GSE114527

A systems biology approach identifies ANP32E and other biomarkers of glucocorticoid refractoriness in ulcerative colitis [microarray]

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

32 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: microarray
Organism: Homo sapiens
Whole-study samples: 38 samples
Specimen: Tissue
Reported/interpreted study design: Disease/model vs control Design classification does not establish patient pairs.

Comparison type: Tumor vs normal
Contributors: Lorén V, Garcia-Jaraquemada A, Naves J, Carmona X, Mañosa M, Aransay AM, Lavin J, Sánchez I, Cabré E, Manyé J, Domènech E
Contact name: Ana Maria Aransay
Submission date: 2018-05-16
Last update: 2019-02-07
Organization: CIC bioGUNE
Department: Genome Analysis Platform
Public date: 2018-11-06
Experiment types: Expression profiling by array
Platforms: GPL14951 Illumina HumanHT-12 WG-DASL V4.0 R2 expression beadchip
Series type: SubSeries
SubSeries: Not available
BioProject: PRJNA471688

Summary

BACKGROUND: Glucocorticoid (GC) refractoriness is a common and unpredictable phenomenon in ulcerative colitis (UC). Although it has been demonstrated that NFkB is involved in its mechanism of action (MoA), there are no conclusive studies on the molecular functions involved. The current study describes in depth the MoA related to GC failure, by integrating transcriptomic data from UC patients, and updated molecular data on UC and GC. METHODS: miRNA and mRNA expression from rectal biopsies of active UC patients, obtained before and on the 3rd day of GC treatment, were evaluated by sequencing and microarrays, respectively. The differential results obtained were integrated into the mathematical models generated by Systems Biology. RESULTS: This computational approach identified 64 proteins, among which 18 stand out, either by being associated to the MoA or by providing a major capacity to classify the patients according to GC response. The biological functions of these proteins have been linked with inflammation, machinery GC-induced transcription and angiogenesis. All the selected proteins but one —Acidic leucine-rich Nuclear Phosphoprotein 32 family member E (ANP32E) — had previously been related to UC and/or GC-induced biological actions. ANP32E has been linked to the exchange of H2A to H2A.z histone, which promotes CG receptor complex-activated transcription. Western blot and immunofluorescence assays confirmed the predictive results obtained by Systems Biology. CONCLUSIONS: A comprehensive MoA of GC refractoriness has been described, highlighting the key role of GC-induced transcription in this phenomenon. Several proteins have been identified as putative predictors of GC refractoriness.

Overall design

Intestinal tissue from individuals with or without active ulcerative colitis (AUC) was collected and, those with AUC were characterized for their capacity to response to glucocorticoids treatment. microRNAs and mRNAs profiles were studied for each sample by microRNAseq and gene expression microarray, respectively.

Source Evidence

4 sources

Source	Contribution	Status
GEO	Original dataset metadata, sample metadata, source links, and GEO data availability flags. Sample records 38 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. 2 linked publications 2 DOIs Primary publication ANP32E, a Protein Involved in Steroid-Refractoriness in Ulcerative Colitis, Identified by a Systems Biology Approach. Journal of Crohn's & colitis, 2019 PubMed DOI Related publications Identification of useful genes from multiple microarrays for ulcerative colitis diagnosis based on machine learning methods. Scientific reports, 2022 PubMed DOI	Available

Metadata Quality Components

Persisted metadata quality

100 pts

Clarity: 100%
Weight: 100 pts

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

Analysis Readiness

Review before analysis

97% DE readiness

Contrast completeness

25/25 pts

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

Minimum group size

20/20 pts

Each contrast group has at least 2 samples.

Processed data availability

20/20 pts

Processed data is marked available in the GEO index.

Sample decision clarity

15/15 pts

All samples are assigned to a case or control group.

Blocking warnings

7/10 pts

Warnings are present, but none are critical blockers.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

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

Next Steps

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

Analysis Preparation Checklist

5/6 ready

Group labels reviewed

Needs review

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

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

Minimum sample count met

Ready

Both groups meet the minimum of 2 samples.

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

Processed counts available

Ready

Processed data availability is marked true in the GEO index.

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

Ambiguous samples handled

Ready

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

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

Exclusion decisions recorded

Ready

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

Record any manual exclusions in the downstream analysis notes.

Source traceability preserved

Ready

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

Keep GEO accessions with exported metadata.

Bioinformatician Review

Bioinformatician review required

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

Analysis readiness has blockers that must be resolved before DE.

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

Why This Is Ranked Here

Tumor vs normal

Not suitable Dataset does not meet the current suitability threshold.

Applied Review Decisions

No active review decisions affect this ranking.

Derived Classifications

Assay differs from search intent Microarray Search intent expects bulk RNA-seq. Assay came from Normalization rules.
Disease context Ulcerative colitis Disease context came from Normalization rules.
Likely case group Ulcerative colitis 32 samples
Likely control group Healthy control 6 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: Ulcerative colitis.
Processed data is available for downstream review.
External evidence: PubMed links 2 publications; 2 DOIs available: PMID 30329026, PMID 35705632.
Publication context: ANP32E, a Protein Involved in Steroid-Refractoriness in Ulcerative Colitis, Identified by a Systems Biology Approach.. Journal of Crohn's & colitis, 2019. PMID 30329026. DOI 10.1093/ecco-jcc/jjy171.
Publication context: Identification of useful genes from multiple microarrays for ulcerative colitis diagnosis based on machine learning methods.. Scientific reports, 2022. PMID 35705632. DOI 10.1038/s41598-022-14048-6.

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.
Microarray expression context downgraded below primary bulk RNA-seq for the default tissue ranking.
Small RNA, miRNA, circRNA, or extracellular-vesicle RNA context downgraded for primary mRNA tissue ranking.
Overall score capped because comparison suitability is weak for the selected search intent.
Overall score capped because microarray cohorts should be compared separately from RNA-seq cohorts.
Comparison suitability score is below the Phase 1 recommended threshold.

Dataset Warnings

Secondary RNA assay context such as small RNA, miRNA, circRNA, or non-coding RNA was detected.
Microarray expression context was detected; compare separately from RNA-seq cohorts.
Microarray datasets are downgraded in the patient-tissue tumor-normal intent unless secondary assays are explicitly enabled.

Normalized Fields

93 fields

Field Value Source Derived by Confidence Evidence Reason

assay_type microarray GSE114527 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence microarray dataset_accession: GSE114527 dataset_title: A systems biology approach identifies ANP32E and other biomarkers of glucocorticoid refractoriness in ulcerative colitis [microarray]... keyword match keyword match: microarray

control_type healthy control GSM3143535 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500902 D02 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM3143539 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500914 D14 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM3143552 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500949 D49 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM3143557 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500961_a D61 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM3143562 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500973 D73 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM3143567 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500985_a D85 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary control type match: healthy control

disease ulcerative colitis GSE114527 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis dataset_accession: GSE114527 dataset_title: A systems biology approach identifies ANP32E and other biomarkers of glucocorticoid refractoriness in ulcerative colitis [microarray]... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143536 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500904 D04 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143537 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500905 D05 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143538 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500907 D07 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143540 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500916 D16 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143541 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500917 D17 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143542 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500919 D19 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143543 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500926 D26 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143544 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500928 D28 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143545 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500929 D29 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143546 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500930 D30 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143547 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500931 D31 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143548 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500940 D40 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143549 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500941 D41 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143550 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500942 D42 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143551 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500943 D43 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143553 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500952 D52 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143554 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500953_a D53 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a p... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143555 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500954_a D54 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good r... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143556 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500955 D55 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143558 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500964 D64 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143559 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500965_a D65 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143560 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500966 D66 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143561 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500967 D67 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143563 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500975 D75 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143564 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500976 D76 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143565 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500977 D77 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143566 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500978 D78 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids tand who have a good re... controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143568 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500987 D87 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143569 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500988 D88 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143570 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500989_a D89 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143571 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500990 D90 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary disease match: ulcerative colitis

disease ulcerative colitis GSM3143572 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence ulcerative colitis AAA0500991_a D91 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary disease match: ulcerative colitis

normal_tissue_type healthy donor tissue GSM3143535 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500902 D02 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM3143539 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500914 D14 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM3143552 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500949 D49 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM3143557 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500961_a D61 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM3143562 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500973 D73 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM3143567 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500985_a D85 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary normal tissue type match: healthy control

organism Homo sapiens GSE114527 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence homo sapiens dataset_accession: GSE114527 dataset_title: A systems biology approach identifies ANP32E and other biomarkers of glucocorticoid refractoriness in ulcerative colitis [microarray]... keyword match keyword match: homo sapiens

sample_type normal tissue GSM3143535 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500902 D02 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM3143539 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500914 D14 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM3143552 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500949 D49 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM3143557 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500961_a D61 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM3143562 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500973 D73 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM3143567 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AAA0500985_a D85 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary sample type match: healthy control

tissue colon GSE114527 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence rectal dataset_accession: GSE114527 dataset_title: A systems biology approach identifies ANP32E and other biomarkers of glucocorticoid refractoriness in ulcerative colitis [microarray]... controlled vocabulary controlled vocabulary tissue match: rectal

tissue intestine GSE114527 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence intestinal dataset_accession: GSE114527 dataset_title: A systems biology approach identifies ANP32E and other biomarkers of glucocorticoid refractoriness in ulcerative colitis [microarray]... controlled vocabulary controlled vocabulary tissue match: intestinal

tissue intestine GSM3143535 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500902 D02 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143536 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500904 D04 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143537 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500905 D05 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143538 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500907 D07 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143539 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500914 D14 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143540 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500916 D16 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143541 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500917 D17 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143542 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500919 D19 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143543 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500926 D26 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143544 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500928 D28 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143545 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500929 D29 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143546 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500930 D30 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143547 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500931 D31 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143548 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500940 D40 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143549 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500941 D41 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143550 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500942 D42 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143551 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500943 D43 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143552 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500949 D49 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143553 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500952 D52 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143554 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500953_a D53 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a p... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143555 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500954_a D54 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good r... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143556 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500955 D55 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who have a good res... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143557 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500961_a D61 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143558 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500964 D64 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143559 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500965_a D65 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143560 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500966 D66 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143561 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500967 D67 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143562 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500973 D73 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143563 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500975 D75 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143564 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500976 D76 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143565 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500977 D77 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids and who will have a poo... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143566 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500978 D78 tissue: intestine; disease state: ulcerative colitis; individual: patients with active ulcerative colitis before receiving glucocorticoids tand who have a good re... controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143567 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500985_a D85 tissue: intestine; disease state: healthy control; individual: healthy controls controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143568 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500987 D87 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143569 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500988 D88 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143570 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500989_a D89 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143571 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500990 D90 tissue: intestine; disease state: ulcerative colitis; individual: collected on the third day of treatment in treatment-responders (R) patients controlled vocabulary controlled vocabulary tissue match: intestine

tissue intestine GSM3143572 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence intestine AAA0500991_a D91 tissue: intestine; disease state: ulcerative colitis; individual: Non-Responders (NR) patients collected on the 3rd day controlled vocabulary controlled vocabulary tissue match: intestine

Sample Group Preview

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Study totals: Case 32 | Control 6 | Unassigned 0 | Excluded 0 | Ambiguous 0 38 rows shown

Group	Role	Accession	Title	Source / characteristics	Reason
Ulcerative colitis	Case	GSM3143536	AAA0500904	D04 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who will have a poor response to treatment (non-responders, NR)	Case marker detected.
Ulcerative colitis	Case	GSM3143537	AAA0500905	D05 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who will have a poor response to treatment (non-responders, NR)	Case marker detected.
Ulcerative colitis	Case	GSM3143538	AAA0500907	D07 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143540	AAA0500916	D16 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Ulcerative colitis	Case	GSM3143541	AAA0500917	D17 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Ulcerative colitis	Case	GSM3143542	AAA0500919	D19 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143543	AAA0500926	D26 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143544	AAA0500928	D28 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143545	AAA0500929	D29 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who will have a poor response to treatment (non-responders, NR)	Case marker detected.
Ulcerative colitis	Case	GSM3143546	AAA0500930	D30 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143547	AAA0500931	D31 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143548	AAA0500940	D40 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143549	AAA0500941	D41 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Ulcerative colitis	Case	GSM3143550	AAA0500942	D42 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143551	AAA0500943	D43 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143553	AAA0500952	D52 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143554	AAA0500953_a	D53 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who will have a poor response to treatment (non-responders, NR)	Case marker detected.
Ulcerative colitis	Case	GSM3143555	AAA0500954_a	D54 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143556	AAA0500955	D55 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143558	AAA0500964	D64 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143559	AAA0500965_a	D65 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Ulcerative colitis	Case	GSM3143560	AAA0500966	D66 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143561	AAA0500967	D67 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143563	AAA0500975	D75 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who will have a poor response to treatment (non-responders, NR)	Case marker detected.
Ulcerative colitis	Case	GSM3143564	AAA0500976	D76 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143565	AAA0500977	D77 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids and who will have a poor response to treatment (non-responders, NR)	Case marker detected.
Ulcerative colitis	Case	GSM3143566	AAA0500978	D78 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Patients with active ulcerative colitis before receiving glucocorticoids tand who have a good response to treatment (responders, R)	Case marker detected.
Ulcerative colitis	Case	GSM3143568	AAA0500987	D87 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Ulcerative colitis	Case	GSM3143569	AAA0500988	D88 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Ulcerative colitis	Case	GSM3143570	AAA0500989_a	D89 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Ulcerative colitis	Case	GSM3143571	AAA0500990	D90 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Collected on the third day of treatment in treatment-responders (R) patients	Case marker detected.
Ulcerative colitis	Case	GSM3143572	AAA0500991_a	D91 Tissue: Intestine; Disease state: Ulcerative colitis; Individual: Non-Responders (NR) patients collected on the 3rd day	Case marker detected.
Healthy control	Control	GSM3143535	AAA0500902	D02 Tissue: Intestine; Disease state: Healthy control; Individual: Healthy controls	Sample-local control marker detected.
Healthy control	Control	GSM3143539	AAA0500914	D14 Tissue: Intestine; Disease state: Healthy control; Individual: Healthy controls	Sample-local control marker detected.
Healthy control	Control	GSM3143552	AAA0500949	D49 Tissue: Intestine; Disease state: Healthy control; Individual: Healthy controls	Sample-local control marker detected.
Healthy control	Control	GSM3143557	AAA0500961_a	D61 Tissue: Intestine; Disease state: Healthy control; Individual: Healthy controls	Sample-local control marker detected.
Healthy control	Control	GSM3143562	AAA0500973	D73 Tissue: Intestine; Disease state: Healthy control; Individual: Healthy controls	Sample-local control marker detected.
Healthy control	Control	GSM3143567	AAA0500985_a	D85 Tissue: Intestine; Disease state: Healthy control; Individual: Healthy controls	Sample-local control marker detected.

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External Validation Finder

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