GSE224758

Gene expression profiling of colon biopsies from ulcerative colitis patients and healthy volunteers

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

16 case / 6 control samples elsewhere in the study have incomplete or conflicting evidence; they are not included above

Patient pairs verified in indexed sample metadata: 0

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

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

Source: GEO
Assay: bulk RNA-seq
Organism: Homo sapiens
Whole-study samples: 22 samples
Specimen: Biopsy
Reported/interpreted study design: Disease/model vs control Design classification does not establish patient pairs.

Comparison type: Tumor vs normal
Contributors: Digby-Bell J, Cozzetto D, Powell N
Contact name: Nick Powell
Submission date: 2023-02-07
Last update: 2024-04-05
Organization: Imperial College London
Department: Department of Metabolism, Digestion and Reproduction
Public date: 2024-04-05
Experiment types: Expression profiling by high throughput sequencing
Platforms: GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Series type: Series
SubSeries: Not available
BioProject: PRJNA932428

Summary

Genome-wide transcriptional profiling of colonic biopsies endoscopically acquired from the rectosigmoid area of healthy donors and UC patients.

Overall design

Biopsies were sampled from 6 healthy donors who lacked completely mucosal inflammation both histologically and endoscopically and from 16 UC patients with evidence of active disease.

Source Evidence

4 sources

Source	Contribution	Status
GEO	Original dataset metadata, sample metadata, source links, and GEO data availability flags. Sample records 22 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. 5 linked publications 5 DOIs Related publications METTL3/YTHDF1 drives M1 macrophage polarization and aggravates ulcerative colitis progression by regulating m6A modification of SerpinB5 mRNA and FBXO32-dependent NF-κB pathway. Journal of gastroenterology, 2026 PubMed DOI An Integrative analysis of single-cell RNA-seq, transcriptome and Mendelian randomization for the Identification and validation of NAD(+) Metabolism-Related biomarkers in ulcerative colitis. International immunopharmacology, 2025 PubMed DOI CTLA-4 expressing innate lymphoid cells modulate mucosal homeostasis in a microbiota dependent manner. Nature communications, 2024 PubMed DOI From Gene Expression to Candidate Biomarkers in Ulcerative Colitis: Aquaporin-9 in Neutrophil Extracellular Traps Formation Pathways. Iranian journal of medical sciences, 2026 PubMed DOI Predicting novel biomarkers for early diagnosis and dynamic severity monitoring of human ulcerative colitis. Frontiers in genetics, 2024 PubMed DOI	Available

Metadata Quality Components

Persisted metadata quality

100 pts

Clarity: 100%
Weight: 100 pts

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

Analysis Readiness

Ready after review

100% DE readiness

Contrast completeness

25/25 pts

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

Minimum group size

20/20 pts

Each contrast group has at least 2 samples.

Processed data availability

20/20 pts

Processed data is marked available in the GEO index.

Sample decision clarity

15/15 pts

All samples are assigned to a case or control group.

Blocking warnings

10/10 pts

No dataset warnings are present.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

No readiness blockers detected.

Next Steps

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

Analysis Preparation Checklist

5/6 ready

Group labels reviewed

Needs review

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

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

Minimum sample count met

Ready

Both groups meet the minimum of 2 samples.

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

Processed counts available

Ready

Processed data availability is marked true in the GEO index.

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

Ambiguous samples handled

Ready

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

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

Exclusion decisions recorded

Ready

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

Record any manual exclusions in the downstream analysis notes.

Source traceability preserved

Ready

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

Keep GEO accessions with exported metadata.

Bioinformatician Review

Standard analyst review

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

By Siftome standards, no expert review was triggered.

Why This Is Ranked Here

Tumor vs normal

Not suitable Dataset does not meet the current suitability threshold.

Applied Review Decisions

No active review decisions affect this ranking.

Derived Classifications

Disease context Ulcerative colitis Disease context came from Normalization rules.
Likely case group Ulcerative colitis 16 samples
Likely control group Healthy control 6 samples

Ranking Facts

Supporting evidence

Comparison: Disease/model vs control. Specimen: Biopsy. Comparison suitability: 0%.
Prioritized assay: bulk RNA-seq is the active assay expectation.
Interpreted disease metadata: Ulcerative colitis.
Processed data is available for downstream review.
External evidence: PubMed links 5 publications; 5 DOIs available: PMID 39144720, PMID 39496592, PMID 39647286, PMID 41485180, PMID 42370017.
Publication context: Predicting novel biomarkers for early diagnosis and dynamic severity monitoring of human ulcerative colitis.. Frontiers in genetics, 2024. PMID 39144720. DOI 10.3389/fgene.2024.1429482.
Publication context: CTLA-4 expressing innate lymphoid cells modulate mucosal homeostasis in a microbiota dependent manner.. Nature communications, 2024. PMID 39496592. DOI 10.1038/s41467-024-51719-6.
Publication context: An Integrative analysis of single-cell RNA-seq, transcriptome and Mendelian randomization for the Identification and validation of NAD(+) Metabolism-Related biomarkers in ulcerative colitis.. International immunopharmacology, 2025. PMID 39647286. DOI 10.1016/j.intimp.2024.113765.
Publication context: 2 additional linked PubMed publications are available.

Cautions

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

No dataset warnings

Normalized Fields

108 fields

Field Value Source Derived by Confidence Evidence Reason

anatomical_source colon GSM7031376 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031377 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031378 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031379 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031380 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031381 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031382 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031383 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031384 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031385 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031386 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031387 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031388 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031389 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031390 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031391 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031392 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031393 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031394 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031395 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031396 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

anatomical_source colon GSM7031397 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence colon tissue: colon sample-anatomical-source-v1 sample-local anatomical source

assay_type bulk RNA-seq GSE224758 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence bulk rna-seq dataset_accession: GSE224758 dataset_title: Gene expression profiling of colon biopsies from ulcerative colitis patients and healthy volunteers organism: Homo sapiens assay_type... keyword match keyword match: bulk rna-seq

collection_method biopsy GSM7031376 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 1 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031377 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 2 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031378 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 3 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031379 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 1 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031380 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 2 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031381 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 3 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031382 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 4 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031383 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 5 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031384 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 6 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031385 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 7 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031386 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 8 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031387 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 9 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031388 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 4 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031389 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 5 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031390 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 6 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031391 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 10 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031392 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 11 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031393 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 12 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031394 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 13 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031395 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 14 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031396 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 15 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

collection_method biopsy GSM7031397 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 16 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary collection method match: biopsy

disease ulcerative colitis GSE224758 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis dataset_accession: GSE224758 dataset_title: Gene expression profiling of colon biopsies from ulcerative colitis patients and healthy volunteers organism: Homo sapiens assay_type... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031376 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 1 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031377 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 2 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031378 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 3 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031382 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 4 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031383 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 5 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031384 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 6 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031385 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 7 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031386 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 8 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031387 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 9 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031391 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 10 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031392 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 11 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031393 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 12 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031394 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 13 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031395 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 14 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031396 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 15 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM7031397 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis ulcerative colitis colon biopsy, rep 16 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary disease match: ulcerative colitis

organism Homo sapiens GSE224758 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence homo sapiens dataset_accession: GSE224758 dataset_title: Gene expression profiling of colon biopsies from ulcerative colitis patients and healthy volunteers organism: Homo sapiens assay_type... keyword match keyword match: homo sapiens

primary_tissue primary tissue GSM7031376 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 1 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031377 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 2 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031378 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 3 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031379 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 1 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031380 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 2 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031381 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 3 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031382 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 4 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031383 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 5 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031384 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 6 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031385 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 7 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031386 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 8 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031387 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 9 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031388 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 4 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031389 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 5 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031390 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy healthy colon biopsy, rep 6 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031391 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 10 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031392 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 11 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031393 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 12 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031394 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 13 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031395 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 14 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031396 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 15 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

primary_tissue primary tissue GSM7031397 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence biopsy ulcerative colitis colon biopsy, rep 16 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary primary tissue match: biopsy

tissue colon GSE224758 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon dataset_accession: GSE224758 dataset_title: Gene expression profiling of colon biopsies from ulcerative colitis patients and healthy volunteers organism: Homo sapiens assay_type... controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031376 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 1 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031377 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 2 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031378 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 3 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031379 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon healthy colon biopsy, rep 1 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031380 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon healthy colon biopsy, rep 2 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031381 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon healthy colon biopsy, rep 3 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031382 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 4 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031383 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 5 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031384 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 6 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031385 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 7 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031386 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 8 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031387 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 9 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031388 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon healthy colon biopsy, rep 4 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031389 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon healthy colon biopsy, rep 5 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031390 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon healthy colon biopsy, rep 6 colon tissue: colon; condition: healthy controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031391 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 10 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031392 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 11 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031393 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 12 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031394 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 13 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031395 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 14 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031396 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 15 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

tissue colon GSM7031397 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence colon ulcerative colitis colon biopsy, rep 16 colon tissue: colon; condition: active ulcerative colitis controlled vocabulary controlled vocabulary tissue match: colon

Sample Group Preview

22 rows shown Show Hide

Study totals: Case 16 | Control 6 | Unassigned 0 | Excluded 0 | Ambiguous 0 22 rows shown

Group	Role	Accession	Title	Source / characteristics	Reason
Ulcerative colitis	Case	GSM7031376	Ulcerative colitis colon biopsy, rep 1	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031377	Ulcerative colitis colon biopsy, rep 2	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031378	Ulcerative colitis colon biopsy, rep 3	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031382	Ulcerative colitis colon biopsy, rep 4	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031383	Ulcerative colitis colon biopsy, rep 5	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031384	Ulcerative colitis colon biopsy, rep 6	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031385	Ulcerative colitis colon biopsy, rep 7	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031386	Ulcerative colitis colon biopsy, rep 8	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031387	Ulcerative colitis colon biopsy, rep 9	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031391	Ulcerative colitis colon biopsy, rep 10	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031392	Ulcerative colitis colon biopsy, rep 11	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031393	Ulcerative colitis colon biopsy, rep 12	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031394	Ulcerative colitis colon biopsy, rep 13	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031395	Ulcerative colitis colon biopsy, rep 14	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031396	Ulcerative colitis colon biopsy, rep 15	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Ulcerative colitis	Case	GSM7031397	Ulcerative colitis colon biopsy, rep 16	Colon Tissue: Colon; Condition: Active ulcerative colitis	Case marker detected.
Healthy control	Control	GSM7031379	Healthy colon biopsy, rep 1	Colon Tissue: Colon; Condition: Healthy	Sample-local control marker detected.
Healthy control	Control	GSM7031380	Healthy colon biopsy, rep 2	Colon Tissue: Colon; Condition: Healthy	Sample-local control marker detected.
Healthy control	Control	GSM7031381	Healthy colon biopsy, rep 3	Colon Tissue: Colon; Condition: Healthy	Sample-local control marker detected.
Healthy control	Control	GSM7031388	Healthy colon biopsy, rep 4	Colon Tissue: Colon; Condition: Healthy	Sample-local control marker detected.
Healthy control	Control	GSM7031389	Healthy colon biopsy, rep 5	Colon Tissue: Colon; Condition: Healthy	Sample-local control marker detected.
Healthy control	Control	GSM7031390	Healthy colon biopsy, rep 6	Colon Tissue: Colon; Condition: Healthy	Sample-local control marker detected.

Use as Discovery Cohort

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

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Use as Discovery Cohort