Siftome Phase 3L

GSE173991

Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer

Not suitable Dataset does not meet the current suitability threshold.

Sample grouping CSV Contrast CSV DESeq2 metadata CSV R handoff notes Handoff report Download instructions Open GEO dataset

Source: GEO
Search intent: Patient tissue tumor-vs-normal
Intent behavior: search-intent-behavior-v1
Submission date: 2021-05-06
Last update: 2022-04-27
Organization: University of North Carolina at Chapel Hill
Department: Professor of Genetics, and Pathology & Laboratory Medicine; Lineberger Comprehensive Cancer Center
Public date: 2022-04-27
Experiment types: Expression profiling by high throughput sequencing
Platforms: GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Series type: Series
SubSeries: Not available
BioProject: PRJNA727822
Supplementary files: TXT: GSE173991_40n-cleaned_logtrans_70flt.medcent.std.v2.txt.gz
Organism: Homo sapiens
Assay: bulk RNA-seq
Samples: 40
Study design: Tumor vs matched normal
Specimen/source: Tissue
Scoring version: intent-aware-scoring-v15
Ranking batch: b69568dd1e4fe1b9ee2d880bf5495d748a7e4c5c11e4107f02528c3be0e76012
Ranking created: 2026-06-05T20:20:27.088676Z
Warning version: intent-aware-warnings-v2

Current Intent Interpretation

Patient tissue tumor-vs-normal

Expectations

Organism: Homo sapiens
Assay: bulk RNA-seq
Specimen/source: patient tissue or biopsy
Controls: matched normal, adjacent normal, paired normal, healthy tissue control, or otherwise normal tissue control

Rules

Default filters: Human only; Bulk RNA-seq only; Tumor-normal only; Tissue or biopsy only; Hide biofluid/model systems
Warning rules: missing or unclear control group, unclear disease context, unclear tissue source, mixed sample types, model-system markers, secondary assay context, missing processed data, or small cohort size
Score caps: non-human datasets stay below the primary recommendation band, missing colorectal/colon/rectal/CRC context stays below the primary recommendation band, biofluid and model-system datasets cannot reach Recommended by default, microarray and secondary assays are capped unless explicitly enabled, or small cohorts are capped below high-confidence recommendations
Downgraded contexts: microarray unless explicitly enabled, biofluid-only datasets, cell-line datasets, organoid datasets, xenograft or PDX datasets, non-colorectal disease contexts, or treatment-only experiments

Study Classification

Tumor vs matched normal Tissue

Tumor samples and matched/adjacent normal controls detected.
Tissue-like source terms detected.
Case metadata contains tumor or disease terms.
Control metadata contains normal or healthy-control terms.

Analysis Readiness

Ready after review

94% 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

12/15 pts

All non-excluded samples are assigned; excluded samples should still be confirmed.

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

Review the sample grouping CSV and contrast CSV before running differential expression.
Confirm processed count files and sample identifiers match the exported metadata.

Analysis Preparation Checklist

4/6 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.

Still scan the grouping table for biology-specific ambiguity.

Exclusion decisions recorded

Needs review

7 samples have hard exclusion flags in the proposed grouping.

Confirm excluded samples and preserve the reason in the analysis handoff.

Source links preserved

Ready

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

Keep GEO dataset and sample links with exported metadata.

Bioinformatician Review

Standard analyst review

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

No expert-review triggers were detected by Siftome.

Why This Is Ranked Here

Patient tissue tumor-vs-normal

Not suitable Dataset does not meet the current suitability threshold.

Score Components

relevance 100% Disease or condition metadata normalized. Organism normalized. Assay type normalized. Tissue metadata normalized.
comparison suitability 0% Tumor and normal sample groups detected. Excluded sample type flags reduce suitability. Matched tumor/normal design boosted for colorectal tumor-vs-normal tissue triage. Patient tissue or biopsy specimens boosted for tissue comparison triage. Non-colorectal cancer context downgraded for colorectal tumor-vs-normal tissue ranking. Excluded model-system sample markers reduce suitability.
metadata quality 100% 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: Tissue 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.
data availability 100% Processed data available. Raw data available.
overall 34% Weighted score: 30% relevance, 30% comparison suitability, 25% metadata quality, 15% data availability. Overall score capped because comparison suitability is weak for the selected search intent. Overall score capped because tumor/normal grouping is from a non-colorectal cancer context.

Derived Classifications

Organism Homo sapiens Organism remains rule-derived: Homo sapiens.
Assay bulk RNA-seq Assay remains rule-derived: bulk RNA-seq.
Study design Tumor vs matched normal Study design remains rule-derived: Tumor vs matched normal.
Specimen/source Tissue Specimen/source remains rule-derived: Tissue.
Likely case group tumor sample 17 samples
Likely control group normal tissue 16 samples

Warnings

MIXED_SAMPLE_TYPES warning Multiple sample type labels or exclusion flags were detected.
XENOGRAFTS_INCLUDED warning Xenograft samples appear to be included.

Intent Interpretation

Active intent Patient tissue tumor-vs-normal Ranks human colorectal tissue or biopsy cohorts where tumor samples can be compared with normal controls.
Organism expectation Homo sapiens Dataset organism is interpreted as Homo sapiens.
Assay expectation bulk RNA-seq Dataset assay is interpreted as bulk RNA-seq.
Specimen assumption patient tissue or biopsy Derived specimen/source is Tissue.
Control-group assumption matched normal, adjacent normal, paired normal, healthy tissue control, or otherwise normal tissue control Derived study design is Tumor vs matched normal; likely groups are tumor sample vs normal tissue.
Score caps Applied when matching conditions are present non-human datasets stay below the primary recommendation band, missing colorectal/colon/rectal/CRC context stays below the primary recommendation band, biofluid and model-system datasets cannot reach Recommended by default, microarray and secondary assays are capped unless explicitly enabled, or small cohorts are capped below high-confidence recommendations
Warning rules 2 active warnings missing or unclear control group, unclear disease context, unclear tissue source, mixed sample types, model-system markers, secondary assay context, missing processed data, or small cohort size
Downgrade or exclusion reason Downgraded disease context: not a colorectal/GI cancer cohort. Derived from current-intent ranking reasons and warnings.

Applied Review Decisions

No active review decisions affect this ranking.

Ranking Facts

Recommendation Not suitable Dataset does not meet the current suitability threshold.
Supporting fact Tumor vs matched normal · Tissue · suitability 0%. Contributed to match or upgrade evidence.
Supporting fact Prioritized for patient tissue tumor-vs-normal triage. Contributed to match or upgrade evidence.
Supporting fact Prioritized assay: bulk RNA-seq is the active assay expectation. Contributed to match or upgrade evidence.
Supporting fact Downgraded disease context: not a colorectal/GI cancer cohort. Contributed to match or upgrade evidence.
Supporting fact Processed data is available for downstream review. Contributed to match or upgrade evidence.
Supporting fact 2 warnings require review. Contributed to match or upgrade evidence.
Caution fact Multiple sample type labels or exclusion flags were detected. Contributed to downgrade or manual-review evidence.
Caution fact Xenograft samples appear to be included. Contributed to downgrade or manual-review evidence.
Caution fact Excluded sample type flags reduce suitability. Contributed to downgrade or manual-review evidence.
Caution fact Non-colorectal cancer context downgraded for colorectal tumor-vs-normal tissue ranking. Contributed to downgrade or manual-review evidence.
Caution fact Excluded model-system sample markers reduce suitability. Contributed to downgrade or manual-review evidence.
Caution fact Missing or unclear metadata: Treatment clarity: No unclear treatment split detected in the sample metadata. Contributed to downgrade or manual-review evidence.
Caution fact Overall score capped because comparison suitability is weak for the selected search intent. Contributed to downgrade or manual-review evidence.
Caution fact Overall score capped because tumor/normal grouping is from a non-colorectal cancer context. Contributed to downgrade or manual-review evidence.
Caution fact Downgraded disease context: not a colorectal/GI cancer cohort. Contributed to downgrade or manual-review evidence.
Caution fact Comparison suitability score is below the Phase 1 recommended threshold. Contributed to downgrade or manual-review evidence.

Manual Corrections

0 active

No active manual corrections are applied to this dataset.

Organism · Normalization rules Organism remains rule-derived: Homo sapiens.
Assay · Normalization rules Assay remains rule-derived: bulk RNA-seq.
Study design · Classifier and grouping rules Study design remains rule-derived: Tumor vs matched normal.
Specimen/source · Normalization rules Specimen/source remains rule-derived: Tissue.

Dataset organism

Dataset field · Organism · Global correction

Wrong organism

Current derived value

Homo sapiens

Raw GEO organism

dataset_accession: GSE173991
organism: Homo sapiens
dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer

Dataset assay

Dataset field · Assay · Global correction

Wrong assay

Current derived value

bulk RNA-seq

Raw GEO assay metadata

assay_type: bulk RNA-seq
experiment_types: Expression profiling by high throughput sequencing
platforms: GPL16791 Illumina HiSeq 2500 (Homo sapiens)
dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer

Study design

Dataset field · Study design · Global correction

Wrong study design

Current derived value

Tumor vs matched normal

Raw GEO study and sample metadata

dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer
experiment_types: Expression profiling by high throughput sequencing
sample_context: GSM5284220: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284221: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284222: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284223: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284224: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284225:
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Specimen/source type

Dataset field · Specimen/source · Global correction

Wrong specimen/source

Current derived value

Tissue

Raw GEO sample source metadata

dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer
sample_context: GSM5284220: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284221: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284222: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284223: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284224: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284225: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA
[Correction source preview truncated.]

Disease context

Dataset field · Disease context · Global correction

Wrong disease context

Current derived value

breast cancer

Raw GEO disease context metadata

dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer
sample_context: GSM5284220: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284221: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284222: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284223: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284224: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284225: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA
[Correction source preview truncated.]

Intent exclusion

Search intent · Intent eligibility · Patient tissue tumor-vs-normal

Exclude from intent

Current derived value

Eligible for Patient tissue tumor-vs-normal as Not suitable

Raw GEO metadata for intent decision

dataset_accession: GSE173991
dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer
organism: Homo sapiens
assay_type: bulk RNA-seq
sample_context: GSM5284220: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284221: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284222: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284223: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284224: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM
[Correction source preview truncated.]

Intent-only inclusion

Search intent · Intent eligibility · Patient tissue tumor-vs-normal

Include only for intent

Current derived value

Eligible for Patient tissue tumor-vs-normal as Not suitable

Raw GEO metadata for intent decision

dataset_accession: GSE173991
dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer
organism: Homo sapiens
assay_type: bulk RNA-seq
sample_context: GSM5284220: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284221: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284222: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284223: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284224: source_name=ER Tumor; characteristics=tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM
[Correction source preview truncated.]

GSM5284220 grouping

Sample field · Grouping · Global correction · GSM5284220

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284220
sample_title: ER1
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284220 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284220

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284220
sample_title: ER1
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284221 grouping

Sample field · Grouping · Global correction · GSM5284221

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284221
sample_title: ER2
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284221 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284221

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284221
sample_title: ER2
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284222 grouping

Sample field · Grouping · Global correction · GSM5284222

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284222
sample_title: ER3
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284222 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284222

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284222
sample_title: ER3
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284223 grouping

Sample field · Grouping · Global correction · GSM5284223

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284223
sample_title: ER4
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium

GSM5284223 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284223

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284223
sample_title: ER4
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium

GSM5284224 grouping

Sample field · Grouping · Global correction · GSM5284224

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284224
sample_title: ER5
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284224 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284224

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284224
sample_title: ER5
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284225 grouping

Sample field · Grouping · Global correction · GSM5284225

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284225
sample_title: ER6
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284225 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284225

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284225
sample_title: ER6
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284226 grouping

Sample field · Grouping · Global correction · GSM5284226

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284226
sample_title: ER7
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284226 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284226

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284226
sample_title: ER7
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284227 grouping

Sample field · Grouping · Global correction · GSM5284227

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284227
sample_title: ER8
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284227 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284227

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284227
sample_title: ER8
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284228 grouping

Sample field · Grouping · Global correction · GSM5284228

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284228
sample_title: ER9
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284228 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284228

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284228
sample_title: ER9
source_name: ER Tumor
characteristics: tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284229 grouping

Sample field · Grouping · Global correction · GSM5284229

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284229
sample_title: Normal-1
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284229 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284229

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284229
sample_title: Normal-1
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284230 grouping

Sample field · Grouping · Global correction · GSM5284230

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284230
sample_title: Normal-2
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284230 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284230

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284230
sample_title: Normal-2
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284231 grouping

Sample field · Grouping · Global correction · GSM5284231

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284231
sample_title: Normal-3
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284231 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284231

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284231
sample_title: Normal-3
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284232 grouping

Sample field · Grouping · Global correction · GSM5284232

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284232
sample_title: Normal-4
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284232 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284232

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284232
sample_title: Normal-4
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284233 grouping

Sample field · Grouping · Global correction · GSM5284233

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284233
sample_title: Normal-5
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284233 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284233

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284233
sample_title: Normal-5
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284234 grouping

Sample field · Grouping · Global correction · GSM5284234

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284234
sample_title: Normal-6
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284234 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284234

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284234
sample_title: Normal-6
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284235 grouping

Sample field · Grouping · Global correction · GSM5284235

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284235
sample_title: Normal-7
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: High

GSM5284235 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284235

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284235
sample_title: Normal-7
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: High

GSM5284236 grouping

Sample field · Grouping · Global correction · GSM5284236

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284236
sample_title: Normal-8
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284236 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284236

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284236
sample_title: Normal-8
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284237 grouping

Sample field · Grouping · Global correction · GSM5284237

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284237
sample_title: Normal-9
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284237 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284237

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284237
sample_title: Normal-9
source_name: Paired Normal Tissue
characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284238 grouping

Sample field · Grouping · Global correction · GSM5284238

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284238
sample_title: TNBC10
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284238 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284238

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284238
sample_title: TNBC10
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284239 grouping

Sample field · Grouping · Global correction · GSM5284239

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284239
sample_title: TNBC8
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284239 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284239

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284239
sample_title: TNBC8
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284240 grouping

Sample field · Grouping · Global correction · GSM5284240

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284240
sample_title: TNBC11
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284240 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284240

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284240
sample_title: TNBC11
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284241 grouping

Sample field · Grouping · Global correction · GSM5284241

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284241
sample_title: TNBC13
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium

GSM5284241 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284241

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284241
sample_title: TNBC13
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium

GSM5284242 grouping

Sample field · Grouping · Global correction · GSM5284242

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284242
sample_title: TNBC12
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284242 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284242

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284242
sample_title: TNBC12
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284243 grouping

Sample field · Grouping · Global correction · GSM5284243

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284243
sample_title: TNBC9
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284243 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284243

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284243
sample_title: TNBC9
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284244 grouping

Sample field · Grouping · Global correction · GSM5284244

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284244
sample_title: TNBC6
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284244 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284244

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284244
sample_title: TNBC6
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284245 grouping

Sample field · Grouping · Global correction · GSM5284245

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284245
sample_title: TNBC5
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284245 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284245

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284245
sample_title: TNBC5
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284246 grouping

Sample field · Grouping · Global correction · GSM5284246

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284246
sample_title: TNBC1
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: LumB; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284246 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284246

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284246
sample_title: TNBC1
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: LumB; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284247 grouping

Sample field · Grouping · Global correction · GSM5284247

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284247
sample_title: TNBC14
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284247 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284247

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284247
sample_title: TNBC14
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284248 grouping

Sample field · Grouping · Global correction · GSM5284248

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284248
sample_title: TNBC4
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284248 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284248

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284248
sample_title: TNBC4
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High

GSM5284249 grouping

Sample field · Grouping · Global correction · GSM5284249

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM5284249
sample_title: TNBC7
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; er-high tertiles: Low

GSM5284249 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284249

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM5284249
sample_title: TNBC7
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; er-high tertiles: Low

GSM5284250 grouping

Sample field · Grouping · Global correction · GSM5284250

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284250
sample_title: TNBC15
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Her2; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284250 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284250

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284250
sample_title: TNBC15
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Her2; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284251 grouping

Sample field · Grouping · Global correction · GSM5284251

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284251
sample_title: TNBC3
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284251 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284251

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284251
sample_title: TNBC3
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284252 grouping

Sample field · Grouping · Global correction · GSM5284252

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM5284252
sample_title: TNBC2
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284252 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284252

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM5284252
sample_title: TNBC2
source_name: Triple negative breast cancer
characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium

GSM5284253 grouping

Sample field · Grouping · Global correction · GSM5284253

Wrong grouping

Current derived value

excluded: xenograft (excluded)

Raw GEO sample metadata

sample_accession: GSM5284253
sample_title: PDX1
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284253 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284253

Wrong sample exclusion

Current derived value

exclude: xenograft - Normalized exclusion flag detected: xenograft.

Raw GEO sample metadata

sample_accession: GSM5284253
sample_title: PDX1
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284254 grouping

Sample field · Grouping · Global correction · GSM5284254

Wrong grouping

Current derived value

excluded: xenograft (excluded)

Raw GEO sample metadata

sample_accession: GSM5284254
sample_title: PDX2
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284254 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284254

Wrong sample exclusion

Current derived value

exclude: xenograft - Normalized exclusion flag detected: xenograft.

Raw GEO sample metadata

sample_accession: GSM5284254
sample_title: PDX2
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284255 grouping

Sample field · Grouping · Global correction · GSM5284255

Wrong grouping

Current derived value

excluded: xenograft (excluded)

Raw GEO sample metadata

sample_accession: GSM5284255
sample_title: PDX3
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284255 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284255

Wrong sample exclusion

Current derived value

exclude: xenograft - Normalized exclusion flag detected: xenograft.

Raw GEO sample metadata

sample_accession: GSM5284255
sample_title: PDX3
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284256 grouping

Sample field · Grouping · Global correction · GSM5284256

Wrong grouping

Current derived value

excluded: xenograft (excluded)

Raw GEO sample metadata

sample_accession: GSM5284256
sample_title: PDX4
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284256 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284256

Wrong sample exclusion

Current derived value

exclude: xenograft - Normalized exclusion flag detected: xenograft.

Raw GEO sample metadata

sample_accession: GSM5284256
sample_title: PDX4
source_name: Patient-derived xenograft - WHIM30
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284257 grouping

Sample field · Grouping · Global correction · GSM5284257

Wrong grouping

Current derived value

excluded: xenograft (excluded)

Raw GEO sample metadata

sample_accession: GSM5284257
sample_title: PDX5
source_name: Patient-derived xenograft - WHIM2
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284257 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284257

Wrong sample exclusion

Current derived value

exclude: xenograft - Normalized exclusion flag detected: xenograft.

Raw GEO sample metadata

sample_accession: GSM5284257
sample_title: PDX5
source_name: Patient-derived xenograft - WHIM2
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284258 grouping

Sample field · Grouping · Global correction · GSM5284258

Wrong grouping

Current derived value

excluded: xenograft (excluded)

Raw GEO sample metadata

sample_accession: GSM5284258
sample_title: PDX6
source_name: Patient-derived xenograft - WHIM2
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284258 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284258

Wrong sample exclusion

Current derived value

exclude: xenograft - Normalized exclusion flag detected: xenograft.

Raw GEO sample metadata

sample_accession: GSM5284258
sample_title: PDX6
source_name: Patient-derived xenograft - WHIM2
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284259 grouping

Sample field · Grouping · Global correction · GSM5284259

Wrong grouping

Current derived value

excluded: xenograft (excluded)

Raw GEO sample metadata

sample_accession: GSM5284259
sample_title: PDX7
source_name: Patient-derived xenograft - WHIM2
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

GSM5284259 exclusion decision

Sample field · Sample exclusion · Global correction · GSM5284259

Wrong sample exclusion

Current derived value

exclude: xenograft - Normalized exclusion flag detected: xenograft.

Raw GEO sample metadata

sample_accession: GSM5284259
sample_title: PDX7
source_name: Patient-derived xenograft - WHIM2
characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

Source Evidence

4 sources

GEO

Primary source

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

Dataset accession: GSE173991
Sample records: 40 GSM samples

GEO has priority for original metadata under the Phase 3J source rules.
Processed data: available.
Raw data: available.
No external source conflict is present in the current runtime data.

recount3

Not imported

Planned trusted source for processed count availability.

GEO accession: GSE173991

No recount3 project identifier has been imported for this dataset.
Once imported, recount3 has priority for processed count availability.
The recount3 source filter excludes this dataset until that linkage exists.

Expression Atlas

Not imported

Planned source for curated expression experiment links.

GEO accession: GSE173991

No Expression Atlas experiment identifier has been imported for this dataset.
Once imported, Expression Atlas has priority for curated expression experiment links.
The Expression Atlas source filter excludes this dataset until that linkage exists.

PubMed

Unavailable

Publication context when PubMed identifiers are already known.

GEO accession: GSE173991

No PubMed identifier is present in the current runtime metadata.
No live PubMed search is performed from the dataset detail page.

Dataset Feedback

0 stored

No project feedback stored for this dataset.

Original GEO Metadata

dataset_accession: GSE173991
dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer
organism: Homo sapiens
assay_type: bulk RNA-seq
processed_data_available: true
raw_data_available: true
submission_date: 2021-05-06
last_update_date: 2022-04-27
organization_name: University of North Carolina at Chapel Hill
department: Professor of Genetics, and Pathology & Laboratory Medicine; Lineberger Comprehensive Cancer Center
public_date: 2022-04-27
experiment_types: Expression profiling by high throughput sequencing
platforms: GPL16791 Illumina HiSeq 2500 (Homo sapiens)
sub_series: Not available
bioproject: PRJNA727822
supplementary_files: TXT: GSE173991_40n-cleaned_logtrans_70flt.medcent.std.v2.txt.gz
series_type: Series

Why It Matched

Tumor vs matched normal · Tissue · suitability 0%.
Prioritized for patient tissue tumor-vs-normal triage.
Prioritized assay: bulk RNA-seq is the active assay expectation.
Downgraded disease context: not a colorectal/GI cancer cohort.
Processed data is available for downstream review.
2 warnings require review.

Why It May Not Be Suitable

Multiple sample type labels or exclusion flags were detected.
Xenograft samples appear to be included.
Excluded sample type flags reduce suitability.
Non-colorectal cancer context downgraded for colorectal tumor-vs-normal tissue ranking.
Excluded model-system sample markers reduce suitability.
Missing or unclear metadata: Treatment clarity: No unclear treatment split detected in the sample metadata.
Overall score capped because comparison suitability is weak for the selected search intent.
Overall score capped because tumor/normal grouping is from a non-colorectal cancer context.
Downgraded disease context: not a colorectal/GI cancer cohort.
Comparison suitability score is below the Phase 1 recommended threshold.

Warnings

warning MIXED_SAMPLE_TYPES Multiple sample type labels or exclusion flags were detected.
warning XENOGRAFTS_INCLUDED Xenograft samples appear to be included.

Normalized Fields

106 fields

Field Value Source Origin Confidence Evidence Reason

assay_type bulk RNA-seq dataset GSE173991 Runtime Siftome inference GEO:dataset:GSE173991:c5aa6bcbfe25bc0ac0d05994c98291aaede2ea23543f8fb558e887acd503208c high confidence bulk rna-seq dataset_accession: GSE173991 dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer organism: Homo sapiens as... keyword match keyword match: bulk rna-seq

disease breast cancer dataset GSE173991 Runtime Siftome inference GEO:dataset:GSE173991:c5aa6bcbfe25bc0ac0d05994c98291aaede2ea23543f8fb558e887acd503208c high confidence breast cancer dataset_accession: GSE173991 dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer organism: Homo sapiens as... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284238 Runtime Siftome inference GEO:sample:GSM5284238:0d295cd9fe895320a344f60d53328f550023f018fd25abc40035050ea8818811 high confidence breast cancer sample_accession: GSM5284238 sample_title: TNBC10 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284239 Runtime Siftome inference GEO:sample:GSM5284239:4ebed5d5d7bb19a98bb9e18a971693d9d7eea9a6770a4e8d78b88a67b456f71e high confidence breast cancer sample_accession: GSM5284239 sample_title: TNBC8 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284240 Runtime Siftome inference GEO:sample:GSM5284240:8f2be0f928fcf97a6834fc9d88af80cb2bcca9099787bdf9b40b85d21c54932c high confidence breast cancer sample_accession: GSM5284240 sample_title: TNBC11 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284241 Runtime Siftome inference GEO:sample:GSM5284241:162b1e0886598da78bf4f5afc528cf5912d7af6cd31f7187054188737de3d6a5 high confidence breast cancer sample_accession: GSM5284241 sample_title: TNBC13 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284242 Runtime Siftome inference GEO:sample:GSM5284242:6afbde93d1046d19adedc21c842a44f2af6f7b332044e01ecd90ec395f58ad7f high confidence breast cancer sample_accession: GSM5284242 sample_title: TNBC12 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-hi... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284243 Runtime Siftome inference GEO:sample:GSM5284243:67f96d5f85d1f8bd9478f79d3aa287f5b8e98c46e39e6f28588cc9730ff55b16 high confidence breast cancer sample_accession: GSM5284243 sample_title: TNBC9 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high t... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284244 Runtime Siftome inference GEO:sample:GSM5284244:f3804c0f8e2e8146ceaa53fd1e0fff352c7888cab18112e7f2e787bb6caaa89f high confidence breast cancer sample_accession: GSM5284244 sample_title: TNBC6 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284245 Runtime Siftome inference GEO:sample:GSM5284245:022e517965eb57d23a40cb7f0a7fc9709d9568fd72c53f10942f01629f472186 high confidence breast cancer sample_accession: GSM5284245 sample_title: TNBC5 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high t... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284246 Runtime Siftome inference GEO:sample:GSM5284246:2717b799453f7ead066747e53cf908f93c5de91613e527dfad11382eff491c5b high confidence breast cancer sample_accession: GSM5284246 sample_title: TNBC1 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: LumB; tnbc-high tertiles: High; er-high t... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284247 Runtime Siftome inference GEO:sample:GSM5284247:932af0eaf3ab77d442b1f7539b8f01b9bf317d1698031edc30cf8330b7d94a03 high confidence breast cancer sample_accession: GSM5284247 sample_title: TNBC14 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284248 Runtime Siftome inference GEO:sample:GSM5284248:2f667fa143e1ff963a9fd02e533a0dcd6d8764960a4a22bc099426063670d4b6 high confidence breast cancer sample_accession: GSM5284248 sample_title: TNBC4 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284249 Runtime Siftome inference GEO:sample:GSM5284249:ddc3685337b2917dfdfe4c3b4b6e75fdf4b06b6a2e2913a602255c347de3bc21 high confidence breast cancer sample_accession: GSM5284249 sample_title: TNBC7 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; ... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284250 Runtime Siftome inference GEO:sample:GSM5284250:3d013b14e0b887663489cc9db33b38adb6631d4775038e21068ca00d90060fc4 high confidence breast cancer sample_accession: GSM5284250 sample_title: TNBC15 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Her2; tnbc-high tertiles: Medium; er-hig... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284251 Runtime Siftome inference GEO:sample:GSM5284251:5d12d1d2c5d054e9ae304f80bdffa467a4ddc32fd98c7971447307c77917b489 high confidence breast cancer sample_accession: GSM5284251 sample_title: TNBC3 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary disease match: breast cancer

disease breast cancer sample GSM5284252 Runtime Siftome inference GEO:sample:GSM5284252:8172c976dc2c517e96354e8bc37c2ce78253788822753d9b1354d9c096f06540 high confidence breast cancer sample_accession: GSM5284252 sample_title: TNBC2 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-hig... controlled vocabulary controlled vocabulary disease match: breast cancer

excluded_sample_type xenograft sample GSM5284253 Runtime Siftome inference GEO:sample:GSM5284253:fababd3448183907633c1b85f22f13d0fe7d88aeccab2eaa6e05e6459399ebd2 high confidence xenograft sample_accession: GSM5284253 sample_title: PDX1 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary xenograft match: xenograft

excluded_sample_type xenograft sample GSM5284254 Runtime Siftome inference GEO:sample:GSM5284254:ec26c67006596ffef9095969aee29621569470d02ecc00972c3dc003e5fc46ed high confidence xenograft sample_accession: GSM5284254 sample_title: PDX2 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary xenograft match: xenograft

excluded_sample_type xenograft sample GSM5284255 Runtime Siftome inference GEO:sample:GSM5284255:08a45845893d102f25968ebed2b98dc90b118a553c1358798e4501546a1b17c8 high confidence xenograft sample_accession: GSM5284255 sample_title: PDX3 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary xenograft match: xenograft

excluded_sample_type xenograft sample GSM5284256 Runtime Siftome inference GEO:sample:GSM5284256:58efa951220963497f55e99f4cd9f43638ede1f63ca43f1adc0113b5d12daeb3 high confidence xenograft sample_accession: GSM5284256 sample_title: PDX4 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary xenograft match: xenograft

excluded_sample_type xenograft sample GSM5284257 Runtime Siftome inference GEO:sample:GSM5284257:75d19e42e8e399c12045889f38d16faa6513a4832bcc5db6926ca83bc110f3fc high confidence xenograft sample_accession: GSM5284257 sample_title: PDX5 source_name: Patient-derived xenograft - WHIM2 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hig... controlled vocabulary controlled vocabulary xenograft match: xenograft

excluded_sample_type xenograft sample GSM5284258 Runtime Siftome inference GEO:sample:GSM5284258:3bd1797358075cf894197e92585a3ebcc5c4ce3d5ea502e0174f424a8b2260f9 high confidence xenograft sample_accession: GSM5284258 sample_title: PDX6 source_name: Patient-derived xenograft - WHIM2 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hig... controlled vocabulary controlled vocabulary xenograft match: xenograft

excluded_sample_type xenograft sample GSM5284259 Runtime Siftome inference GEO:sample:GSM5284259:8a394fe9f19b64b760ab7c29613f8f3795b8ffc5bbe1737627454b8518d9bf40 high confidence xenograft sample_accession: GSM5284259 sample_title: PDX7 source_name: Patient-derived xenograft - WHIM2 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hig... controlled vocabulary controlled vocabulary xenograft match: xenograft

normal_tissue_type adjacent normal sample GSM5284229 Runtime Siftome inference GEO:sample:GSM5284229:da5702d60be7181868a1af08046772ba1b3b4b951de4d5c009bd832e1a91a9b5 high confidence paired normal sample_accession: GSM5284229 sample_title: Normal-1 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284230 Runtime Siftome inference GEO:sample:GSM5284230:b318c69903f2a61e0ef79643921c0419c4ff31af5f8c0f4f97c07bb59536b0db high confidence paired normal sample_accession: GSM5284230 sample_title: Normal-2 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284231 Runtime Siftome inference GEO:sample:GSM5284231:462956bd5519a4f80ac09fbf762ce92a0ea080628d45a1fb3f4a444e89042228 high confidence paired normal sample_accession: GSM5284231 sample_title: Normal-3 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284232 Runtime Siftome inference GEO:sample:GSM5284232:52a99e186b4312bc4da11a4e56aa35c206ef0f02605034749c2c5e29c054e69a high confidence paired normal sample_accession: GSM5284232 sample_title: Normal-4 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284233 Runtime Siftome inference GEO:sample:GSM5284233:96bbbabe3dd4a382a92d7238d19c680d0c5b78f5fab2528051479e167cb12cab high confidence paired normal sample_accession: GSM5284233 sample_title: Normal-5 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284234 Runtime Siftome inference GEO:sample:GSM5284234:ab897f078939ad5801633448307805d9b700162722ac002b1c0d04a54a82ee49 high confidence paired normal sample_accession: GSM5284234 sample_title: Normal-6 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284235 Runtime Siftome inference GEO:sample:GSM5284235:136bbdb36783f1d545cf91816678d83a1dbb50a7d7227d6ac4949617be4bca24 high confidence paired normal sample_accession: GSM5284235 sample_title: Normal-7 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high t... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284236 Runtime Siftome inference GEO:sample:GSM5284236:882854c1ebfecd81a920572ee9134bd152004c37c566ab2879b744a4971d41d0 high confidence paired normal sample_accession: GSM5284236 sample_title: Normal-8 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high t... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

normal_tissue_type adjacent normal sample GSM5284237 Runtime Siftome inference GEO:sample:GSM5284237:d55baa5b9cc5a922f1f4628c09088c30074e014ff726418a6b0d71852361f535 high confidence paired normal sample_accession: GSM5284237 sample_title: Normal-9 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary normal tissue type match: paired normal

organism Homo sapiens dataset GSE173991 Runtime Siftome inference GEO:dataset:GSE173991:c5aa6bcbfe25bc0ac0d05994c98291aaede2ea23543f8fb558e887acd503208c high confidence homo sapiens dataset_accession: GSE173991 dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer organism: Homo sapiens as... keyword match keyword match: homo sapiens

sample_type normal tissue sample GSM5284220 Runtime Siftome inference GEO:sample:GSM5284220:b0a60bb3e71577a26ffe7b41d1c56b7da1b7c507186cf355cc683c4fca964b04 low confidence normal sample_accession: GSM5284220 sample_title: ER1 source_name: ER Tumor characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High ER1 controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284220 Runtime Siftome inference GEO:sample:GSM5284220:b0a60bb3e71577a26ffe7b41d1c56b7da1b7c507186cf355cc683c4fca964b04 low confidence tumor sample_accession: GSM5284220 sample_title: ER1 source_name: ER Tumor characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High ER1 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284221 Runtime Siftome inference GEO:sample:GSM5284221:f077474466716c6d529473744f751b10777ad3b17b0f23c1eb5e135b01e9f8ae low confidence tumor sample_accession: GSM5284221 sample_title: ER2 source_name: ER Tumor characteristics: tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium ER2 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284222 Runtime Siftome inference GEO:sample:GSM5284222:50c2921187c84e101284b810c435cc043e4de9e53bea09e323a1b45c650d44af low confidence tumor sample_accession: GSM5284222 sample_title: ER3 source_name: ER Tumor characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium ER3 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284223 Runtime Siftome inference GEO:sample:GSM5284223:0c793aff6741a5e111903739bb0fe94b22368cb6d51b4a6dbbd3ded1fa958034 low confidence normal sample_accession: GSM5284223 sample_title: ER4 source_name: ER Tumor characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium ER4 controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284223 Runtime Siftome inference GEO:sample:GSM5284223:0c793aff6741a5e111903739bb0fe94b22368cb6d51b4a6dbbd3ded1fa958034 low confidence tumor sample_accession: GSM5284223 sample_title: ER4 source_name: ER Tumor characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium ER4 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284224 Runtime Siftome inference GEO:sample:GSM5284224:9b9f9d007a0832490b88a9abe87e6177ff2ca4833515a48697c799e93ec0a7c5 low confidence tumor sample_accession: GSM5284224 sample_title: ER5 source_name: ER Tumor characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium ER5 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284225 Runtime Siftome inference GEO:sample:GSM5284225:ff773702b500a49e49b9385417a8a5b1aa1d67e590f702f94e1ab0efe777bb6b low confidence tumor sample_accession: GSM5284225 sample_title: ER6 source_name: ER Tumor characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium ER6 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284226 Runtime Siftome inference GEO:sample:GSM5284226:f02747893c213e25659cba417173cfb8c398b7f4896fbf676cad252ae4a0e45a low confidence tumor sample_accession: GSM5284226 sample_title: ER7 source_name: ER Tumor characteristics: tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium ER7 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284227 Runtime Siftome inference GEO:sample:GSM5284227:e378c9c0074b5f40f6d88fc12d98c5770d8d348b128293ff938c43eb246caea1 low confidence normal sample_accession: GSM5284227 sample_title: ER8 source_name: ER Tumor characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High ER8 controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284227 Runtime Siftome inference GEO:sample:GSM5284227:e378c9c0074b5f40f6d88fc12d98c5770d8d348b128293ff938c43eb246caea1 low confidence tumor sample_accession: GSM5284227 sample_title: ER8 source_name: ER Tumor characteristics: tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High ER8 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284228 Runtime Siftome inference GEO:sample:GSM5284228:84313f8da4afa6880849b1c8919337db281287086117617def4788303cdc1041 low confidence tumor sample_accession: GSM5284228 sample_title: ER9 source_name: ER Tumor characteristics: tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium ER9 controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284229 Runtime Siftome inference GEO:sample:GSM5284229:da5702d60be7181868a1af08046772ba1b3b4b951de4d5c009bd832e1a91a9b5 low confidence normal sample_accession: GSM5284229 sample_title: Normal-1 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284229 Runtime Siftome inference GEO:sample:GSM5284229:da5702d60be7181868a1af08046772ba1b3b4b951de4d5c009bd832e1a91a9b5 low confidence tumor sample_accession: GSM5284229 sample_title: Normal-1 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284230 Runtime Siftome inference GEO:sample:GSM5284230:b318c69903f2a61e0ef79643921c0419c4ff31af5f8c0f4f97c07bb59536b0db low confidence normal sample_accession: GSM5284230 sample_title: Normal-2 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284230 Runtime Siftome inference GEO:sample:GSM5284230:b318c69903f2a61e0ef79643921c0419c4ff31af5f8c0f4f97c07bb59536b0db low confidence tumor sample_accession: GSM5284230 sample_title: Normal-2 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284231 Runtime Siftome inference GEO:sample:GSM5284231:462956bd5519a4f80ac09fbf762ce92a0ea080628d45a1fb3f4a444e89042228 low confidence normal sample_accession: GSM5284231 sample_title: Normal-3 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284231 Runtime Siftome inference GEO:sample:GSM5284231:462956bd5519a4f80ac09fbf762ce92a0ea080628d45a1fb3f4a444e89042228 low confidence tumor sample_accession: GSM5284231 sample_title: Normal-3 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284232 Runtime Siftome inference GEO:sample:GSM5284232:52a99e186b4312bc4da11a4e56aa35c206ef0f02605034749c2c5e29c054e69a low confidence normal sample_accession: GSM5284232 sample_title: Normal-4 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284232 Runtime Siftome inference GEO:sample:GSM5284232:52a99e186b4312bc4da11a4e56aa35c206ef0f02605034749c2c5e29c054e69a low confidence tumor sample_accession: GSM5284232 sample_title: Normal-4 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284233 Runtime Siftome inference GEO:sample:GSM5284233:96bbbabe3dd4a382a92d7238d19c680d0c5b78f5fab2528051479e167cb12cab low confidence normal sample_accession: GSM5284233 sample_title: Normal-5 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284233 Runtime Siftome inference GEO:sample:GSM5284233:96bbbabe3dd4a382a92d7238d19c680d0c5b78f5fab2528051479e167cb12cab low confidence tumor sample_accession: GSM5284233 sample_title: Normal-5 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284234 Runtime Siftome inference GEO:sample:GSM5284234:ab897f078939ad5801633448307805d9b700162722ac002b1c0d04a54a82ee49 low confidence normal sample_accession: GSM5284234 sample_title: Normal-6 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284234 Runtime Siftome inference GEO:sample:GSM5284234:ab897f078939ad5801633448307805d9b700162722ac002b1c0d04a54a82ee49 low confidence tumor sample_accession: GSM5284234 sample_title: Normal-6 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284235 Runtime Siftome inference GEO:sample:GSM5284235:136bbdb36783f1d545cf91816678d83a1dbb50a7d7227d6ac4949617be4bca24 low confidence normal sample_accession: GSM5284235 sample_title: Normal-7 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high t... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284235 Runtime Siftome inference GEO:sample:GSM5284235:136bbdb36783f1d545cf91816678d83a1dbb50a7d7227d6ac4949617be4bca24 low confidence tumor sample_accession: GSM5284235 sample_title: Normal-7 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high t... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284236 Runtime Siftome inference GEO:sample:GSM5284236:882854c1ebfecd81a920572ee9134bd152004c37c566ab2879b744a4971d41d0 low confidence normal sample_accession: GSM5284236 sample_title: Normal-8 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high t... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284236 Runtime Siftome inference GEO:sample:GSM5284236:882854c1ebfecd81a920572ee9134bd152004c37c566ab2879b744a4971d41d0 low confidence tumor sample_accession: GSM5284236 sample_title: Normal-8 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high t... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284237 Runtime Siftome inference GEO:sample:GSM5284237:d55baa5b9cc5a922f1f4628c09088c30074e014ff726418a6b0d71852361f535 low confidence normal sample_accession: GSM5284237 sample_title: Normal-9 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284237 Runtime Siftome inference GEO:sample:GSM5284237:d55baa5b9cc5a922f1f4628c09088c30074e014ff726418a6b0d71852361f535 low confidence tumor sample_accession: GSM5284237 sample_title: Normal-9 source_name: Paired Normal Tissue characteristics: tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tert... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284238 Runtime Siftome inference GEO:sample:GSM5284238:0d295cd9fe895320a344f60d53328f550023f018fd25abc40035050ea8818811 low confidence normal sample_accession: GSM5284238 sample_title: TNBC10 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284238 Runtime Siftome inference GEO:sample:GSM5284238:0d295cd9fe895320a344f60d53328f550023f018fd25abc40035050ea8818811 low confidence tumor sample_accession: GSM5284238 sample_title: TNBC10 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284239 Runtime Siftome inference GEO:sample:GSM5284239:4ebed5d5d7bb19a98bb9e18a971693d9d7eea9a6770a4e8d78b88a67b456f71e low confidence tumor sample_accession: GSM5284239 sample_title: TNBC8 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284240 Runtime Siftome inference GEO:sample:GSM5284240:8f2be0f928fcf97a6834fc9d88af80cb2bcca9099787bdf9b40b85d21c54932c low confidence tumor sample_accession: GSM5284240 sample_title: TNBC11 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284241 Runtime Siftome inference GEO:sample:GSM5284241:162b1e0886598da78bf4f5afc528cf5912d7af6cd31f7187054188737de3d6a5 low confidence normal sample_accession: GSM5284241 sample_title: TNBC13 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284241 Runtime Siftome inference GEO:sample:GSM5284241:162b1e0886598da78bf4f5afc528cf5912d7af6cd31f7187054188737de3d6a5 low confidence tumor sample_accession: GSM5284241 sample_title: TNBC13 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284242 Runtime Siftome inference GEO:sample:GSM5284242:6afbde93d1046d19adedc21c842a44f2af6f7b332044e01ecd90ec395f58ad7f low confidence tumor sample_accession: GSM5284242 sample_title: TNBC12 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-hi... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284243 Runtime Siftome inference GEO:sample:GSM5284243:67f96d5f85d1f8bd9478f79d3aa287f5b8e98c46e39e6f28588cc9730ff55b16 low confidence tumor sample_accession: GSM5284243 sample_title: TNBC9 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high t... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284244 Runtime Siftome inference GEO:sample:GSM5284244:f3804c0f8e2e8146ceaa53fd1e0fff352c7888cab18112e7f2e787bb6caaa89f low confidence tumor sample_accession: GSM5284244 sample_title: TNBC6 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284245 Runtime Siftome inference GEO:sample:GSM5284245:022e517965eb57d23a40cb7f0a7fc9709d9568fd72c53f10942f01629f472186 low confidence tumor sample_accession: GSM5284245 sample_title: TNBC5 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high t... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284246 Runtime Siftome inference GEO:sample:GSM5284246:2717b799453f7ead066747e53cf908f93c5de91613e527dfad11382eff491c5b low confidence tumor sample_accession: GSM5284246 sample_title: TNBC1 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: LumB; tnbc-high tertiles: High; er-high t... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284247 Runtime Siftome inference GEO:sample:GSM5284247:932af0eaf3ab77d442b1f7539b8f01b9bf317d1698031edc30cf8330b7d94a03 low confidence tumor sample_accession: GSM5284247 sample_title: TNBC14 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284248 Runtime Siftome inference GEO:sample:GSM5284248:2f667fa143e1ff963a9fd02e533a0dcd6d8764960a4a22bc099426063670d4b6 low confidence normal sample_accession: GSM5284248 sample_title: TNBC4 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284248 Runtime Siftome inference GEO:sample:GSM5284248:2f667fa143e1ff963a9fd02e533a0dcd6d8764960a4a22bc099426063670d4b6 low confidence tumor sample_accession: GSM5284248 sample_title: TNBC4 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM5284249 Runtime Siftome inference GEO:sample:GSM5284249:ddc3685337b2917dfdfe4c3b4b6e75fdf4b06b6a2e2913a602255c347de3bc21 low confidence normal sample_accession: GSM5284249 sample_title: TNBC7 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; ... controlled vocabulary controlled vocabulary sample type match: normal

sample_type tumor sample sample GSM5284249 Runtime Siftome inference GEO:sample:GSM5284249:ddc3685337b2917dfdfe4c3b4b6e75fdf4b06b6a2e2913a602255c347de3bc21 low confidence tumor sample_accession: GSM5284249 sample_title: TNBC7 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; ... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284250 Runtime Siftome inference GEO:sample:GSM5284250:3d013b14e0b887663489cc9db33b38adb6631d4775038e21068ca00d90060fc4 low confidence tumor sample_accession: GSM5284250 sample_title: TNBC15 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Her2; tnbc-high tertiles: Medium; er-hig... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284251 Runtime Siftome inference GEO:sample:GSM5284251:5d12d1d2c5d054e9ae304f80bdffa467a4ddc32fd98c7971447307c77917b489 low confidence tumor sample_accession: GSM5284251 sample_title: TNBC3 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284252 Runtime Siftome inference GEO:sample:GSM5284252:8172c976dc2c517e96354e8bc37c2ce78253788822753d9b1354d9c096f06540 low confidence tumor sample_accession: GSM5284252 sample_title: TNBC2 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-hig... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284253 Runtime Siftome inference GEO:sample:GSM5284253:fababd3448183907633c1b85f22f13d0fe7d88aeccab2eaa6e05e6459399ebd2 low confidence tumor sample_accession: GSM5284253 sample_title: PDX1 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284254 Runtime Siftome inference GEO:sample:GSM5284254:ec26c67006596ffef9095969aee29621569470d02ecc00972c3dc003e5fc46ed low confidence tumor sample_accession: GSM5284254 sample_title: PDX2 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284255 Runtime Siftome inference GEO:sample:GSM5284255:08a45845893d102f25968ebed2b98dc90b118a553c1358798e4501546a1b17c8 low confidence tumor sample_accession: GSM5284255 sample_title: PDX3 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284256 Runtime Siftome inference GEO:sample:GSM5284256:58efa951220963497f55e99f4cd9f43638ede1f63ca43f1adc0113b5d12daeb3 low confidence tumor sample_accession: GSM5284256 sample_title: PDX4 source_name: Patient-derived xenograft - WHIM30 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hi... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284257 Runtime Siftome inference GEO:sample:GSM5284257:75d19e42e8e399c12045889f38d16faa6513a4832bcc5db6926ca83bc110f3fc low confidence tumor sample_accession: GSM5284257 sample_title: PDX5 source_name: Patient-derived xenograft - WHIM2 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hig... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284258 Runtime Siftome inference GEO:sample:GSM5284258:3bd1797358075cf894197e92585a3ebcc5c4ce3d5ea502e0174f424a8b2260f9 low confidence tumor sample_accession: GSM5284258 sample_title: PDX6 source_name: Patient-derived xenograft - WHIM2 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hig... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM5284259 Runtime Siftome inference GEO:sample:GSM5284259:8a394fe9f19b64b760ab7c29613f8f3795b8ffc5bbe1737627454b8518d9bf40 low confidence tumor sample_accession: GSM5284259 sample_title: PDX7 source_name: Patient-derived xenograft - WHIM2 characteristics: tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-hig... controlled vocabulary controlled vocabulary sample type match: tumor

tissue breast dataset GSE173991 Runtime Siftome inference GEO:dataset:GSE173991:c5aa6bcbfe25bc0ac0d05994c98291aaede2ea23543f8fb558e887acd503208c low confidence breast dataset_accession: GSE173991 dataset_title: Integrated Metabolic Profiling and Gene Expression Analysis Reveals Therapeutic Modalities in Breast Cancer organism: Homo sapiens as... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284238 Runtime Siftome inference GEO:sample:GSM5284238:0d295cd9fe895320a344f60d53328f550023f018fd25abc40035050ea8818811 low confidence breast sample_accession: GSM5284238 sample_title: TNBC10 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284239 Runtime Siftome inference GEO:sample:GSM5284239:4ebed5d5d7bb19a98bb9e18a971693d9d7eea9a6770a4e8d78b88a67b456f71e low confidence breast sample_accession: GSM5284239 sample_title: TNBC8 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284240 Runtime Siftome inference GEO:sample:GSM5284240:8f2be0f928fcf97a6834fc9d88af80cb2bcca9099787bdf9b40b85d21c54932c low confidence breast sample_accession: GSM5284240 sample_title: TNBC11 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284241 Runtime Siftome inference GEO:sample:GSM5284241:162b1e0886598da78bf4f5afc528cf5912d7af6cd31f7187054188737de3d6a5 low confidence breast sample_accession: GSM5284241 sample_title: TNBC13 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284242 Runtime Siftome inference GEO:sample:GSM5284242:6afbde93d1046d19adedc21c842a44f2af6f7b332044e01ecd90ec395f58ad7f low confidence breast sample_accession: GSM5284242 sample_title: TNBC12 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-hi... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284243 Runtime Siftome inference GEO:sample:GSM5284243:67f96d5f85d1f8bd9478f79d3aa287f5b8e98c46e39e6f28588cc9730ff55b16 low confidence breast sample_accession: GSM5284243 sample_title: TNBC9 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high t... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284244 Runtime Siftome inference GEO:sample:GSM5284244:f3804c0f8e2e8146ceaa53fd1e0fff352c7888cab18112e7f2e787bb6caaa89f low confidence breast sample_accession: GSM5284244 sample_title: TNBC6 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284245 Runtime Siftome inference GEO:sample:GSM5284245:022e517965eb57d23a40cb7f0a7fc9709d9568fd72c53f10942f01629f472186 low confidence breast sample_accession: GSM5284245 sample_title: TNBC5 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high t... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284246 Runtime Siftome inference GEO:sample:GSM5284246:2717b799453f7ead066747e53cf908f93c5de91613e527dfad11382eff491c5b low confidence breast sample_accession: GSM5284246 sample_title: TNBC1 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: LumB; tnbc-high tertiles: High; er-high t... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284247 Runtime Siftome inference GEO:sample:GSM5284247:932af0eaf3ab77d442b1f7539b8f01b9bf317d1698031edc30cf8330b7d94a03 low confidence breast sample_accession: GSM5284247 sample_title: TNBC14 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284248 Runtime Siftome inference GEO:sample:GSM5284248:2f667fa143e1ff963a9fd02e533a0dcd6d8764960a4a22bc099426063670d4b6 low confidence breast sample_accession: GSM5284248 sample_title: TNBC4 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284249 Runtime Siftome inference GEO:sample:GSM5284249:ddc3685337b2917dfdfe4c3b4b6e75fdf4b06b6a2e2913a602255c347de3bc21 low confidence breast sample_accession: GSM5284249 sample_title: TNBC7 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; ... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284250 Runtime Siftome inference GEO:sample:GSM5284250:3d013b14e0b887663489cc9db33b38adb6631d4775038e21068ca00d90060fc4 low confidence breast sample_accession: GSM5284250 sample_title: TNBC15 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Her2; tnbc-high tertiles: Medium; er-hig... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284251 Runtime Siftome inference GEO:sample:GSM5284251:5d12d1d2c5d054e9ae304f80bdffa467a4ddc32fd98c7971447307c77917b489 low confidence breast sample_accession: GSM5284251 sample_title: TNBC3 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high ... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM5284252 Runtime Siftome inference GEO:sample:GSM5284252:8172c976dc2c517e96354e8bc37c2ce78253788822753d9b1354d9c096f06540 low confidence breast sample_accession: GSM5284252 sample_title: TNBC2 source_name: Triple negative breast cancer characteristics: tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-hig... controlled vocabulary controlled vocabulary tissue match: breast

Sample Group Preview

Possible case samples

Samples currently treated as the comparison case group.

17

GSM5284221 ER2 tumor sample Case marker detected. ER Tumor tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284222 ER3 tumor sample Case marker detected. ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284224 ER5 tumor sample Case marker detected. ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284225 ER6 tumor sample Case marker detected. ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284226 ER7 tumor sample Case marker detected. ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284228 ER9 tumor sample Case marker detected. ER Tumor tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284239 TNBC8 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284240 TNBC11 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284242 TNBC12 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284243 TNBC9 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284244 TNBC6 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284245 TNBC5 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284246 TNBC1 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: LumB; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284247 TNBC14 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284250 TNBC15 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Her2; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284251 TNBC3 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284252 TNBC2 tumor sample Case marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium

Possible control samples

Samples currently treated as controls or baseline.

16

GSM5284220 ER1 normal tissue Control marker detected. ER Tumor tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284223 ER4 normal tissue Control marker detected. ER Tumor tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284227 ER8 normal tissue Control marker detected. ER Tumor tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284229 Normal-1 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284230 Normal-2 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284231 Normal-3 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284232 Normal-4 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284233 Normal-5 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284234 Normal-6 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284235 Normal-7 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: High
GSM5284236 Normal-8 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284237 Normal-9 normal tissue Control marker detected. Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284238 TNBC10 normal tissue Control marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284241 TNBC13 normal tissue Control marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284248 TNBC4 normal tissue Control marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284249 TNBC7 normal tissue Control marker detected. Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; er-high tertiles: Low

Unassigned samples

Samples with no explicit case or control marker.

0

No samples

Excluded samples

Samples excluded from grouping by hard exclusion rules.

7

GSM5284253 PDX1 excluded: xenograft xenograft: Normalized exclusion flag detected: xenograft. Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284254 PDX2 excluded: xenograft xenograft: Normalized exclusion flag detected: xenograft. Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284255 PDX3 excluded: xenograft xenograft: Normalized exclusion flag detected: xenograft. Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284256 PDX4 excluded: xenograft xenograft: Normalized exclusion flag detected: xenograft. Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284257 PDX5 excluded: xenograft xenograft: Normalized exclusion flag detected: xenograft. Patient-derived xenograft - WHIM2 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284258 PDX6 excluded: xenograft xenograft: Normalized exclusion flag detected: xenograft. Patient-derived xenograft - WHIM2 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284259 PDX7 excluded: xenograft xenograft: Normalized exclusion flag detected: xenograft. Patient-derived xenograft - WHIM2 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

Ambiguous samples

Samples that need manual review before trusting grouping.

0

No samples

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: Tissue 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.

Detected Sample Groups

normal tissue

16 samples

GSM5284220 ER1 ER Tumor tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284223 ER4 ER Tumor tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284227 ER8 ER Tumor tumor status: ER+; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284229 Normal-1 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284230 Normal-2 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284231 Normal-3 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284232 Normal-4 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284233 Normal-5 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284234 Normal-6 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284235 Normal-7 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: High
GSM5284236 Normal-8 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284237 Normal-9 Paired Normal Tissue tumor status: Normal; pam50: Normal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284238 TNBC10 Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284241 TNBC13 Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: Medium
GSM5284248 TNBC4 Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284249 TNBC7 Triple negative breast cancer tumor status: TNBC; pam50: Normal-like; tnbc-high tertiles: Medium; er-high tertiles: Low

tumor sample

17 samples

GSM5284221 ER2 ER Tumor tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284222 ER3 ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284224 ER5 ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284225 ER6 ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284226 ER7 ER Tumor tumor status: ER+; pam50: LumA; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284228 ER9 ER Tumor tumor status: ER+; pam50: LumB; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284239 TNBC8 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284240 TNBC11 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284242 TNBC12 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284243 TNBC9 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284244 TNBC6 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284245 TNBC5 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Low; er-high tertiles: High
GSM5284246 TNBC1 Triple negative breast cancer tumor status: TNBC; pam50: LumB; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284247 TNBC14 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284250 TNBC15 Triple negative breast cancer tumor status: TNBC; pam50: Her2; tnbc-high tertiles: Medium; er-high tertiles: Medium
GSM5284251 TNBC3 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284252 TNBC2 Triple negative breast cancer tumor status: TNBC; pam50: Basal; tnbc-high tertiles: Medium; er-high tertiles: Medium

excluded: xenograft

7 samples

GSM5284253 PDX1 Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284254 PDX2 Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284255 PDX3 Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284256 PDX4 Patient-derived xenograft - WHIM30 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284257 PDX5 Patient-derived xenograft - WHIM2 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284258 PDX6 Patient-derived xenograft - WHIM2 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low
GSM5284259 PDX7 Patient-derived xenograft - WHIM2 tumor status: PDX; pam50: Basal; tnbc-high tertiles: High; er-high tertiles: Low

Score Breakdown

100%

relevance

Disease or condition metadata normalized.
Organism normalized.
Assay type normalized.
Tissue metadata normalized.

0%

comparison suitability

Tumor and normal sample groups detected.
Excluded sample type flags reduce suitability.
Matched tumor/normal design boosted for colorectal tumor-vs-normal tissue triage.
Patient tissue or biopsy specimens boosted for tissue comparison triage.
Non-colorectal cancer context downgraded for colorectal tumor-vs-normal tissue ranking.
Excluded model-system sample markers reduce suitability.

100%

metadata quality

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: Tissue 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.

100%

data availability

Processed data available.
Raw data available.

34%

overall

Weighted score: 30% relevance, 30% comparison suitability, 25% metadata quality, 15% data availability.
Overall score capped because comparison suitability is weak for the selected search intent.
Overall score capped because tumor/normal grouping is from a non-colorectal cancer context.

Sample Links

40 samples

Review Audit Trail

0 decisions

No review decisions have been stored for this dataset.