; Batch: 3 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413278 1695_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413279 1695_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413281 2010_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 8 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413282 2010_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 8 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413283 2207_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 8 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413285 1817_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 8 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413286 1817_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: Re Sample-local control marker detected.
Non-inflamed tissue Control GSM5413287 1347_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 8 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413288 1815_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413291 1351_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 2 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413293 1351_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: Re Sample-local control marker detected.
Non-inflamed tissue Control GSM5413294 2507_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 6 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413296 2205_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 6 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413297 2601_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 4 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413298 2007_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 5 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413300 1417_Crohn's uninflamed ascending/descending colon Crohn's uninflamed ascending/descending colon Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Colon; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413301 1417_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 1 Sample-local control marker detected.
Non-inflamed tissue Control GSM5413302 1340_Crohn's uninflamed terminal ileum Crohn's uninflamed terminal ileum Sex: Not determined; Diagnosis: Crohn's disease; Inflammation: Uninflamed; Tissue: Ileum; Batch: 7 Sample-local control marker detected.
134 additional control samples are hidden from this preview.

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.