Siftome Phase 3L

GSE316039

Downregulation of MGST3 promotes colorectal cancer progression

Recommended Scores and metadata are strong enough for direct review.
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
2026-01-09
Last update
2026-04-10
Organization
Qingdao University
Department
Not available
Public date
2026-01-14
Experiment types
Expression profiling by high throughput sequencing
Platforms
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Series type
Series
SubSeries
Not available
BioProject
PRJNA1400508
Supplementary files
TXT: GSE316039_gene_rep_fpkm.txt.gz
Organism
Homo sapiens
Assay
bulk RNA-seq
Samples
14
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

Review before analysis
88% 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

10/10 pts

No dataset warnings are present.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

  • 5 samples are still unassigned.

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

0 review-needed samples and 5 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 are unassigned and need manual grouping decisions.

Why This Is Ranked Here

Patient tissue tumor-vs-normal
Recommended Scores and metadata are strong enough for direct review.

Score Components

  • relevance 100% Disease or condition metadata normalized. Organism normalized. Assay type normalized. Tissue metadata normalized.
  • comparison suitability 100% 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. Colorectal, colon, rectal, or CRC disease context boosted for 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 100% Weighted score: 30% relevance, 30% comparison suitability, 25% metadata quality, 15% data availability.

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 5 samples
  • Likely control group normal tissue 4 samples

Warnings

No ranking warnings are active.

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 0 active warnings missing or unclear control group, unclear disease context, unclear tissue source, mixed sample types, model-system markers, secondary assay context, missing processed data, or small cohort size
  • Downgrade or exclusion reason Missing or unclear metadata: Treatment clarity: No unclear treatment split detected in the sample metadata. Derived from current-intent ranking reasons and warnings.

Applied Review Decisions

No active review decisions affect this ranking.

Ranking Facts

  • Recommendation Recommended Scores and metadata are strong enough for direct review.
  • Supporting fact Tumor vs unmatched normal · Tissue · suitability 100%. 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 Prioritized disease context: colorectal, colon, rectal, or CRC metadata detected. Contributed to match or upgrade evidence.
  • Supporting fact Processed data is available for downstream review. Contributed to match or upgrade 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.

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
GSE316039
Sample records
14 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
GSE316039
  • 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
GSE316039
  • 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
GSE316039
  • 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: GSE316039
dataset_title: Downregulation of MGST3 promotes colorectal cancer progression
organism: Homo sapiens
assay_type: bulk RNA-seq
processed_data_available: true
raw_data_available: true
submission_date: 2026-01-09
last_update_date: 2026-04-10
organization_name: Qingdao University
department: Not available
public_date: 2026-01-14
experiment_types: Expression profiling by high throughput sequencing
platforms: GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
sub_series: Not available
bioproject: PRJNA1400508
supplementary_files: TXT: GSE316039_gene_rep_fpkm.txt.gz
series_type: Series

Why It Matched

  • Tumor vs unmatched normal · Tissue · suitability 100%.
  • Prioritized assay: bulk RNA-seq is the active assay expectation.
  • Prioritized disease context: colorectal, colon, rectal, or CRC metadata detected.
  • Processed data is available for downstream review.

Why It May Not Be Suitable

  • Missing or unclear metadata: Treatment clarity: No unclear treatment split detected in the sample metadata.

Warnings

No warnings

Normalized Fields

27 fields
Field Value Source Origin Confidence Evidence Reason
assay_type bulk RNA-seq dataset GSE316039 Runtime Siftome inference GEO:dataset:GSE316039:4c691d021fae491f281995ccdfed20e245cf5477de39f2c1462629ea5ba8ecb3 high confidence bulk rna-seq dataset_accession: GSE316039 dataset_title: Downregulation of MGST3 promotes colorectal cancer progression organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... keyword match keyword match: bulk rna-seq
disease colorectal cancer dataset GSE316039 Runtime Siftome inference GEO:dataset:GSE316039:4c691d021fae491f281995ccdfed20e245cf5477de39f2c1462629ea5ba8ecb3 high confidence colorectal cancer dataset_accession: GSE316039 dataset_title: Downregulation of MGST3 promotes colorectal cancer progression organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... controlled vocabulary controlled vocabulary disease match: colorectal cancer
organism Homo sapiens dataset GSE316039 Runtime Siftome inference GEO:dataset:GSE316039:4c691d021fae491f281995ccdfed20e245cf5477de39f2c1462629ea5ba8ecb3 high confidence homo sapiens dataset_accession: GSE316039 dataset_title: Downregulation of MGST3 promotes colorectal cancer progression organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... keyword match keyword match: homo sapiens
sample_type normal tissue sample GSM9443664 Runtime Siftome inference GEO:sample:GSM9443664:dcee408cec0364280f3313ee0558d2a4032e4d89bf247c21c8bc274bac90e6d4 low confidence normal sample_accession: GSM9443664 sample_title: qd150_normal tissue source_name: colorectum characteristics: tissue: colorectum qd150_normal tissue controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM9443665 Runtime Siftome inference GEO:sample:GSM9443665:24e70f4be2a135ff3992e3f7393e028c513eed1a52d2986ac590de88db239bb3 low confidence normal sample_accession: GSM9443665 sample_title: qd170_normal tissue source_name: colorectum characteristics: tissue: colorectum qd170_normal tissue controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM9443666 Runtime Siftome inference GEO:sample:GSM9443666:edb42fcdd93cb60e272f7c0736e339574b81e5b73cfb817128bf0ad34e630f89 low confidence normal sample_accession: GSM9443666 sample_title: qd174_normal tissue source_name: colorectum characteristics: tissue: colorectum qd174_normal tissue controlled vocabulary controlled vocabulary sample type match: normal
sample_type normal tissue sample GSM9443667 Runtime Siftome inference GEO:sample:GSM9443667:76cb9b3a4db5c7d854ec065a617e6c1017716d87a3079f871c328e0781cb9541 low confidence normal sample_accession: GSM9443667 sample_title: qd180_normal tissue source_name: colorectum characteristics: tissue: colorectum qd180_normal tissue controlled vocabulary controlled vocabulary sample type match: normal
sample_type tumor sample sample GSM9443673 Runtime Siftome inference GEO:sample:GSM9443673:8f7b5395b5f8682059351f57d1ee3d162994f7119be30f792e1af4399ff08695 low confidence tumor sample_accession: GSM9443673 sample_title: qd100_early-stage tumor source_name: colorectum characteristics: tissue: colorectum qd100_early-stage tumor controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM9443674 Runtime Siftome inference GEO:sample:GSM9443674:38dff55644b5e7cdaac41ee192966d51075224f971b12a5b73e1096724109a4e low confidence tumor sample_accession: GSM9443674 sample_title: qd112_early-stage tumor source_name: colorectum characteristics: tissue: colorectum qd112_early-stage tumor controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM9443675 Runtime Siftome inference GEO:sample:GSM9443675:b40a3003ecd256fd51a0f1ba9991871c7c235cb87ab2c863191e3a91dba1427a low confidence tumor sample_accession: GSM9443675 sample_title: qd118_early-stage tumor source_name: colorectum characteristics: tissue: colorectum qd118_early-stage tumor controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM9443676 Runtime Siftome inference GEO:sample:GSM9443676:46f202ec80636736cc1c453be94707630831a4b7001cf7e28a40b2b8b4ab30da low confidence tumor sample_accession: GSM9443676 sample_title: qd148_advanced tumor source_name: colorectum characteristics: tissue: colorectum qd148_advanced tumor controlled vocabulary controlled vocabulary sample type match: tumor
sample_type tumor sample sample GSM9443677 Runtime Siftome inference GEO:sample:GSM9443677:5c21d5210e98084866050aa8025c9f7d834ad89e78a6e0d029b7940b4f99b4f5 low confidence tumor sample_accession: GSM9443677 sample_title: qd176_advanced tumor source_name: colorectum characteristics: tissue: colorectum qd176_advanced tumor controlled vocabulary controlled vocabulary sample type match: tumor
tissue colon dataset GSE316039 Runtime Siftome inference GEO:dataset:GSE316039:4c691d021fae491f281995ccdfed20e245cf5477de39f2c1462629ea5ba8ecb3 medium confidence colorectal dataset_accession: GSE316039 dataset_title: Downregulation of MGST3 promotes colorectal cancer progression organism: Homo sapiens assay_type: bulk RNA-seq processed_data_availab... controlled vocabulary controlled vocabulary tissue match: colorectal
tissue colon sample GSM9443664 Runtime Siftome inference GEO:sample:GSM9443664:dcee408cec0364280f3313ee0558d2a4032e4d89bf247c21c8bc274bac90e6d4 medium confidence rectum sample_accession: GSM9443664 sample_title: qd150_normal tissue source_name: colorectum characteristics: tissue: colorectum qd150_normal tissue controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443665 Runtime Siftome inference GEO:sample:GSM9443665:24e70f4be2a135ff3992e3f7393e028c513eed1a52d2986ac590de88db239bb3 medium confidence rectum sample_accession: GSM9443665 sample_title: qd170_normal tissue source_name: colorectum characteristics: tissue: colorectum qd170_normal tissue controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443666 Runtime Siftome inference GEO:sample:GSM9443666:edb42fcdd93cb60e272f7c0736e339574b81e5b73cfb817128bf0ad34e630f89 medium confidence rectum sample_accession: GSM9443666 sample_title: qd174_normal tissue source_name: colorectum characteristics: tissue: colorectum qd174_normal tissue controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443667 Runtime Siftome inference GEO:sample:GSM9443667:76cb9b3a4db5c7d854ec065a617e6c1017716d87a3079f871c328e0781cb9541 medium confidence rectum sample_accession: GSM9443667 sample_title: qd180_normal tissue source_name: colorectum characteristics: tissue: colorectum qd180_normal tissue controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443668 Runtime Siftome inference GEO:sample:GSM9443668:5ffcb489e2819c97552550c96198e9daef2bfc694ffa75960ecc24d791c00429 medium confidence rectum sample_accession: GSM9443668 sample_title: qd168_villous adenoma source_name: colorectum characteristics: tissue: colorectum qd168_villous adenoma controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443669 Runtime Siftome inference GEO:sample:GSM9443669:d56b85b31810c000f425f7a0ab5c1a512e87f4482ad13f27908437d21f7bc6c7 medium confidence rectum sample_accession: GSM9443669 sample_title: qd172_villous adenoma source_name: colorectum characteristics: tissue: colorectum qd172_villous adenoma controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443670 Runtime Siftome inference GEO:sample:GSM9443670:afa49558c34a79b4bd66f769c057718924292be9efd250210be6a9ca4e9815f9 medium confidence rectum sample_accession: GSM9443670 sample_title: qd178_villous adenoma source_name: colorectum characteristics: tissue: colorectum qd178_villous adenoma controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443671 Runtime Siftome inference GEO:sample:GSM9443671:801463e7421d4ae5767a287dc84d8ebdcb6b89e6ef6f98f091eadadd11fef2ca medium confidence rectum sample_accession: GSM9443671 sample_title: qd102_tubular adenomas source_name: colorectum characteristics: tissue: colorectum qd102_tubular adenomas controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443672 Runtime Siftome inference GEO:sample:GSM9443672:9525c3647826d387dbb17b0010218290c33aab060b2b5a9a45aa6e41010aa1c2 medium confidence rectum sample_accession: GSM9443672 sample_title: qd114_tubular adenomas source_name: colorectum characteristics: tissue: colorectum qd114_tubular adenomas controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443673 Runtime Siftome inference GEO:sample:GSM9443673:8f7b5395b5f8682059351f57d1ee3d162994f7119be30f792e1af4399ff08695 medium confidence rectum sample_accession: GSM9443673 sample_title: qd100_early-stage tumor source_name: colorectum characteristics: tissue: colorectum qd100_early-stage tumor controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443674 Runtime Siftome inference GEO:sample:GSM9443674:38dff55644b5e7cdaac41ee192966d51075224f971b12a5b73e1096724109a4e medium confidence rectum sample_accession: GSM9443674 sample_title: qd112_early-stage tumor source_name: colorectum characteristics: tissue: colorectum qd112_early-stage tumor controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443675 Runtime Siftome inference GEO:sample:GSM9443675:b40a3003ecd256fd51a0f1ba9991871c7c235cb87ab2c863191e3a91dba1427a medium confidence rectum sample_accession: GSM9443675 sample_title: qd118_early-stage tumor source_name: colorectum characteristics: tissue: colorectum qd118_early-stage tumor controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443676 Runtime Siftome inference GEO:sample:GSM9443676:46f202ec80636736cc1c453be94707630831a4b7001cf7e28a40b2b8b4ab30da medium confidence rectum sample_accession: GSM9443676 sample_title: qd148_advanced tumor source_name: colorectum characteristics: tissue: colorectum qd148_advanced tumor controlled vocabulary controlled vocabulary tissue match: rectum
tissue colon sample GSM9443677 Runtime Siftome inference GEO:sample:GSM9443677:5c21d5210e98084866050aa8025c9f7d834ad89e78a6e0d029b7940b4f99b4f5 medium confidence rectum sample_accession: GSM9443677 sample_title: qd176_advanced tumor source_name: colorectum characteristics: tissue: colorectum qd176_advanced tumor controlled vocabulary controlled vocabulary tissue match: rectum

Sample Group Preview

Possible case samples

Samples currently treated as the comparison case group.

5
  • GSM9443673 qd100_early-stage tumor tumor sample Case marker detected. colorectum tissue: colorectum
  • GSM9443674 qd112_early-stage tumor tumor sample Case marker detected. colorectum tissue: colorectum
  • GSM9443675 qd118_early-stage tumor tumor sample Case marker detected. colorectum tissue: colorectum
  • GSM9443676 qd148_advanced tumor tumor sample Case marker detected. colorectum tissue: colorectum
  • GSM9443677 qd176_advanced tumor tumor sample Case marker detected. colorectum tissue: colorectum

Possible control samples

Samples currently treated as controls or baseline.

4
  • GSM9443664 qd150_normal tissue normal tissue Control marker detected. colorectum tissue: colorectum
  • GSM9443665 qd170_normal tissue normal tissue Control marker detected. colorectum tissue: colorectum
  • GSM9443666 qd174_normal tissue normal tissue Control marker detected. colorectum tissue: colorectum
  • GSM9443667 qd180_normal tissue normal tissue Control marker detected. colorectum tissue: colorectum

Unassigned samples

Samples with no explicit case or control marker.

5
  • GSM9443668 qd168_villous adenoma unassigned No explicit case or control marker detected. colorectum tissue: colorectum
  • GSM9443669 qd172_villous adenoma unassigned No explicit case or control marker detected. colorectum tissue: colorectum
  • GSM9443670 qd178_villous adenoma unassigned No explicit case or control marker detected. colorectum tissue: colorectum
  • GSM9443671 qd102_tubular adenomas unassigned No explicit case or control marker detected. colorectum tissue: colorectum
  • GSM9443672 qd114_tubular adenomas unassigned No explicit case or control marker detected. colorectum tissue: colorectum

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

100 pts
Clarity
100%
Weight
100 pts

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

Detected Sample Groups

normal tissue

4 samples
  • GSM9443664 qd150_normal tissue colorectum tissue: colorectum
  • GSM9443665 qd170_normal tissue colorectum tissue: colorectum
  • GSM9443666 qd174_normal tissue colorectum tissue: colorectum
  • GSM9443667 qd180_normal tissue colorectum tissue: colorectum

unassigned

5 samples
  • GSM9443668 qd168_villous adenoma colorectum tissue: colorectum
  • GSM9443669 qd172_villous adenoma colorectum tissue: colorectum
  • GSM9443670 qd178_villous adenoma colorectum tissue: colorectum
  • GSM9443671 qd102_tubular adenomas colorectum tissue: colorectum
  • GSM9443672 qd114_tubular adenomas colorectum tissue: colorectum

tumor sample

5 samples
  • GSM9443673 qd100_early-stage tumor colorectum tissue: colorectum
  • GSM9443674 qd112_early-stage tumor colorectum tissue: colorectum
  • GSM9443675 qd118_early-stage tumor colorectum tissue: colorectum
  • GSM9443676 qd148_advanced tumor colorectum tissue: colorectum
  • GSM9443677 qd176_advanced tumor colorectum tissue: colorectum

Score Breakdown

100%

relevance

  • Disease or condition metadata normalized.
  • Organism normalized.
  • Assay type normalized.
  • Tissue metadata normalized.
100%

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.
  • Colorectal, colon, rectal, or CRC disease context boosted for 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.
100%

overall

  • Weighted score: 30% relevance, 30% comparison suitability, 25% metadata quality, 15% data availability.

Sample Links

14 samples

Review Audit Trail

0 decisions

No review decisions have been stored for this dataset.