COL5A2 Promotes Proliferation and Invasion in Prostate Cancer and Is One of Seven Gleason-Related Genes That Predict Recurrence-Free Survival.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:33816226", "kind": "science-record", "revision": 8, "content_hash": "sha256:a6d388c971927aae494cfd469f195aa7d9b31e3ea174ae7ba94231b583b1507a", "created_at": "2026-11-01T15:41:31Z", "updated_at": "2026-11-01T22:46:27Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "COL5A2 Promotes Proliferation and Invasion in Prostate Cancer and Is One of Seven Gleason-Related Genes That Predict Recurrence-Free Survival.", "doi": "10.3389/fonc.2021.583083", "pmid": "33816226", "authors": ["Xiaohan Ren", "Xinglin Chen", "Kai Fang", "Xu Zhang", "Xiyi Wei", "Tongtong Zhang", "Guangyao Li", "Zhongwen Lu", "Ninghong Song", "Shangqian Wang", "Chao Qin"], "journal": "Frontiers in oncology", "year": 2021, "abstract": "Extensive research has revealed that the score derived from the Gleason grading system plays a pivotal role in predicting prostate cancer (PCa) progression. However, the underlying involvement of Gleason-related genes in PCa requires further investigation. This study aimed to identify Gleason-related genes with the potential to guide PCa therapy and future research. Differentially expressed genes (DEGs) were identified by comparing PCa tissues with high or low Gleason scores using the Gene Expression Omnibus (GEO) and the Cancer Genome Atlas (TCGA) databases. R v3.6.1, SPSS v23, and ImageJ software were used for all analyses. An effective recurrence-free survival (RFS) predictive model based on seven Gleason-related genes was established and validated (TCGA, AUC = 0.803; five years, AUC = 0.740; three years, AUC = 0.722; one year, AUC = 0.711; GSE46602, AUC = 0.766; five years, AUC = 0.808; three years, AUC = 0.723; one year, AUC = 0.656; GSE116918, AUC = 0.788; five years, AUC = 0.704; three years, AUC = 0.693; one year, AUC = 0.996). Calibration and nomogram plots were conducted. Weighted correlation network analysis (WGCNA) was used, and COL5A2 was selected for further analysis. The results from in vitro experiments demonstrated that COL5A2 was upregulated in PCa with high Gleason scores. The knockdown of COL5A2 inhibited cell proliferation and invasion in PC-3 and LNCaP cell lines. Meanwhile, COL5A2 displayed a strong association with immune infiltration, which might be an underlying immunotherapy target for PCa. We successfully established a robust RFS predictive model. The findings from this study indicated that COL5A2 could promote cell proliferation and invasion in PCa.", "claims": [{"id": "claim-method", "statement": "Genes that were differentially expressed between the high-risk and low-risk groups were analyzed using the limma package in R.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33816226", "locator": "sections[18] \"Identification of Differentially Expressed Genes\" paragraph 2", "quote": "Genes that were differentially expressed between the high-risk and low-risk groups were analyzed using the limma package in R."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The original contributions presented in the study are included in the article/ Supplementary Material Further inquiries can be directed to the corresponding authors.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33816226", "locator": "sections[29] \"Data Availability Statement\" paragraph 2", "quote": "The original contributions presented in the study are included in the article/ Supplementary Material Further inquiries can be directed to the corresponding authors."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:33816226"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE70768", "GSE46602", "GSE116918"], "resolved_accessions": ["GSE70768", "GSE46602", "GSE116918"], "statements": ["The original contributions presented in the study are included in the article/ Supplementary Material Further inquiries can be directed to the corresponding authors."], "basis": "The paper names GSE70768, GSE46602, GSE116918 in Gene Expression Omnibus (GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "assets": ["source:pmid:33816226", "data:geo:GSE116918", "asset:table:pmid:33816226:1", "asset:table:pmid:33816226:2"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE116918"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:28:45Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 3, "usage": {"prompt_tokens": 26271, "completion_tokens": 1532, "cached_tokens": 8968}}, "human_critique": null, "stages": [{"id": "extraction", "state": "complete", "reader": "MiniMax-M3.1-Flash", "provider": "minimax"}], "gaps": ["review.independent_reader", "review.machine_critique", "review.human_critique"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "pmid:33816226", "type": "paper", "label": "pmid:33816226"}, {"id": "source:pmid:33816226", "type": "manuscript", "label": "PMID 33816226 full text"}, {"id": "data:geo:GSE116918", "type": "dataset", "label": "GEO GSE116918"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:33816226", "type": "paper", "label": "pmid:33816226"}, {"id": "source:pmid:33816226", "type": "manuscript", "label": "PMID 33816226 full text"}, {"id": "data:geo:GSE116918", "type": "dataset", "label": "GEO GSE116918"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-33816226", "type": "extraction", "used": ["source:pmid:33816226"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE116918", "type": "accession_resolution", "used": ["data:geo:GSE116918"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}, {"id": "agent:minimax-reader", "type": "software", "label": "MiniMax literature reader"}], "source_run_id": "reading-sci-2026-11-01", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:33816226", "parent_hash": "sha256:953a1e76885849fee2cb044f4a5c624b95db65d531202cd157520bbebada1059", "fork_of": null, "generation": 7}, "gaps": ["asset:data:geo:GSE116918 licence not read", "asset:data:geo:GSE116918 not downloaded", "asset:data:geo:GSE46602 licence not read", "asset:data:geo:GSE46602 not downloaded", "asset:data:geo:GSE70768 licence not read", "asset:data:geo:GSE70768 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "data_generation", "definition_id": "transfection", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.85, "evidence": ["gulated in PCa with high Gleason scores. The knockdown of COL5A2 inhibited cell proliferation and i"], "order_basis": "paper_text_order:1415", "id": "assay:1"}, {"role": "analysis", "definition_id": "differential_expression", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["Genes that were differentially expressed between the high-risk and low-risk groups were analyzed using the limma package in R."], "order_basis": "consumes_earlier_output", "id": "assay:2"}]}