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Explore premium collections with reusable study, cohort and sample curation. The matching scope is stated for each collection. Organism, tissue, comparison and sample requirements still need review; collection availability does not affect dataset ranking.

IBD Colon Tissue Expression Collection

Disease scope matches your disease term.

Public colon tissue expression datasets for IBD, Crohn's disease, and ulcerative colitis.

Preview fixture · Version v0.1-preview

Study inventory
3 datasets
Reported sample inventory
522 samples
Updated
2026-06-22
Disease
Inflammatory bowel disease
Organisms
Homo sapiens
Technologies
microarray, bulk RNA-seq
Tissues
colon biopsy, inflamed colon tissue, non-inflamed colon tissue
Comparisons
IBD vs non-IBD control, inflamed vs non-inflamed tissue, Crohn's disease vs ulcerative colitis
Query overlap with this collection version
DimensionYour queryCollection scopeComparison
Disease Inflammatory bowel diseaseInflammatory bowel disease MATCH

Declared collection scope includes this requested dimension; question-specific sample eligibility still needs review.

Specimen colon biopsy, inflamed colon tissue, non-inflamed colon tissue NOT_REQUESTED

No explicit query requirement was supplied for this dimension.

Organism Homo sapiens NOT_REQUESTED

No explicit query requirement was supplied for this dimension.

Comparison IBD vs non-IBD control, inflamed vs non-inflamed tissue, Crohn's disease vs ulcerative colitis NOT_REQUESTED

No explicit query requirement was supplied for this dimension.

Full access adds reusable curated cohort structure, sample decisions and provenance. Review the content status above before treating a release as professionally approved. Ordinary Search results remain available below.

Preview collection

Counts describe the collection inventory, not final eligible samples or independent subjects. Preview fixtures are illustrative; review-pending releases are not professionally approved.

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15 shown of 146 matching datasets Comparison Tumor vs normal Tissue/sample context Patient tissue Organism Any organism Assay Any assay Ranking defaults Modified 6 user changes 1 active filters Page 7 of 10 · showing 91-105
Treatment requirements Optional See what each comparison arm must satisfy — Unrestricted

Comparison: Tumor vs normal

Case arm

Your requirement
Treatment agent

Comparator

From comparison

Determined by comparison

For treatment vs control, use a named agent, an explicit collection window and an exposed or unexposed state. The comparator needs the opposite reported exposure state for the same agent, target and window.

Other comparisons keep their own normal or healthy comparator requirements. This treatment restriction is not copied to them.

Collection, target and matching

Named agent if supplied; otherwise all interventions.

Scope & matching · additional options

Missing metadata never proves no exposure.

Evidence and comparison rules

Exact results require an eligible sample subset and reported independent subjects in both arms.

“No exposure” applies only to the selected agent, target and time window. No exposure to a new agent before collection does not rule out earlier therapy.

A broader treatment history requires separate, explicit evidence and may be unavailable. All prior therapy requires a through-collection window.

Planned exposure does not establish that treatment occurred. Treatment vs control requires an exposed or unexposed state, a named agent and an explicit collection window.

Organism and specimen requirements apply to both arms. For treatment vs control, disease requirements also apply to both arms.

Genotype requirements Optional Define a requirement, then assign it to samples — Unrestricted
Genotype assignment and variant
Specific protein variant · optional

Leave blank for a gene-level requirement. A variant restriction applies to every selected arm.

Genotype describes sampled material. Confirmed evidence must come from the same samples as your other requirements.

Use with human bulk RNA-seq or expression microarray.

Evidence and comparison rules

Select Homo sapiens and a supported assay in the search filters.

Missing genotype does not establish wild type. Both comparison arms still need eligible, independent samples.

A subject's carrier status does not establish the sampled tumor's genotype or disease.

Ranking filters

Fine-tune ranking behavior without changing the search criteria above.

Clear filters Ranking defaults Relax defaults

Showing one page of matching results. Use next/previous for browsing, or CSV/Markdown export for the full matching set.

Strict results

These datasets meet every active search criterion.

Organization: KULeuven

Case mixed disease cohort Control control
Disease/model vs control Biopsy
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease, Inflammatory bowel disease, Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 21 publications; 21 DOIs available: PMID 28885228, PMID 40645380, PMID 40689397, PMID 40771912, PMID 40901026.
warning Multiple sample type labels or exclusion flags were detected. info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Multiple disease or phenotype arms were detected. The displayed grouping summarizes the full dataset; select the requested disease-specific contrast before analysis. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: The First Affilated Hospital, School of Medicine, Zhejiang University

Case Crohn's disease Control control
Disease/model vs control Biofluid
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded for tissue search because it is a biofluid cohort.
  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 1 publication; 1 DOI available: PMID 27217703.
warning Secondary RNA assay context such as small RNA, miRNA, circRNA, or non-coding RNA was detected. info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: IDIBAPS

Case ulcerative colitis Control control
Disease/model vs control Organoid
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded for tissue search because it is a model-system experiment.
  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Colorectal cancer, Inflammatory bowel disease, Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 1 publication; 1 DOI available: PMID 27803115.
warning Multiple sample type labels or exclusion flags were detected. warning Organoid samples appear to be included. info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: University of Viginia

Case mixed disease cohort Control healthy control
Disease/model vs control Biopsy
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease, Inflammatory bowel disease, Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: recount3 reports trusted processed count availability.
  • External evidence: PubMed links 1 publication; 1 DOI available: PMID 28221248.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Multiple disease or phenotype arms were detected. The displayed grouping summarizes the full dataset; select the requested disease-specific contrast before analysis. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: Harvard Chan School of Public Health

Case mixed disease cohort Control control
Treatment vs control Biofluid
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded for tissue search because it is a biofluid cohort.
  • Downgraded for tissue search because it is a treatment/control experiment.
  • Prioritized assay: bulk RNA-seq is the active assay expectation.
  • Interpreted disease metadata: Crohn's disease.
  • Processed data is available for downstream review.
  • External evidence: recount3 reports trusted processed count availability.
info Ambiguous sample metadata was detected in 8 sample(s): GSM2344751 matched "disease status: unknown"; GSM2344752 matched "disease status: unknown"; GSM2344753 matched "disease status: unknown"; additional ambiguous samples omitted. Review these samples before inclusion or manual group assignment. warning Multiple disease or phenotype arms were detected. The displayed grouping summarizes the full dataset; select the requested disease-specific contrast before analysis.

Organization: Vall d'Hebron Hospital Research Institute

Case inflamed tissue Control mixed controls
Disease/model vs control Tissue
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 3 publications; 3 DOIs available: PMID 32508154, PMID 34628888, PMID 41364644.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: Icahn School of Medicine at Mount Sinai

Case ulcerative colitis Control control
Disease/model vs control Tissue
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Prioritized assay: bulk RNA-seq is the active assay expectation.
  • Interpreted disease metadata: Colorectal cancer, Crohn's disease, Inflammatory bowel disease, Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: recount3 reports trusted processed count availability.
  • External evidence: Expression Atlas curated experiment link is available.
  • External evidence: PubMed links 4 publications; 4 DOIs available: PMID 28892060, PMID 37855835, PMID 38510272, PMID 40179807.

No warnings

Organization: Ren Ji Hospital, School of Medicine, Shanghai Jiao Tong University

Case Crohn's disease Control healthy control
Disease/model vs control Biopsy
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease.
  • Processed data is available for downstream review.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: Janssen R&D

Case ulcerative colitis Control healthy control
Disease/model vs control Biopsy
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 21 publications; 21 DOIs available: PMID 29401083, PMID 40361222, PMID 40584713, PMID 40600991, PMID 40605290.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: Academic Medical Center

Case mixed disease cohort Control healthy control
Disease/model vs control Tissue
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease, Fibrosis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 1 publication; 1 DOI available: PMID 29672662.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Multiple disease or phenotype arms were detected. The displayed grouping summarizes the full dataset; select the requested disease-specific contrast before analysis. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: Janssen R&D

Case treated Control healthy control
Treatment vs control Biopsy
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded for tissue search because it is a treatment/control experiment.
  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 21 publications; 21 DOIs available: PMID 23735746, PMID 34306038, PMID 37322958, PMID 38026254, PMID 38352118.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: University of Copenhagen

Case inflamed tissue Control non-inflamed tissue
Disease/model vs control Biopsy
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 5 publications; 5 DOIs available: PMID 19177426, PMID 29794741, PMID 33132321, PMID 35497913, PMID 37078344.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: IDIBAPS

Case mixed disease cohort Control untreated
Disease/model vs control Biofluid
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded for tissue search because it is a biofluid cohort.
  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease, Inflammatory bowel disease, Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 13 publications; 13 DOIs available: PMID 28981629, PMID 34510961, PMID 37055577, PMID 37215183, PMID 37529244.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Multiple disease or phenotype arms were detected. The displayed grouping summarizes the full dataset; select the requested disease-specific contrast before analysis. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: Nanfang Hospital, Southern Medical University

Case Crohn's disease Control healthy control
Disease/model vs control Tissue
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease, Inflammatory bowel disease.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 10 publications; 10 DOIs available: PMID 35795659, PMID 36248794, PMID 36714107, PMID 36792688, PMID 37169818.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Organization: Washington University in St Louis

Case inflamed tissue Control normal tissue
Disease/model vs control Biopsy
Rationale for Tumor vs normal

Dataset does not meet the current suitability threshold.

  • Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
  • Interpreted disease metadata: Crohn's disease, Inflammatory bowel disease, Ulcerative colitis.
  • Processed data is available for downstream review.
  • External evidence: PubMed links 2 publications; 2 DOIs available: PMID 28806280, PMID 35705632.
info Microarray expression context was detected; compare separately from RNA-seq cohorts. warning Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.