Siftome Phase 3L

GSE141142

An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers

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: 2019-11-27
Last update: 2020-03-23
Organization: University of Connecticut
Department: Not available
Public date: 2019-11-28
Experiment types: Expression profiling by high throughput sequencing
Platforms: GPL18573 Illumina NextSeq 500 (Homo sapiens)
Series type: Series
SubSeries: Not available
BioProject: PRJNA592199
Supplementary files: TXT: GSE141142_GeneExpression_TPM.txt.gz
Organism: Homo sapiens
Assay: bulk RNA-seq
Samples: 24
Study design: Tumor vs unmatched 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 unmatched normal Tissue

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

Analysis Readiness

Review before analysis

85% 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

3/15 pts

Unassigned or review-needed samples remain before analysis.

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

3 samples need manual grouping review.

Next Steps

Resolve unassigned or review-needed samples in the grouping table.

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

Needs review

3 review-needed samples and 0 unassigned samples remain.

Resolve ambiguous and unassigned samples before finalizing the contrast.

Exclusion decisions recorded

Ready

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

Record any manual exclusions in the downstream analysis notes.

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

Bioinformatician review required

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

Analysis readiness has blockers that must be resolved before DE.
One or more samples were flagged for manual review.

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. No excluded sample type flags detected. 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.
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 unmatched normal Study design remains rule-derived: Tumor vs unmatched normal.
Specimen/source Tissue Specimen/source remains rule-derived: Tissue.
Likely case group tumor sample 19 samples
Likely control group normal tissue 5 samples

Warnings

AMBIGUOUS_SAMPLES_DETECTED info Ambiguous sample metadata was detected in 3 sample(s): GSM4196016 matched "unknown"; GSM4196017 matched "unknown"; GSM4196021 matched "unknown". Review these samples before inclusion or manual group assignment.

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 unmatched 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 1 active warning 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 unmatched normal · Tissue · suitability 0%. 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 1 warning require review. Contributed to match or upgrade evidence.
Caution fact Ambiguous sample metadata was detected in 3 sample(s): GSM4196016 matched "unknown"; GSM4196017 matched "unknown"; GSM4196021 matched "unknown". Review these samples before inclusion or manual group assignment. 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 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 unmatched 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: GSE141142
organism: Homo sapiens
dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers

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: GPL18573 Illumina NextSeq 500 (Homo sapiens)
dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers

Study design

Dataset field · Study design · Global correction

Wrong study design

Current derived value

Tumor vs unmatched normal

Raw GEO study and sample metadata

dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers
experiment_types: Expression profiling by high throughput sequencing
sample_context: GSM4196010: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196011: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196012: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: 
[Correction source preview truncated.]

Specimen/source type

Dataset field · Specimen/source · Global correction

Wrong specimen/source

Current derived value

Tissue

Raw GEO sample source metadata

dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers
sample_context: GSM4196010: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196011: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196012: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM419
[Correction source preview truncated.]

Disease context

Dataset field · Disease context · Global correction

Wrong disease context

Current derived value

breast cancer, ovarian cancer

Raw GEO disease context metadata

dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers
sample_context: GSM4196010: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196011: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196012: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM419
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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: GSE141142
dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers
organism: Homo sapiens
assay_type: bulk RNA-seq
sample_context: GSM4196010: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196011: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196012: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.re
[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: GSE141142
dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers
organism: Homo sapiens
assay_type: bulk RNA-seq
sample_context: GSM4196010: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196011: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196012: source_name=Breast; characteristics=cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.re
[Correction source preview truncated.]

GSM4196010 grouping

Sample field · Grouping · Global correction · GSM4196010

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196010
sample_title: 020_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196010 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196010

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196010
sample_title: 020_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196011 grouping

Sample field · Grouping · Global correction · GSM4196011

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196011
sample_title: 026_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196011 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196011

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196011
sample_title: 026_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196012 grouping

Sample field · Grouping · Global correction · GSM4196012

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196012
sample_title: 044_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196012 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196012

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196012
sample_title: 044_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196013 grouping

Sample field · Grouping · Global correction · GSM4196013

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196013
sample_title: 049_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196013 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196013

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196013
sample_title: 049_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196014 grouping

Sample field · Grouping · Global correction · GSM4196014

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196014
sample_title: 053_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Carrier; Sex: Female

GSM4196014 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196014

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196014
sample_title: 053_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Carrier; Sex: Female

GSM4196015 grouping

Sample field · Grouping · Global correction · GSM4196015

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196015
sample_title: 062_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196015 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196015

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196015
sample_title: 062_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196016 grouping

Sample field · Grouping · Global correction · GSM4196016

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196016
sample_title: 064_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female

GSM4196016 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196016

Wrong sample exclusion

Current derived value

review: ambiguous sample - Ambiguous sample metadata detected.

Raw GEO sample metadata

sample_accession: GSM4196016
sample_title: 064_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female

GSM4196017 grouping

Sample field · Grouping · Global correction · GSM4196017

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196017
sample_title: 067_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female

GSM4196017 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196017

Wrong sample exclusion

Current derived value

review: ambiguous sample - Ambiguous sample metadata detected.

Raw GEO sample metadata

sample_accession: GSM4196017
sample_title: 067_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female

GSM4196018 grouping

Sample field · Grouping · Global correction · GSM4196018

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196018
sample_title: 069_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196018 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196018

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196018
sample_title: 069_BC
source_name: Breast
characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196019 grouping

Sample field · Grouping · Global correction · GSM4196019

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196019
sample_title: 004_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Non-Carrier; Sex: Female

GSM4196019 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196019

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196019
sample_title: 004_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Non-Carrier; Sex: Female

GSM4196020 grouping

Sample field · Grouping · Global correction · GSM4196020

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196020
sample_title: 017_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196020 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196020

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196020
sample_title: 017_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196021 grouping

Sample field · Grouping · Global correction · GSM4196021

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196021
sample_title: 031_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: NA; brca.study.entry: Unknown; Sex: Female

GSM4196021 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196021

Wrong sample exclusion

Current derived value

review: ambiguous sample - Ambiguous sample metadata detected.

Raw GEO sample metadata

sample_accession: GSM4196021
sample_title: 031_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: NA; brca.study.entry: Unknown; Sex: Female

GSM4196022 grouping

Sample field · Grouping · Global correction · GSM4196022

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196022
sample_title: 038_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196022 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196022

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196022
sample_title: 038_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196023 grouping

Sample field · Grouping · Global correction · GSM4196023

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196023
sample_title: 043_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196023 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196023

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196023
sample_title: 043_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196024 grouping

Sample field · Grouping · Global correction · GSM4196024

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196024
sample_title: 047_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196024 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196024

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196024
sample_title: 047_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196025 grouping

Sample field · Grouping · Global correction · GSM4196025

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196025
sample_title: 051_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196025 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196025

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196025
sample_title: 051_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female

GSM4196026 grouping

Sample field · Grouping · Global correction · GSM4196026

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196026
sample_title: 056_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196026 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196026

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196026
sample_title: 056_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196027 grouping

Sample field · Grouping · Global correction · GSM4196027

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196027
sample_title: 058_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196027 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196027

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196027
sample_title: 058_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female

GSM4196028 grouping

Sample field · Grouping · Global correction · GSM4196028

Wrong grouping

Current derived value

tumor sample (case)

Raw GEO sample metadata

sample_accession: GSM4196028
sample_title: 065_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196028 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196028

Wrong sample exclusion

Current derived value

Included in derived sample grouping as tumor sample

Raw GEO sample metadata

sample_accession: GSM4196028
sample_title: 065_EOS
source_name: Overy
characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

GSM4196029 grouping

Sample field · Grouping · Global correction · GSM4196029

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM4196029
sample_title: 008Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196029 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196029

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM4196029
sample_title: 008Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196030 grouping

Sample field · Grouping · Global correction · GSM4196030

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM4196030
sample_title: 011Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196030 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196030

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM4196030
sample_title: 011Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196031 grouping

Sample field · Grouping · Global correction · GSM4196031

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM4196031
sample_title: 012Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196031 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196031

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM4196031
sample_title: 012Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196032 grouping

Sample field · Grouping · Global correction · GSM4196032

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM4196032
sample_title: 016Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196032 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196032

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM4196032
sample_title: 016Norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196033 grouping

Sample field · Grouping · Global correction · GSM4196033

Wrong grouping

Current derived value

normal tissue (control)

Raw GEO sample metadata

sample_accession: GSM4196033
sample_title: 045norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

GSM4196033 exclusion decision

Sample field · Sample exclusion · Global correction · GSM4196033

Wrong sample exclusion

Current derived value

Included in derived sample grouping as normal tissue

Raw GEO sample metadata

sample_accession: GSM4196033
sample_title: 045norm
source_name: Breast
characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

Source Evidence

4 sources

GEO

Primary source

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

Dataset accession: GSE141142
Sample records: 24 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: GSE141142

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: GSE141142

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: GSE141142

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: GSE141142
dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers
organism: Homo sapiens
assay_type: bulk RNA-seq
processed_data_available: true
raw_data_available: true
submission_date: 2019-11-27
last_update_date: 2020-03-23
organization_name: University of Connecticut
department: Not available
public_date: 2019-11-28
experiment_types: Expression profiling by high throughput sequencing
platforms: GPL18573 Illumina NextSeq 500 (Homo sapiens)
sub_series: Not available
bioproject: PRJNA592199
supplementary_files: TXT: GSE141142_GeneExpression_TPM.txt.gz
series_type: Series

Why It Matched

Tumor vs unmatched normal · Tissue · suitability 0%.
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.
1 warning require review.

Why It May Not Be Suitable

Ambiguous sample metadata was detected in 3 sample(s): GSM4196016 matched "unknown"; GSM4196017 matched "unknown"; GSM4196021 matched "unknown". Review these samples before inclusion or manual group assignment.
Non-colorectal cancer context downgraded for colorectal tumor-vs-normal tissue ranking.
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

info AMBIGUOUS_SAMPLES_DETECTED Ambiguous sample metadata was detected in 3 sample(s): GSM4196016 matched "unknown"; GSM4196017 matched "unknown"; GSM4196021 matched "unknown". Review these samples before inclusion or manual group assignment.

Normalized Fields

78 fields

Field Value Source Origin Confidence Evidence Reason

assay_type bulk RNA-seq dataset GSE141142 Runtime Siftome inference GEO:dataset:GSE141142:c3b4f41756217feb03b5ee69f30c663976dbe8ee18125283ec30105f1e7987ef high confidence bulk rna-seq dataset_accession: GSE141142 dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers organism: Homo sapiens assay_ty... keyword match keyword match: bulk rna-seq

disease breast cancer dataset GSE141142 Runtime Siftome inference GEO:dataset:GSE141142:c3b4f41756217feb03b5ee69f30c663976dbe8ee18125283ec30105f1e7987ef medium confidence brca dataset_accession: GSE141142 dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers organism: Homo sapiens assay_ty... controlled vocabulary controlled vocabulary disease match: brca

disease ovarian cancer dataset GSE141142 Runtime Siftome inference GEO:dataset:GSE141142:c3b4f41756217feb03b5ee69f30c663976dbe8ee18125283ec30105f1e7987ef high confidence ovarian cancer dataset_accession: GSE141142 dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers organism: Homo sapiens assay_ty... controlled vocabulary controlled vocabulary disease match: ovarian cancer

disease breast cancer sample GSM4196010 Runtime Siftome inference GEO:sample:GSM4196010:e635dd04c35df563561193e97c8ab054d8b007c9e1774e18406773669ab63532 medium confidence brca sample_accession: GSM4196010 sample_title: 020_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196011 Runtime Siftome inference GEO:sample:GSM4196011:86e60d1e37c67261b547ade1e00f70390ab977eb54e31f4a79d44bd4520eb536 medium confidence brca sample_accession: GSM4196011 sample_title: 026_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196012 Runtime Siftome inference GEO:sample:GSM4196012:461b813faa9708adc7bfdfaa7561922f68dca094d4ca0053dd9e0189157d40f4 medium confidence brca sample_accession: GSM4196012 sample_title: 044_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196013 Runtime Siftome inference GEO:sample:GSM4196013:8c6aa5059115848c9b05355743fb99c31308326907584f2ecc506c2dbbc301cb medium confidence brca sample_accession: GSM4196013 sample_title: 049_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196014 Runtime Siftome inference GEO:sample:GSM4196014:df9562a337035368aa624a3b3273c03dd668a6a5f3e8f2c3820d1a2887a104f5 medium confidence brca sample_accession: GSM4196014 sample_title: 053_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196015 Runtime Siftome inference GEO:sample:GSM4196015:6cc3ce90e4d1677f5cda704a6368e37fb22e6b0296aa1c3237ecce62f153b13e medium confidence brca sample_accession: GSM4196015 sample_title: 062_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196016 Runtime Siftome inference GEO:sample:GSM4196016:6044b34056f430d9734b2db2c715e6148e8add354e7a41c0d0688c9b173a83da medium confidence brca sample_accession: GSM4196016 sample_title: 064_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196017 Runtime Siftome inference GEO:sample:GSM4196017:3be7a6b633ec838b3cf25129c5d986ae4f20390f72ae5eb9b65d6f3d673b1f5c medium confidence brca sample_accession: GSM4196017 sample_title: 067_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196018 Runtime Siftome inference GEO:sample:GSM4196018:48864a14800e0ae171ba0764ff6b717840a6f657705b282a952af828faf5ecae medium confidence brca sample_accession: GSM4196018 sample_title: 069_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196019 Runtime Siftome inference GEO:sample:GSM4196019:3af303e90749b39e906a6bfdd2114c71e830b689da2d22bbfa06856d0dff4b2a medium confidence brca sample_accession: GSM4196019 sample_title: 004_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196020 Runtime Siftome inference GEO:sample:GSM4196020:b74cce5af7ba99465c9976307a37928428fa9643a3c20a360e8a1e6c777b342f medium confidence brca sample_accession: GSM4196020 sample_title: 017_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196021 Runtime Siftome inference GEO:sample:GSM4196021:7ed9dd8326b48f1a9b84d27bae10798f7cd7c4416496c56ce26eeec518504a83 medium confidence brca sample_accession: GSM4196021 sample_title: 031_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196022 Runtime Siftome inference GEO:sample:GSM4196022:bbfd65f76fb1fda1c34c96cba1f9426c1efb510b60b1ccecce709bdad7ec3993 medium confidence brca sample_accession: GSM4196022 sample_title: 038_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196023 Runtime Siftome inference GEO:sample:GSM4196023:ef1c6118b79d5596d578be32c6099215a28e84a0e4c0745c5cc58a03d4288214 medium confidence brca sample_accession: GSM4196023 sample_title: 043_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196024 Runtime Siftome inference GEO:sample:GSM4196024:bb5d639de8b1ef0be74babc7b33d4c30813cacd5952aa8c3a78d4a70382078ec medium confidence brca sample_accession: GSM4196024 sample_title: 047_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196025 Runtime Siftome inference GEO:sample:GSM4196025:9525c4b0725ebb71de05473b1c549e1c9e84f6324f8383c8a95908ad1058f8c6 medium confidence brca sample_accession: GSM4196025 sample_title: 051_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196026 Runtime Siftome inference GEO:sample:GSM4196026:e138fb6c5cbcea6a1c2727fd8ddba4e4236bfc527397c42db97afd4cfa9c926c medium confidence brca sample_accession: GSM4196026 sample_title: 056_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196027 Runtime Siftome inference GEO:sample:GSM4196027:531e31e0ce857720277eaad42dcf39d8808c89b81ce4b7f9f7883f68e1ecc5e2 medium confidence brca sample_accession: GSM4196027 sample_title: 058_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196028 Runtime Siftome inference GEO:sample:GSM4196028:df8bec06fde08ac144cb195614330de0bb7c9dcd258e3c001edcdd7bd601420d medium confidence brca sample_accession: GSM4196028 sample_title: 065_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196029 Runtime Siftome inference GEO:sample:GSM4196029:0f71ee227c6fec8763bf21f4dacec8794e452781f53a49ac9e8f1ba3e26492d9 medium confidence brca sample_accession: GSM4196029 sample_title: 008Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196030 Runtime Siftome inference GEO:sample:GSM4196030:4f158812586e33cb4925bd1f74ffbb6ff408034d5fe2fa92861c7f1510b1c680 medium confidence brca sample_accession: GSM4196030 sample_title: 011Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196031 Runtime Siftome inference GEO:sample:GSM4196031:85f98108198b1bad7772819eaf3ce647f953c7c7f6adf2378854b82ff1e2bcba medium confidence brca sample_accession: GSM4196031 sample_title: 012Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196032 Runtime Siftome inference GEO:sample:GSM4196032:5112896adab2e9efbbd5418bb547e2cbb13e8060cd63210d532ef52e4c09f68e medium confidence brca sample_accession: GSM4196032 sample_title: 016Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary disease match: brca

disease breast cancer sample GSM4196033 Runtime Siftome inference GEO:sample:GSM4196033:69107990da9eacb6557b4701f99c9e43575ec381bb102da71ebf9670bf884da4 medium confidence brca sample_accession: GSM4196033 sample_title: 045norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary disease match: brca

organism Homo sapiens dataset GSE141142 Runtime Siftome inference GEO:dataset:GSE141142:c3b4f41756217feb03b5ee69f30c663976dbe8ee18125283ec30105f1e7987ef high confidence homo sapiens dataset_accession: GSE141142 dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers organism: Homo sapiens assay_ty... keyword match keyword match: homo sapiens

sample_type tumor sample sample GSM4196010 Runtime Siftome inference GEO:sample:GSM4196010:e635dd04c35df563561193e97c8ab054d8b007c9e1774e18406773669ab63532 low confidence tumor sample_accession: GSM4196010 sample_title: 020_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196011 Runtime Siftome inference GEO:sample:GSM4196011:86e60d1e37c67261b547ade1e00f70390ab977eb54e31f4a79d44bd4520eb536 low confidence tumor sample_accession: GSM4196011 sample_title: 026_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196012 Runtime Siftome inference GEO:sample:GSM4196012:461b813faa9708adc7bfdfaa7561922f68dca094d4ca0053dd9e0189157d40f4 low confidence tumor sample_accession: GSM4196012 sample_title: 044_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196013 Runtime Siftome inference GEO:sample:GSM4196013:8c6aa5059115848c9b05355743fb99c31308326907584f2ecc506c2dbbc301cb low confidence tumor sample_accession: GSM4196013 sample_title: 049_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196014 Runtime Siftome inference GEO:sample:GSM4196014:df9562a337035368aa624a3b3273c03dd668a6a5f3e8f2c3820d1a2887a104f5 low confidence tumor sample_accession: GSM4196014 sample_title: 053_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196015 Runtime Siftome inference GEO:sample:GSM4196015:6cc3ce90e4d1677f5cda704a6368e37fb22e6b0296aa1c3237ecce62f153b13e low confidence tumor sample_accession: GSM4196015 sample_title: 062_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196016 Runtime Siftome inference GEO:sample:GSM4196016:6044b34056f430d9734b2db2c715e6148e8add354e7a41c0d0688c9b173a83da low confidence tumor sample_accession: GSM4196016 sample_title: 064_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196017 Runtime Siftome inference GEO:sample:GSM4196017:3be7a6b633ec838b3cf25129c5d986ae4f20390f72ae5eb9b65d6f3d673b1f5c low confidence tumor sample_accession: GSM4196017 sample_title: 067_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196018 Runtime Siftome inference GEO:sample:GSM4196018:48864a14800e0ae171ba0764ff6b717840a6f657705b282a952af828faf5ecae low confidence tumor sample_accession: GSM4196018 sample_title: 069_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196019 Runtime Siftome inference GEO:sample:GSM4196019:3af303e90749b39e906a6bfdd2114c71e830b689da2d22bbfa06856d0dff4b2a low confidence tumor sample_accession: GSM4196019 sample_title: 004_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196020 Runtime Siftome inference GEO:sample:GSM4196020:b74cce5af7ba99465c9976307a37928428fa9643a3c20a360e8a1e6c777b342f low confidence tumor sample_accession: GSM4196020 sample_title: 017_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196021 Runtime Siftome inference GEO:sample:GSM4196021:7ed9dd8326b48f1a9b84d27bae10798f7cd7c4416496c56ce26eeec518504a83 low confidence tumor sample_accession: GSM4196021 sample_title: 031_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196022 Runtime Siftome inference GEO:sample:GSM4196022:bbfd65f76fb1fda1c34c96cba1f9426c1efb510b60b1ccecce709bdad7ec3993 low confidence tumor sample_accession: GSM4196022 sample_title: 038_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196023 Runtime Siftome inference GEO:sample:GSM4196023:ef1c6118b79d5596d578be32c6099215a28e84a0e4c0745c5cc58a03d4288214 low confidence tumor sample_accession: GSM4196023 sample_title: 043_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196024 Runtime Siftome inference GEO:sample:GSM4196024:bb5d639de8b1ef0be74babc7b33d4c30813cacd5952aa8c3a78d4a70382078ec low confidence tumor sample_accession: GSM4196024 sample_title: 047_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196025 Runtime Siftome inference GEO:sample:GSM4196025:9525c4b0725ebb71de05473b1c549e1c9e84f6324f8383c8a95908ad1058f8c6 low confidence tumor sample_accession: GSM4196025 sample_title: 051_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196026 Runtime Siftome inference GEO:sample:GSM4196026:e138fb6c5cbcea6a1c2727fd8ddba4e4236bfc527397c42db97afd4cfa9c926c low confidence tumor sample_accession: GSM4196026 sample_title: 056_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196027 Runtime Siftome inference GEO:sample:GSM4196027:531e31e0ce857720277eaad42dcf39d8808c89b81ce4b7f9f7883f68e1ecc5e2 low confidence tumor sample_accession: GSM4196027 sample_title: 058_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type tumor sample sample GSM4196028 Runtime Siftome inference GEO:sample:GSM4196028:df8bec06fde08ac144cb195614330de0bb7c9dcd258e3c001edcdd7bd601420d low confidence tumor sample_accession: GSM4196028 sample_title: 065_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary sample type match: tumor

sample_type normal tissue sample GSM4196029 Runtime Siftome inference GEO:sample:GSM4196029:0f71ee227c6fec8763bf21f4dacec8794e452781f53a49ac9e8f1ba3e26492d9 low confidence normal sample_accession: GSM4196029 sample_title: 008Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue sample GSM4196030 Runtime Siftome inference GEO:sample:GSM4196030:4f158812586e33cb4925bd1f74ffbb6ff408034d5fe2fa92861c7f1510b1c680 low confidence normal sample_accession: GSM4196030 sample_title: 011Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue sample GSM4196031 Runtime Siftome inference GEO:sample:GSM4196031:85f98108198b1bad7772819eaf3ce647f953c7c7f6adf2378854b82ff1e2bcba low confidence normal sample_accession: GSM4196031 sample_title: 012Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue sample GSM4196032 Runtime Siftome inference GEO:sample:GSM4196032:5112896adab2e9efbbd5418bb547e2cbb13e8060cd63210d532ef52e4c09f68e low confidence normal sample_accession: GSM4196032 sample_title: 016Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary sample type match: normal

sample_type normal tissue sample GSM4196033 Runtime Siftome inference GEO:sample:GSM4196033:69107990da9eacb6557b4701f99c9e43575ec381bb102da71ebf9670bf884da4 low confidence normal sample_accession: GSM4196033 sample_title: 045norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary sample type match: normal

tissue breast dataset GSE141142 Runtime Siftome inference GEO:dataset:GSE141142:c3b4f41756217feb03b5ee69f30c663976dbe8ee18125283ec30105f1e7987ef low confidence breast dataset_accession: GSE141142 dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers organism: Homo sapiens assay_ty... controlled vocabulary controlled vocabulary tissue match: breast

tissue ovary dataset GSE141142 Runtime Siftome inference GEO:dataset:GSE141142:c3b4f41756217feb03b5ee69f30c663976dbe8ee18125283ec30105f1e7987ef medium confidence ovarian dataset_accession: GSE141142 dataset_title: An immune-centric exploration of BRCA1 and BRCA2 germline mutation related breast and ovarian cancers organism: Homo sapiens assay_ty... controlled vocabulary controlled vocabulary tissue match: ovarian

tissue breast sample GSM4196010 Runtime Siftome inference GEO:sample:GSM4196010:e635dd04c35df563561193e97c8ab054d8b007c9e1774e18406773669ab63532 low confidence breast sample_accession: GSM4196010 sample_title: 020_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196011 Runtime Siftome inference GEO:sample:GSM4196011:86e60d1e37c67261b547ade1e00f70390ab977eb54e31f4a79d44bd4520eb536 low confidence breast sample_accession: GSM4196011 sample_title: 026_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196012 Runtime Siftome inference GEO:sample:GSM4196012:461b813faa9708adc7bfdfaa7561922f68dca094d4ca0053dd9e0189157d40f4 low confidence breast sample_accession: GSM4196012 sample_title: 044_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196013 Runtime Siftome inference GEO:sample:GSM4196013:8c6aa5059115848c9b05355743fb99c31308326907584f2ecc506c2dbbc301cb low confidence breast sample_accession: GSM4196013 sample_title: 049_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196014 Runtime Siftome inference GEO:sample:GSM4196014:df9562a337035368aa624a3b3273c03dd668a6a5f3e8f2c3820d1a2887a104f5 low confidence breast sample_accession: GSM4196014 sample_title: 053_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196015 Runtime Siftome inference GEO:sample:GSM4196015:6cc3ce90e4d1677f5cda704a6368e37fb22e6b0296aa1c3237ecce62f153b13e low confidence breast sample_accession: GSM4196015 sample_title: 062_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196016 Runtime Siftome inference GEO:sample:GSM4196016:6044b34056f430d9734b2db2c715e6148e8add354e7a41c0d0688c9b173a83da low confidence breast sample_accession: GSM4196016 sample_title: 064_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196017 Runtime Siftome inference GEO:sample:GSM4196017:3be7a6b633ec838b3cf25129c5d986ae4f20390f72ae5eb9b65d6f3d673b1f5c low confidence breast sample_accession: GSM4196017 sample_title: 067_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196018 Runtime Siftome inference GEO:sample:GSM4196018:48864a14800e0ae171ba0764ff6b717840a6f657705b282a952af828faf5ecae low confidence breast sample_accession: GSM4196018 sample_title: 069_BC source_name: Breast characteristics: cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumo... controlled vocabulary controlled vocabulary tissue match: breast

tissue ovary sample GSM4196019 Runtime Siftome inference GEO:sample:GSM4196019:3af303e90749b39e906a6bfdd2114c71e830b689da2d22bbfa06856d0dff4b2a low confidence ovary sample_accession: GSM4196019 sample_title: 004_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196020 Runtime Siftome inference GEO:sample:GSM4196020:b74cce5af7ba99465c9976307a37928428fa9643a3c20a360e8a1e6c777b342f low confidence ovary sample_accession: GSM4196020 sample_title: 017_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196021 Runtime Siftome inference GEO:sample:GSM4196021:7ed9dd8326b48f1a9b84d27bae10798f7cd7c4416496c56ce26eeec518504a83 low confidence ovary sample_accession: GSM4196021 sample_title: 031_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196022 Runtime Siftome inference GEO:sample:GSM4196022:bbfd65f76fb1fda1c34c96cba1f9426c1efb510b60b1ccecce709bdad7ec3993 low confidence ovary sample_accession: GSM4196022 sample_title: 038_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196023 Runtime Siftome inference GEO:sample:GSM4196023:ef1c6118b79d5596d578be32c6099215a28e84a0e4c0745c5cc58a03d4288214 low confidence ovary sample_accession: GSM4196023 sample_title: 043_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196024 Runtime Siftome inference GEO:sample:GSM4196024:bb5d639de8b1ef0be74babc7b33d4c30813cacd5952aa8c3a78d4a70382078ec low confidence ovary sample_accession: GSM4196024 sample_title: 047_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196025 Runtime Siftome inference GEO:sample:GSM4196025:9525c4b0725ebb71de05473b1c549e1c9e84f6324f8383c8a95908ad1058f8c6 low confidence ovary sample_accession: GSM4196025 sample_title: 051_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196026 Runtime Siftome inference GEO:sample:GSM4196026:e138fb6c5cbcea6a1c2727fd8ddba4e4236bfc527397c42db97afd4cfa9c926c low confidence ovary sample_accession: GSM4196026 sample_title: 056_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196027 Runtime Siftome inference GEO:sample:GSM4196027:531e31e0ce857720277eaad42dcf39d8808c89b81ce4b7f9f7883f68e1ecc5e2 low confidence ovary sample_accession: GSM4196027 sample_title: 058_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue ovary sample GSM4196028 Runtime Siftome inference GEO:sample:GSM4196028:df8bec06fde08ac144cb195614330de0bb7c9dcd258e3c001edcdd7bd601420d low confidence ovary sample_accession: GSM4196028 sample_title: 065_EOS source_name: Overy characteristics: cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor... controlled vocabulary controlled vocabulary tissue match: ovary

tissue breast sample GSM4196029 Runtime Siftome inference GEO:sample:GSM4196029:0f71ee227c6fec8763bf21f4dacec8794e452781f53a49ac9e8f1ba3e26492d9 low confidence breast sample_accession: GSM4196029 sample_title: 008Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196030 Runtime Siftome inference GEO:sample:GSM4196030:4f158812586e33cb4925bd1f74ffbb6ff408034d5fe2fa92861c7f1510b1c680 low confidence breast sample_accession: GSM4196030 sample_title: 011Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196031 Runtime Siftome inference GEO:sample:GSM4196031:85f98108198b1bad7772819eaf3ce647f953c7c7f6adf2378854b82ff1e2bcba low confidence breast sample_accession: GSM4196031 sample_title: 012Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196032 Runtime Siftome inference GEO:sample:GSM4196032:5112896adab2e9efbbd5418bb547e2cbb13e8060cd63210d532ef52e4c09f68e low confidence breast sample_accession: GSM4196032 sample_title: 016Norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary tissue match: breast

tissue breast sample GSM4196033 Runtime Siftome inference GEO:sample:GSM4196033:69107990da9eacb6557b4701f99c9e43575ec381bb102da71ebf9670bf884da4 low confidence breast sample_accession: GSM4196033 sample_title: 045norm source_name: Breast characteristics: cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservatio... controlled vocabulary controlled vocabulary tissue match: breast

Sample Group Preview

Possible case samples

Samples currently treated as the comparison case group.

16

GSM4196010 020_BC tumor sample Case marker detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196011 026_BC tumor sample Case marker detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196012 044_BC tumor sample Case marker detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196013 049_BC tumor sample Case marker detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196014 053_BC tumor sample Case marker detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Carrier; Sex: Female
GSM4196015 062_BC tumor sample Case marker detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196018 069_BC tumor sample Case marker detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196019 004_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Non-Carrier; Sex: Female
GSM4196020 017_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196022 038_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196023 043_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196024 047_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196025 051_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196026 056_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196027 058_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196028 065_EOS tumor sample Case marker detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

Possible control samples

Samples currently treated as controls or baseline.

5

GSM4196029 008Norm normal tissue Control marker detected. Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196030 011Norm normal tissue Control marker detected. Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196031 012Norm normal tissue Control marker detected. Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196032 016Norm normal tissue Control marker detected. Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196033 045norm normal tissue Control marker detected. Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

Unassigned samples

Samples with no explicit case or control marker.

0

No samples

Excluded samples

Samples excluded from grouping by hard exclusion rules.

0

No samples

Ambiguous samples

Samples that need manual review before trusting grouping.

3

GSM4196016 064_BC tumor sample ambiguous sample: Ambiguous sample metadata detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female
GSM4196017 067_BC tumor sample ambiguous sample: Ambiguous sample metadata detected. Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female
GSM4196021 031_EOS tumor sample ambiguous sample: Ambiguous sample metadata detected. Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: NA; brca.study.entry: Unknown; Sex: Female

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

tumor sample

19 samples

GSM4196010 020_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196011 026_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196012 044_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196013 049_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196014 053_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Carrier; Sex: Female
GSM4196015 062_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196016 064_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female
GSM4196017 067_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: NA; brca.study.entry: Unknown; Sex: Female
GSM4196018 069_BC Breast cancer type: BRCA; tissue: Breast; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196019 004_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Non-Carrier; Sex: Female
GSM4196020 017_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196021 031_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: NA; brca.study.entry: Unknown; Sex: Female
GSM4196022 038_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: PR; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196023 043_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196024 047_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196025 051_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: Neg; brca.study.entry: Non-Carrier; Sex: Female
GSM4196026 056_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female
GSM4196027 058_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: SD; brca.status: BRCA1; brca.study.entry: Carrier; Sex: Female
GSM4196028 065_EOS Overy cancer type: BRCA; tissue: Ovary; race: White; ethnicity: Non_Hispanic; sample.type: Tumor; reservation.type: FFPE; treatment.best.response: NA; brca.status: BRCA2; brca.study.entry: Carrier; Sex: Female

normal tissue

5 samples

GSM4196029 008Norm Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196030 011Norm Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196031 012Norm Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196032 016Norm Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female
GSM4196033 045norm Breast cancer type: NA; tissue: Breast; race: NA; ethnicity: NA; sample.type: Normal; reservation.type: FFPE; treatment.best.response: NA; brca.status: NA; brca.study.entry: NA; Sex: Female

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.
No excluded sample type flags detected.
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.

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

24 samples

GSM4196010 020_BC
GSM4196011 026_BC
GSM4196012 044_BC
GSM4196013 049_BC
GSM4196014 053_BC
GSM4196015 062_BC
GSM4196016 064_BC
GSM4196017 067_BC
GSM4196018 069_BC
GSM4196019 004_EOS
GSM4196020 017_EOS
GSM4196021 031_EOS
GSM4196022 038_EOS
GSM4196023 043_EOS
GSM4196024 047_EOS
GSM4196025 051_EOS
GSM4196026 056_EOS
GSM4196027 058_EOS
GSM4196028 065_EOS
GSM4196029 008Norm
GSM4196030 011Norm
GSM4196031 012Norm
GSM4196032 016Norm
GSM4196033 045norm

Review Audit Trail

0 decisions

No review decisions have been stored for this dataset.