GSE70469

Expression data from antigen-specific CD4+T cells from peripheral blood of patietns with CD and healthy controls.

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

10 case / 8 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: 18 samples
Specimen: Biofluid
Reported/interpreted study design: Patient biofluid vs healthy control Design classification does not establish patient pairs.

Comparison type: Tumor vs normal
Contributors: Calderón-Gómez E, Salas A
Contact name: Azucena Salas
Submission date: 2015-07-02
Last update: 2016-07-30
Organization: IDIBAPS
Department: Gastroenterology
Public date: 2016-07-27
Experiment types: Expression profiling by array
Platforms: GPL20650 [HG-U219_Hs_ENTREZG_18] Affymetrix Human Genome U219 Array [CDF: Brainarray HGU219_Hs_ENTREZG_v18]
Series type: Series
SubSeries: Not available
BioProject: PRJNA288760

Summary

Crohn's Disease (CD) is a chronic inflammatory disease of the intestinal tract. We performed a whole-genome transcriptional analysis using sorted commensal antigen-specific CD4+T cells from peripheral blood of CD patients and from healthy controls.

Overall design

Peripheral blood sorted FlaX, Fla2 and YidX-specific CD4+T cells from Crohn's disease patients and from non-inflammatory controls were collected for RNA extraction and hybridization on Affymetrix microarrays. Inclusion criteria for CD patients were: age between 18 and 70, diagnosis of CD established at least 4 months before inclusion and exclusion of concomitant infection.

Source Evidence

4 sources

Source	Contribution	Status
GEO	Original dataset metadata, sample metadata, source links, and GEO data availability flags. Sample records 18 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. 1 linked publication 1 DOI Primary publication Commensal-Specific CD4(+) Cells From Patients With Crohn's Disease Have a T-Helper 17 Inflammatory Profile. Gastroenterology, 2016 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

97% DE readiness

Contrast completeness

25/25 pts

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

Minimum group size

20/20 pts

Each contrast group has at least 2 samples.

Processed data availability

20/20 pts

Processed data is marked available in the GEO index.

Sample decision clarity

15/15 pts

All samples are assigned to a case or control group.

Blocking warnings

7/10 pts

Warnings are present, but none are critical blockers.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

No readiness blockers detected.

Next Steps

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

Analysis Preparation Checklist

5/6 ready

Group labels reviewed

Needs review

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

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

Minimum sample count met

Ready

Both groups meet the minimum of 2 samples.

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

Processed counts available

Ready

Processed data availability is marked true in the GEO index.

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

Ambiguous samples handled

Ready

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

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

Exclusion decisions recorded

Ready

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

Record any manual exclusions in the downstream analysis notes.

Source traceability preserved

Ready

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

Keep GEO accessions with exported metadata.

Bioinformatician Review

Bioinformatician review required

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

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

Why This Is Ranked Here

Tumor vs normal

Not suitable Dataset does not meet the current suitability threshold.

Applied Review Decisions

No active review decisions affect this ranking.

Derived Classifications

Assay differs from search intent Microarray Search intent expects bulk RNA-seq. Assay came from Normalization rules.
Disease context Crohn's disease Disease context came from Normalization rules.
Likely case group Crohn's disease 10 samples
Likely control group Healthy control 8 samples

Intent Interpretation

Downgrade or exclusion reason Downgraded for tissue search because it is a biofluid cohort. Derived from current-intent ranking reasons.

Ranking Facts

Supporting evidence

Comparison: Patient biofluid vs healthy control. Specimen: Biofluid. Comparison suitability: 0%.
Interpreted disease metadata: Crohn's disease, Infectious disease or host response.
Processed data is available for downstream review.
External evidence: PubMed links 1 publication; 1 DOI available: PMID 27267052.
Publication context: Commensal-Specific CD4(+) Cells From Patients With Crohn's Disease Have a T-Helper 17 Inflammatory Profile.. Gastroenterology, 2016. PMID 27267052. DOI 10.1053/j.gastro.2016.05.050.

Cautions

Downgraded for tissue search because it is a biofluid cohort.
Downgraded assay: microarray cohorts are separated from the RNA-seq intent.
Blood, plasma, or serum cohort downgraded because this ranking targets tissue tumor-vs-normal comparisons.
Microarray expression context downgraded below primary bulk RNA-seq for the default 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

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

anatomical_source blood GSM1780669 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780670 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780671 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780672 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780673 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780674 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780675 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780676 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780678 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780679 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from CD patient sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780680 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780681 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780682 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780683 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780684 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780685 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780686 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM1780687 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood source_name: Human peripheral blood CD4+ T cells from healthy control sample-anatomical-source-v1 sample-local anatomical source

assay_type microarray GSE70469 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence microarray dataset_accession: GSE70469 dataset_title: Expression data from antigen-specific CD4+T cells from peripheral blood of patietns with CD and healthy controls. organism: Homo sapie... keyword match keyword match: microarray

cell_population CD4 T cells GSM1780669 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells AMLP_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780670 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells AMLP_FlaX Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780671 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells AMLP_YidX Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780672 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells IGC_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780673 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells IGC_FlaX Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780674 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells IGC_YidX Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780675 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells LMAB_FlaX Human peripheral blood CD4+ T cells from CD patient patient: LMAB; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 34; cd evolution time (... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780676 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells MFF_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: MFF; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: female; age (years): 35; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780678 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells MMC_FlaX Human peripheral blood CD4+ T cells from CD patient patient: MMC; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 43; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780679 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells MMC_YidX Human peripheral blood CD4+ T cells from CD patient patient: MMC; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: female; age (years): 43; cd evolution time (ye... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780680 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells AJM_Fla2 Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: Fla2; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780681 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells AJM_FlaX Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780682 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells ECG_FlaX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780683 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells ECG_YidX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780684 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells LPS_FlaX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780685 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells LPS_YidX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: YidX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780686 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells MCRC_FlaX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

cell_population CD4 T cells GSM1780687 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence cd4+ t cells MCRC_YidX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary cell population match: cd4+ t cells

control_type healthy control GSM1780680 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AJM_Fla2 Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: Fla2; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM1780681 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AJM_FlaX Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM1780682 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control ECG_FlaX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM1780683 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control ECG_YidX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM1780684 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control LPS_FlaX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM1780685 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control LPS_YidX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: YidX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM1780686 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control MCRC_FlaX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM1780687 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control MCRC_YidX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary control type match: healthy control

disease Crohn's disease GSE70469 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease dataset_accession: GSE70469 dataset_title: Expression data from antigen-specific CD4+T cells from peripheral blood of patietns with CD and healthy controls. organism: Homo sapie... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780669 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease AMLP_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780670 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease AMLP_FlaX Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780671 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease AMLP_YidX Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780672 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease IGC_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780673 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease IGC_FlaX Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780674 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease IGC_YidX Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780675 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease LMAB_FlaX Human peripheral blood CD4+ T cells from CD patient patient: LMAB; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 34; cd evolution time (... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780676 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease MFF_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: MFF; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: female; age (years): 35; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780678 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease MMC_FlaX Human peripheral blood CD4+ T cells from CD patient patient: MMC; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 43; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

disease Crohn's disease GSM1780679 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence Crohn's disease MMC_YidX Human peripheral blood CD4+ T cells from CD patient patient: MMC; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: female; age (years): 43; cd evolution time (ye... controlled vocabulary controlled vocabulary disease match: Crohn's disease

normal_tissue_type healthy donor tissue GSM1780680 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AJM_Fla2 Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: Fla2; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM1780681 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AJM_FlaX Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM1780682 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control ECG_FlaX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM1780683 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control ECG_YidX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM1780684 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control LPS_FlaX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM1780685 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control LPS_YidX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: YidX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM1780686 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control MCRC_FlaX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM1780687 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control MCRC_YidX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary normal tissue type match: healthy control

organism Homo sapiens GSE70469 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence homo sapiens dataset_accession: GSE70469 dataset_title: Expression data from antigen-specific CD4+T cells from peripheral blood of patietns with CD and healthy controls. organism: Homo sapie... keyword match keyword match: homo sapiens

sample_type normal tissue GSM1780680 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AJM_Fla2 Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: Fla2; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM1780681 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control AJM_FlaX Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM1780682 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control ECG_FlaX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM1780683 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control ECG_YidX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM1780684 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control LPS_FlaX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM1780685 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control LPS_YidX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: YidX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM1780686 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control MCRC_FlaX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM1780687 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control MCRC_YidX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary sample type match: healthy control

tissue blood GSE70469 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood dataset_accession: GSE70469 dataset_title: Expression data from antigen-specific CD4+T cells from peripheral blood of patietns with CD and healthy controls. organism: Homo sapie... controlled vocabulary controlled vocabulary tissue match: blood

tissue intestine GSE70469 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence intestinal dataset_accession: GSE70469 dataset_title: Expression data from antigen-specific CD4+T cells from peripheral blood of patietns with CD and healthy controls. organism: Homo sapie... controlled vocabulary controlled vocabulary tissue match: intestinal

tissue blood GSM1780669 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood AMLP_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780670 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood AMLP_FlaX Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780671 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood AMLP_YidX Human peripheral blood CD4+ T cells from CD patient patient: AMLP; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: male; age (years): 45; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780672 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood IGC_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780673 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood IGC_FlaX Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780674 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood IGC_YidX Human peripheral blood CD4+ T cells from CD patient patient: IGC; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: female; age (years): 49; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780675 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood LMAB_FlaX Human peripheral blood CD4+ T cells from CD patient patient: LMAB; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 34; cd evolution time (... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780676 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood MFF_Fla2 Human peripheral blood CD4+ T cells from CD patient patient: MFF; diagnosis: Crohn's Disease (CD); antigen: Fla2; gender: female; age (years): 35; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780678 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood MMC_FlaX Human peripheral blood CD4+ T cells from CD patient patient: MMC; diagnosis: Crohn's Disease (CD); antigen: FlaX; gender: female; age (years): 43; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780679 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood MMC_YidX Human peripheral blood CD4+ T cells from CD patient patient: MMC; diagnosis: Crohn's Disease (CD); antigen: YidX; gender: female; age (years): 43; cd evolution time (ye... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780680 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood AJM_Fla2 Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: Fla2; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780681 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood AJM_FlaX Human peripheral blood CD4+ T cells from healthy control patient: AJM; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 36; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780682 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood ECG_FlaX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780683 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood ECG_YidX Human peripheral blood CD4+ T cells from healthy control patient: ECG; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 35; cd evolution time (years): --... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780684 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood LPS_FlaX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: FlaX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780685 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood LPS_YidX Human peripheral blood CD4+ T cells from healthy control patient: LPS; diagnosis: Healthy; antigen: YidX; gender: male; age (years): 26; cd evolution time (years): --; ... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780686 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood MCRC_FlaX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: FlaX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM1780687 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood MCRC_YidX Human peripheral blood CD4+ T cells from healthy control patient: MCRC; diagnosis: Healthy; antigen: YidX; gender: female; age (years): 64; cd evolution time (years): ... controlled vocabulary controlled vocabulary tissue match: blood

Sample Group Preview

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Study totals: Case 10 | Control 8 | Unassigned 0 | Excluded 0 | Ambiguous 0 18 rows shown

Group	Role	Accession	Title	Source / characteristics	Reason
Crohn's disease	Case	GSM1780669	AMLP_Fla2	Human peripheral blood CD4+ T cells from CD patient Patient: AMLP; Diagnosis: Crohn's Disease (CD); Antigen: Fla2; Gender: Male; Age (years): 45; Cd evolution time (years): 16; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780670	AMLP_FlaX	Human peripheral blood CD4+ T cells from CD patient Patient: AMLP; Diagnosis: Crohn's Disease (CD); Antigen: FlaX; Gender: Male; Age (years): 45; Cd evolution time (years): 16; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780671	AMLP_YidX	Human peripheral blood CD4+ T cells from CD patient Patient: AMLP; Diagnosis: Crohn's Disease (CD); Antigen: YidX; Gender: Male; Age (years): 45; Cd evolution time (years): 16; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780672	IGC_Fla2	Human peripheral blood CD4+ T cells from CD patient Patient: IGC; Diagnosis: Crohn's Disease (CD); Antigen: Fla2; Gender: Female; Age (years): 49; Cd evolution time (years): 9; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780673	IGC_FlaX	Human peripheral blood CD4+ T cells from CD patient Patient: IGC; Diagnosis: Crohn's Disease (CD); Antigen: FlaX; Gender: Female; Age (years): 49; Cd evolution time (years): 9; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780674	IGC_YidX	Human peripheral blood CD4+ T cells from CD patient Patient: IGC; Diagnosis: Crohn's Disease (CD); Antigen: YidX; Gender: Female; Age (years): 49; Cd evolution time (years): 9; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780675	LMAB_FlaX	Human peripheral blood CD4+ T cells from CD patient Patient: LMAB; Diagnosis: Crohn's Disease (CD); Antigen: FlaX; Gender: Female; Age (years): 34; Cd evolution time (years): 5; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780676	MFF_Fla2	Human peripheral blood CD4+ T cells from CD patient Patient: MFF; Diagnosis: Crohn's Disease (CD); Antigen: Fla2; Gender: Female; Age (years): 35; Cd evolution time (years): 5; Disease activity: Active	Case marker detected.
Crohn's disease	Case	GSM1780678	MMC_FlaX	Human peripheral blood CD4+ T cells from CD patient Patient: MMC; Diagnosis: Crohn's Disease (CD); Antigen: FlaX; Gender: Female; Age (years): 43; Cd evolution time (years): 14; Disease activity: Inactive	Case marker detected.
Crohn's disease	Case	GSM1780679	MMC_YidX	Human peripheral blood CD4+ T cells from CD patient Patient: MMC; Diagnosis: Crohn's Disease (CD); Antigen: YidX; Gender: Female; Age (years): 43; Cd evolution time (years): 14; Disease activity: Inactive	Case marker detected.
Healthy control	Control	GSM1780680	AJM_Fla2	Human peripheral blood CD4+ T cells from healthy control Patient: AJM; Diagnosis: Healthy; Antigen: Fla2; Gender: Male; Age (years): 36; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.
Healthy control	Control	GSM1780681	AJM_FlaX	Human peripheral blood CD4+ T cells from healthy control Patient: AJM; Diagnosis: Healthy; Antigen: FlaX; Gender: Male; Age (years): 36; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.
Healthy control	Control	GSM1780682	ECG_FlaX	Human peripheral blood CD4+ T cells from healthy control Patient: ECG; Diagnosis: Healthy; Antigen: FlaX; Gender: Female; Age (years): 35; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.
Healthy control	Control	GSM1780683	ECG_YidX	Human peripheral blood CD4+ T cells from healthy control Patient: ECG; Diagnosis: Healthy; Antigen: YidX; Gender: Female; Age (years): 35; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.
Healthy control	Control	GSM1780684	LPS_FlaX	Human peripheral blood CD4+ T cells from healthy control Patient: LPS; Diagnosis: Healthy; Antigen: FlaX; Gender: Male; Age (years): 26; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.
Healthy control	Control	GSM1780685	LPS_YidX	Human peripheral blood CD4+ T cells from healthy control Patient: LPS; Diagnosis: Healthy; Antigen: YidX; Gender: Male; Age (years): 26; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.
Healthy control	Control	GSM1780686	MCRC_FlaX	Human peripheral blood CD4+ T cells from healthy control Patient: MCRC; Diagnosis: Healthy; Antigen: FlaX; Gender: Female; Age (years): 64; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.
Healthy control	Control	GSM1780687	MCRC_YidX	Human peripheral blood CD4+ T cells from healthy control Patient: MCRC; Diagnosis: Healthy; Antigen: YidX; Gender: Female; Age (years): 64; Cd evolution time (years): --; Disease activity: --	Sample-local control marker detected.

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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