Siftome Phase 3L

GSE150474

Malignant melanotic Xp11 neoplasms exhibit a clinicopathological spectrum and gene expression profiling akin to alveolar soft part sarcoma: a proposal for reclassification

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
2020-05-13
Last update
2023-08-22
Organization
Nanjing Jinlin Hospital
Department
Pathology
Public date
2020-05-14
Experiment types
Expression profiling by high throughput sequencing
Platforms
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Series type
Series
SubSeries
Not available
BioProject
PRJNA632545
Supplementary files
TAR: GSE150474_RAW.tar
Organism
Homo sapiens
Assay
bulk RNA-seq
Samples
51
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

Analysis Readiness

Ready after review
97% DE readiness

Contrast completeness

25/25 pts

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

Minimum group size

20/20 pts

Each contrast group has at least 2 samples.

Processed data availability

20/20 pts

Processed data is marked available in the GEO index.

Sample decision clarity

15/15 pts

All samples are assigned to a case or control group.

Blocking warnings

7/10 pts

Warnings are present, but none are critical blockers.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

No readiness blockers detected.

Next Steps

  • 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

5/6 ready

Group labels reviewed

Needs review

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

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

Minimum sample count met

Ready

Both groups meet the minimum of 2 samples.

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

Processed counts available

Ready

Processed data availability is marked true in the GEO index.

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

Ambiguous samples handled

Ready

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

Still scan the grouping table for biology-specific ambiguity.

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

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 60% 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 85% 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 was not 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 44 samples
  • Likely control group normal tissue 7 samples

Warnings

  • DISEASE_LABEL_UNCLEAR warning Disease or condition label could not be normalized.

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: colorectal/GI relevance is unclear. 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: colorectal/GI relevance is unclear. 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 Disease or condition label could not be normalized. 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: Disease clarity: Disease or condition metadata was not normalized. 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: colorectal/GI relevance is unclear. Contributed to downgrade or manual-review evidence.
  • Caution fact Missing or unclear metadata: Downgraded disease context: colorectal/GI relevance is unclear. 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

Source Evidence

4 sources

GEO

Primary source

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

Dataset accession
GSE150474
Sample records
51 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
GSE150474
  • 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.
No recount3 sync data available.

Expression Atlas

Not imported

Planned source for curated expression experiment links.

GEO accession
GSE150474
  • 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.
No Expression Atlas sync data available.

PubMed

Unavailable

Publication context when PubMed identifiers are already known.

GEO accession
GSE150474
  • No PubMed identifier is present in the current runtime metadata.
  • No live PubMed search is performed from the dataset detail page.
No publication identifier imported.

Dataset Feedback

0 stored

Original GEO Metadata

dataset_accession: GSE150474
dataset_title: Malignant melanotic Xp11 neoplasms exhibit a clinicopathological spectrum and gene expression profiling akin to alveolar soft part sarcoma: a proposal for reclassification
organism: Homo sapiens
assay_type: bulk RNA-seq
processed_data_available: true
raw_data_available: true
submission_date: 2020-05-13
last_update_date: 2023-08-22
organization_name: Nanjing Jinlin Hospital
department: Pathology
public_date: 2020-05-14
experiment_types: Expression profiling by high throughput sequencing
platforms: GPL20301 Illumina HiSeq 4000 (Homo sapiens)
sub_series: Not available
bioproject: PRJNA632545
supplementary_files: TAR: GSE150474_RAW.tar
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: colorectal/GI relevance is unclear.
  • Processed data is available for downstream review.
  • 1 warning require review.

Why It May Not Be Suitable

  • Disease or condition label could not be normalized.
  • Non-colorectal cancer context downgraded for colorectal tumor-vs-normal tissue ranking.
  • Missing or unclear metadata: Disease clarity: Disease or condition metadata was not normalized.
  • 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: colorectal/GI relevance is unclear.
  • Missing or unclear metadata: Downgraded disease context: colorectal/GI relevance is unclear.
  • Comparison suitability score is below the Phase 1 recommended threshold.

Warnings

  • warning DISEASE_LABEL_UNCLEAR Disease or condition label could not be normalized.

Normalized Fields

55 fields
Field Value Source Origin Confidence Evidence Reason
assay_type bulk RNA-seq dataset GSE150474 Runtime Siftome inference GEO:dataset:GSE150474:1f88f15aa75020e13171554f8a3c6992639ea54ceadfa5e23c7a31306ef457fb high confidence bulk rna-seq dataset_accession: GSE150474 dataset_title: Malignant melanotic Xp11 neoplasms exhibit a clinicopathological spectrum and gene expression profiling akin to alveolar soft part sa... keyword match keyword match: bulk rna-seq
organism Homo sapiens dataset GSE150474 Runtime Siftome inference GEO:dataset:GSE150474:1f88f15aa75020e13171554f8a3c6992639ea54ceadfa5e23c7a31306ef457fb high confidence homo sapiens dataset_accession: GSE150474 dataset_title: Malignant melanotic Xp11 neoplasms exhibit a clinicopathological spectrum and gene expression profiling akin to alveolar soft part sa... keyword match keyword match: homo sapiens
sample_type tumor sample sample GSM4551036 Runtime Siftome inference GEO:sample:GSM4551036:ebdecdbb990933e56e0b7e37e16f4abe062558fbe65efd670907817c24faa11a low confidence tumor sample_accession: GSM4551036 sample_title: Melanotic Xp11 neoplasm-1 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Melanotic Xp11 neoplasm-1 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551037 Runtime Siftome inference GEO:sample:GSM4551037:44f9c0fdcbc710873af5790631bc2cd6728ab926965be6243a8bdcd71bc03968 low confidence tumor sample_accession: GSM4551037 sample_title: Xp11 renal cell carcinoma-1 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-1 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551038 Runtime Siftome inference GEO:sample:GSM4551038:b2e13fadcf927061290b830b3e6410dbdbf7d9c368013e329899ce1606bcb2a5 low confidence tumor sample_accession: GSM4551038 sample_title: Xp11 renal cell carcinoma-2 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-2 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551039 Runtime Siftome inference GEO:sample:GSM4551039:5364442d9d92bcb0710616a0041f5c0148f2a67789e2ecc852ed0739b67c27cd low confidence tumor sample_accession: GSM4551039 sample_title: Xp11 renal cell carcinoma-3 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-3 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551040 Runtime Siftome inference GEO:sample:GSM4551040:9e77c6cb4287d256ca93377cbfb4d4bb05aa7397e08185cb1527babce90bab1d low confidence tumor sample_accession: GSM4551040 sample_title: Xp11 renal cell carcinoma-4 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-4 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551041 Runtime Siftome inference GEO:sample:GSM4551041:38e29379b2a3fb22221c776d1fcfaa4df8841c7a476d975e538f6310dcb135fe low confidence tumor sample_accession: GSM4551041 sample_title: Xp11 renal cell carcinoma-5 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-5 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551042 Runtime Siftome inference GEO:sample:GSM4551042:3a89d9604261136a588de10b234464fb5b8e0d762684625e7a16b9efff157736 low confidence tumor sample_accession: GSM4551042 sample_title: Xp11 renal cell carcinoma-6 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-6 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551043 Runtime Siftome inference GEO:sample:GSM4551043:0cab67c0994ee8f4e7e6a419daab7fcb16910d707aa88859469792af4eba5e32 low confidence tumor sample_accession: GSM4551043 sample_title: Xp11 renal cell carcinoma-7 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-7 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551044 Runtime Siftome inference GEO:sample:GSM4551044:bb9c0bdf0abf3b7516ee7b222a14cc55d9030256f8845a26860a0bb0a32f7e96 low confidence tumor sample_accession: GSM4551044 sample_title: Xp11 renal cell carcinoma-8 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-8 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551045 Runtime Siftome inference GEO:sample:GSM4551045:1262509a0058e7a62797320a9cf42459db704e18069d4b03ffc7ee6932ec69f3 low confidence tumor sample_accession: GSM4551045 sample_title: Xp11 renal cell carcinoma-9 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-9 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551046 Runtime Siftome inference GEO:sample:GSM4551046:a7fa7e6bdb234cf7e1ff6c6403b7b3a2310859f963b42779943f0abc398b6584 low confidence tumor sample_accession: GSM4551046 sample_title: Xp11 renal cell carcinoma-10 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-10 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551047 Runtime Siftome inference GEO:sample:GSM4551047:27f58305b316964826869cd1a3d7a3afa85545a825e4c5e11d68261708c544fd low confidence tumor sample_accession: GSM4551047 sample_title: MITF renal cell carcinoma source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample MITF renal cell carcinoma controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551048 Runtime Siftome inference GEO:sample:GSM4551048:4484d9b05d2a4571e1daa3c7537fbc4596578dc164cf8235840c9878901461b3 low confidence tumor sample_accession: GSM4551048 sample_title: Xp11 renal cell carcinoma-11 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-11 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551049 Runtime Siftome inference GEO:sample:GSM4551049:0aa3c3a9134059c0a3a16f6005452d86ef311f4eede3f12cbe31aed97f2e7d3c low confidence tumor sample_accession: GSM4551049 sample_title: Melanotic Xp11 neoplasm-2 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-2 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551050 Runtime Siftome inference GEO:sample:GSM4551050:a8043931c509616f429f63145395a87075415748b148566c55dbf7caa6fca312 low confidence tumor sample_accession: GSM4551050 sample_title: Xp11 renal cell carcinoma-12 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Xp11 renal cell carcinoma-12 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551051 Runtime Siftome inference GEO:sample:GSM4551051:8cec2b965c8a5ecba4dbf30aba48f6c5e3bca3fcbaa5ce45346e51dd807ba412 low confidence tumor sample_accession: GSM4551051 sample_title: PEComa-1 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample PEComa-1 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551052 Runtime Siftome inference GEO:sample:GSM4551052:9c9727a67ae75ab22945e0b27cbe0018a87fba180c83f49915b2bb89711d58d3 low confidence tumor sample_accession: GSM4551052 sample_title: PEComa-2 source_name: tumor characteristics: tissue: lung; sample type: FFPE sample PEComa-2 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551053 Runtime Siftome inference GEO:sample:GSM4551053:b66cf211fad4d39348a68febe9ccf17bef0f8c6a618a9fb4ef29782c74618c49 low confidence tumor sample_accession: GSM4551053 sample_title: PEComa-3 source_name: tumor characteristics: tissue: lung; sample type: FFPE sample PEComa-3 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551054 Runtime Siftome inference GEO:sample:GSM4551054:8f54771596767bcb1bec2187e0f6d5f1e8f3a255723c7dcbabb645fee867eddc low confidence tumor sample_accession: GSM4551054 sample_title: PEComa-4 source_name: tumor characteristics: tissue: intestine; sample type: FFPE sample PEComa-4 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551055 Runtime Siftome inference GEO:sample:GSM4551055:54d93f75a327c192585517e8fe79842040fa99a587edd89535cdfab7e569ad01 low confidence tumor sample_accession: GSM4551055 sample_title: PEComa-5 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample PEComa-5 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551056 Runtime Siftome inference GEO:sample:GSM4551056:fd54f02aaa5b014940e012c79445d8a4f3eebb26ae30f2d5e91e12f209f8bde4 low confidence tumor sample_accession: GSM4551056 sample_title: PEComa-6 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample PEComa-6 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551057 Runtime Siftome inference GEO:sample:GSM4551057:c63262b99d90a2f0b76b083bb636c6a6576f3d5471c518e1d7ca6b5a106aa6e3 low confidence tumor sample_accession: GSM4551057 sample_title: PEComa-7 source_name: tumor characteristics: tissue: uterus; sample type: FFPE sample PEComa-7 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551058 Runtime Siftome inference GEO:sample:GSM4551058:d02e996366d15e29a2dfd0d4ac0b5f95cd70a01509e78f19b637987bae2326fe low confidence tumor sample_accession: GSM4551058 sample_title: PEComa-8 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample PEComa-8 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551059 Runtime Siftome inference GEO:sample:GSM4551059:d4b472ef99f5b387fecb1a7842b9b7a50b91e2d477a8c70f0c88624c323ed416 low confidence tumor sample_accession: GSM4551059 sample_title: PEComa-9 source_name: tumor characteristics: tissue: bladder; sample type: FFPE sample PEComa-9 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551060 Runtime Siftome inference GEO:sample:GSM4551060:f50dd29d2b2190c49d20b0da98c27d5ff0c63cfd9830b5970b8afcc3a41a10e2 low confidence tumor sample_accession: GSM4551060 sample_title: Melanotic Xp11 neoplasm-3 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-3 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551061 Runtime Siftome inference GEO:sample:GSM4551061:b73a98c0479b80802c92088be655a7d98001cbb1625c55290a787a5e4843e892 low confidence tumor sample_accession: GSM4551061 sample_title: Melanotic Xp11 neoplasm-4 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Melanotic Xp11 neoplasm-4 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551062 Runtime Siftome inference GEO:sample:GSM4551062:098f61745665876314d9444d93fd9368d00544c5336fcb5bfc5f3d144fdde583 low confidence tumor sample_accession: GSM4551062 sample_title: Melanotic Xp11 neoplasm-5 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-5 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551063 Runtime Siftome inference GEO:sample:GSM4551063:2696be9766f801755d796f713c1060db8abaf467429fabcf513a2906d0f15fd5 low confidence tumor sample_accession: GSM4551063 sample_title: Melanotic Xp11 neoplasm-6 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-6 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551064 Runtime Siftome inference GEO:sample:GSM4551064:42034f18bb06578a53c13c3fac195f5b3a908e786e9f8d74c87da4ed7ad4c76d low confidence tumor sample_accession: GSM4551064 sample_title: Melanotic Xp11 neoplasm-7 source_name: tumor characteristics: tissue: kidney; sample type: FFPE sample Melanotic Xp11 neoplasm-7 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551065 Runtime Siftome inference GEO:sample:GSM4551065:a9949780bdb0d128073e235ec8213d67e7161e46a41d31358c8dd529e1f2f86e low confidence tumor sample_accession: GSM4551065 sample_title: Melanotic Xp11 neoplasm-8 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-8 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551066 Runtime Siftome inference GEO:sample:GSM4551066:c65b1d96b9ced73ba9cd6221c6d16c04d76d9c2865109eef4dbe7ab38254bca3 low confidence tumor sample_accession: GSM4551066 sample_title: Alveolar soft part sarcoma-1 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551067 Runtime Siftome inference GEO:sample:GSM4551067:5eaa22cb4ec194143f34f7dcb832e47b2c7e7f10c936541b453a4d774e6fcae3 low confidence tumor sample_accession: GSM4551067 sample_title: Alveolar soft part sarcoma-2 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551068 Runtime Siftome inference GEO:sample:GSM4551068:ff4f76d3cf5a8315ffcfd8dac4c7edd22f873161c6c8c3be6bb042aede9c0757 low confidence tumor sample_accession: GSM4551068 sample_title: Alveolar soft part sarcoma-3 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551069 Runtime Siftome inference GEO:sample:GSM4551069:0adfba8c57ac67cf142f7ae86fbdacbec1cd53a7d05eb337dfb67832086ebe96 low confidence tumor sample_accession: GSM4551069 sample_title: Alveolar soft part sarcoma-4 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551070 Runtime Siftome inference GEO:sample:GSM4551070:96ba112b260a7e730aa060118889a2910dea85be1ed32f50002dfa34b3c58a33 low confidence tumor sample_accession: GSM4551070 sample_title: Alveolar soft part sarcoma-5 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551071 Runtime Siftome inference GEO:sample:GSM4551071:967b70bce62dcdaec22381eb4a65e982e7d2f8641d9a89225c423665b07fde98 low confidence tumor sample_accession: GSM4551071 sample_title: Alveolar soft part sarcoma-6 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551072 Runtime Siftome inference GEO:sample:GSM4551072:682c382af706dc75b0e007830d3c06bf94bcb904a7799e257a0ccb3d62d8bbd4 low confidence tumor sample_accession: GSM4551072 sample_title: Alveolar soft part sarcoma-7 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type normal tissue sample GSM4551073 Runtime Siftome inference GEO:sample:GSM4551073:2d95b9e1df59c937325c5253feefb1fee13da3ec66ffebd1a38f9bddb4d2661a low confidence normal sample_accession: GSM4551073 sample_title: Normal tissue-1 source_name: normal tissue characteristics: tissue: kidney; sample type: FFPE sample Normal tissue-1 controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM4551074 Runtime Siftome inference GEO:sample:GSM4551074:35deb558cb7d42982b86d8e435f82d8ba6edfca4fad3a2fa3f47955ba6a88073 low confidence normal sample_accession: GSM4551074 sample_title: Normal tissue-2 source_name: normal tissue characteristics: tissue: kidney; sample type: FFPE sample Normal tissue-2 controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM4551075 Runtime Siftome inference GEO:sample:GSM4551075:8a292ad828d4ac9fb8aa2c0d91829503ccf7070d894ea70a7379de3f35ccd39c low confidence normal sample_accession: GSM4551075 sample_title: Normal tissue-3 source_name: normal tissue characteristics: tissue: kidney; sample type: FFPE sample Normal tissue-3 controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM4551076 Runtime Siftome inference GEO:sample:GSM4551076:e1e839700ed4f49de20f8583da8ec18a9db2d1e9c4d54bb0f7d52f20135baf45 low confidence normal sample_accession: GSM4551076 sample_title: Normal tissue-4 source_name: normal tissue characteristics: tissue: kidney; sample type: FFPE sample Normal tissue-4 controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM4551077 Runtime Siftome inference GEO:sample:GSM4551077:4aa11614163d642cf7ff0bd79b8305b080c4259ba91d03d0b4a1ff753568b04f low confidence normal sample_accession: GSM4551077 sample_title: Normal tissue-5 source_name: normal tissue characteristics: tissue: kidney; sample type: FFPE sample Normal tissue-5 controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM4551078 Runtime Siftome inference GEO:sample:GSM4551078:6899c1767cecca4569b17e446333949fe00b5900f66a0b11bf88a24e022287e4 low confidence normal sample_accession: GSM4551078 sample_title: Normal tissue-6 source_name: normal tissue characteristics: tissue: kidney; sample type: FFPE sample Normal tissue-6 controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM4551079 Runtime Siftome inference GEO:sample:GSM4551079:03e3f21d408a3dfb621c011bce4186725ae163c9372d7dec9190c4e041508231 low confidence normal sample_accession: GSM4551079 sample_title: Normal tissue-7 source_name: normal tissue characteristics: tissue: kidney; sample type: FFPE sample Normal tissue-7 controlled vocabulary controlled vocabulary sample type match: normal
sample_type tumor sample sample GSM4551080 Runtime Siftome inference GEO:sample:GSM4551080:0cc29b85cd4b4e9c6c73b8608e77957a9a9b31ab147a499e75941a2221ea89d3 low confidence tumor sample_accession: GSM4551080 sample_title: Melanotic Xp11 neoplasm-9 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-9 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551081 Runtime Siftome inference GEO:sample:GSM4551081:d2a9e3d2cfd968fc33fbff11a1b6fe24fe78da2732d3cb0d930939139ef8edb1 low confidence tumor sample_accession: GSM4551081 sample_title: Melanotic Xp11 neoplasm-10 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-10 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551082 Runtime Siftome inference GEO:sample:GSM4551082:9d8cb07d3d1fd312f895ef19429b6df9f3e042a8ce1bbe0de0ee35623f5cf610 low confidence tumor sample_accession: GSM4551082 sample_title: Melanotic Xp11 neoplasm-11 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-11 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551083 Runtime Siftome inference GEO:sample:GSM4551083:9e81296fc5addafc1a239fc8a13757e7d519e8f4ab2574452077b65adaff5dea low confidence tumor sample_accession: GSM4551083 sample_title: Alveolar soft part sarcoma-8 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Alveolar soft part sarc... controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551084 Runtime Siftome inference GEO:sample:GSM4551084:8fd4d74f7ebfa4660c186063d96122a5d8f92d8a92bca6e119f18c0395f2d3dc low confidence tumor sample_accession: GSM4551084 sample_title: Melanotic Xp11 neoplasm-12 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-12 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551085 Runtime Siftome inference GEO:sample:GSM4551085:5b4a5b123340775e77ae656b1c48efe3ccdc6a0924ac3f1d74eea8b9a4215089 low confidence tumor sample_accession: GSM4551085 sample_title: Melanotic Xp11 neoplasm-13 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-13 controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM4551086 Runtime Siftome inference GEO:sample:GSM4551086:f7909192938297ad9df8c61dcdccb88e472bc45a69edb0461ed511d3c162b18b low confidence tumor sample_accession: GSM4551086 sample_title: Melanotic Xp11 neoplasm-14 source_name: tumor characteristics: tissue: soft tissue; sample type: FFPE sample Melanotic Xp11 neoplasm-14 controlled vocabulary controlled vocabulary sample type match: tumor
tissue lung sample GSM4551052 Runtime Siftome inference GEO:sample:GSM4551052:9c9727a67ae75ab22945e0b27cbe0018a87fba180c83f49915b2bb89711d58d3 low confidence lung sample_accession: GSM4551052 sample_title: PEComa-2 source_name: tumor characteristics: tissue: lung; sample type: FFPE sample PEComa-2 controlled vocabulary controlled vocabulary tissue match: lung
tissue lung sample GSM4551053 Runtime Siftome inference GEO:sample:GSM4551053:b66cf211fad4d39348a68febe9ccf17bef0f8c6a618a9fb4ef29782c74618c49 low confidence lung sample_accession: GSM4551053 sample_title: PEComa-3 source_name: tumor characteristics: tissue: lung; sample type: FFPE sample PEComa-3 controlled vocabulary controlled vocabulary tissue match: lung

Sample Group Preview

Possible case samples

Samples currently treated as the comparison case group.

44
  • GSM4551036 Melanotic Xp11 neoplasm-1 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551037 Xp11 renal cell carcinoma-1 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551038 Xp11 renal cell carcinoma-2 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551039 Xp11 renal cell carcinoma-3 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551040 Xp11 renal cell carcinoma-4 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551041 Xp11 renal cell carcinoma-5 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551042 Xp11 renal cell carcinoma-6 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551043 Xp11 renal cell carcinoma-7 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551044 Xp11 renal cell carcinoma-8 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551045 Xp11 renal cell carcinoma-9 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551046 Xp11 renal cell carcinoma-10 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551047 MITF renal cell carcinoma tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551048 Xp11 renal cell carcinoma-11 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551049 Melanotic Xp11 neoplasm-2 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551050 Xp11 renal cell carcinoma-12 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551051 PEComa-1 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551052 PEComa-2 tumor sample Case marker detected. tumor tissue: lung; sample type: FFPE sample
  • GSM4551053 PEComa-3 tumor sample Case marker detected. tumor tissue: lung; sample type: FFPE sample
  • GSM4551054 PEComa-4 tumor sample Case marker detected. tumor tissue: intestine; sample type: FFPE sample
  • GSM4551055 PEComa-5 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551056 PEComa-6 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551057 PEComa-7 tumor sample Case marker detected. tumor tissue: uterus; sample type: FFPE sample
  • GSM4551058 PEComa-8 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551059 PEComa-9 tumor sample Case marker detected. tumor tissue: bladder; sample type: FFPE sample
  • GSM4551060 Melanotic Xp11 neoplasm-3 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551061 Melanotic Xp11 neoplasm-4 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551062 Melanotic Xp11 neoplasm-5 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551063 Melanotic Xp11 neoplasm-6 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551064 Melanotic Xp11 neoplasm-7 tumor sample Case marker detected. tumor tissue: kidney; sample type: FFPE sample
  • GSM4551065 Melanotic Xp11 neoplasm-8 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551066 Alveolar soft part sarcoma-1 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551067 Alveolar soft part sarcoma-2 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551068 Alveolar soft part sarcoma-3 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551069 Alveolar soft part sarcoma-4 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551070 Alveolar soft part sarcoma-5 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551071 Alveolar soft part sarcoma-6 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551072 Alveolar soft part sarcoma-7 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551080 Melanotic Xp11 neoplasm-9 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551081 Melanotic Xp11 neoplasm-10 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551082 Melanotic Xp11 neoplasm-11 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551083 Alveolar soft part sarcoma-8 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551084 Melanotic Xp11 neoplasm-12 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551085 Melanotic Xp11 neoplasm-13 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551086 Melanotic Xp11 neoplasm-14 tumor sample Case marker detected. tumor tissue: soft tissue; sample type: FFPE sample

Possible control samples

Samples currently treated as controls or baseline.

7
  • GSM4551073 Normal tissue-1 normal tissue Control marker detected. normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551074 Normal tissue-2 normal tissue Control marker detected. normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551075 Normal tissue-3 normal tissue Control marker detected. normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551076 Normal tissue-4 normal tissue Control marker detected. normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551077 Normal tissue-5 normal tissue Control marker detected. normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551078 Normal tissue-6 normal tissue Control marker detected. normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551079 Normal tissue-7 normal tissue Control marker detected. normal tissue tissue: kidney; sample type: FFPE sample

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.

0

No samples

Metadata Quality Components

Persisted metadata quality

85 pts
Clarity
85%
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 was not 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

44 samples
  • GSM4551036 Melanotic Xp11 neoplasm-1 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551037 Xp11 renal cell carcinoma-1 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551038 Xp11 renal cell carcinoma-2 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551039 Xp11 renal cell carcinoma-3 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551040 Xp11 renal cell carcinoma-4 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551041 Xp11 renal cell carcinoma-5 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551042 Xp11 renal cell carcinoma-6 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551043 Xp11 renal cell carcinoma-7 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551044 Xp11 renal cell carcinoma-8 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551045 Xp11 renal cell carcinoma-9 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551046 Xp11 renal cell carcinoma-10 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551047 MITF renal cell carcinoma tumor tissue: kidney; sample type: FFPE sample
  • GSM4551048 Xp11 renal cell carcinoma-11 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551049 Melanotic Xp11 neoplasm-2 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551050 Xp11 renal cell carcinoma-12 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551051 PEComa-1 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551052 PEComa-2 tumor tissue: lung; sample type: FFPE sample
  • GSM4551053 PEComa-3 tumor tissue: lung; sample type: FFPE sample
  • GSM4551054 PEComa-4 tumor tissue: intestine; sample type: FFPE sample
  • GSM4551055 PEComa-5 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551056 PEComa-6 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551057 PEComa-7 tumor tissue: uterus; sample type: FFPE sample
  • GSM4551058 PEComa-8 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551059 PEComa-9 tumor tissue: bladder; sample type: FFPE sample
  • GSM4551060 Melanotic Xp11 neoplasm-3 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551061 Melanotic Xp11 neoplasm-4 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551062 Melanotic Xp11 neoplasm-5 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551063 Melanotic Xp11 neoplasm-6 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551064 Melanotic Xp11 neoplasm-7 tumor tissue: kidney; sample type: FFPE sample
  • GSM4551065 Melanotic Xp11 neoplasm-8 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551066 Alveolar soft part sarcoma-1 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551067 Alveolar soft part sarcoma-2 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551068 Alveolar soft part sarcoma-3 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551069 Alveolar soft part sarcoma-4 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551070 Alveolar soft part sarcoma-5 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551071 Alveolar soft part sarcoma-6 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551072 Alveolar soft part sarcoma-7 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551080 Melanotic Xp11 neoplasm-9 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551081 Melanotic Xp11 neoplasm-10 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551082 Melanotic Xp11 neoplasm-11 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551083 Alveolar soft part sarcoma-8 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551084 Melanotic Xp11 neoplasm-12 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551085 Melanotic Xp11 neoplasm-13 tumor tissue: soft tissue; sample type: FFPE sample
  • GSM4551086 Melanotic Xp11 neoplasm-14 tumor tissue: soft tissue; sample type: FFPE sample

normal tissue

7 samples
  • GSM4551073 Normal tissue-1 normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551074 Normal tissue-2 normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551075 Normal tissue-3 normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551076 Normal tissue-4 normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551077 Normal tissue-5 normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551078 Normal tissue-6 normal tissue tissue: kidney; sample type: FFPE sample
  • GSM4551079 Normal tissue-7 normal tissue tissue: kidney; sample type: FFPE sample

Score Breakdown

60%

relevance

  • 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.
85%

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 was not 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

51 samples

Review Audit Trail

0 decisions

No review decisions have been stored for this dataset.