Better prediction of clinical outcome in clear cell renal cell carcinoma based on a 6 metabolism-related gene signature.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37460577", "kind": "science-record", "revision": 3, "content_hash": "sha256:156a9ab7d98c57b87e7ca829674bfbe9bd4f8c1b81391e519fdc04614583f5bf", "created_at": "2026-11-01T19:02:13Z", "updated_at": "2026-11-01T22:09:54Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Better prediction of clinical outcome in clear cell renal cell carcinoma based on a 6 metabolism-related gene signature.", "doi": "10.1038/s41598-023-38380-7", "pmid": "37460577", "authors": ["Zhixian Yu", "Yating Zhan", "Yong Guo", "Dalin He"], "journal": "Scientific reports", "year": 2023, "abstract": "It has been reported that metabolic disorders participate in the formation and progression of clear cell renal cell carcinoma (ccRCC). However, the predictive value of metabolism-related genes (MRGs) in clinical outcome of ccRCC is still largely unknown. Herein, a novel metabolism-related signature was generated to assess the effect of MRGs on the prognosis of ccRCC patients. Important module MRGs were selected by differentially expressed analysis and WGCNA. Subsequently, the hub MRGs were screened via univariate cox regression as well as LASSO regression. A new metabolism-related signature of 6 hub MRGs (PAFAH2, ACADSB, ACADM, HADH, PYCR1 and ITPKA) was constructed, with a good prognostic prediction ability in the TCGA cohort. The prediction accuracy of this signature was further confirmed in both GSE22541 and FAHWMU cohort. Interestingly, this MRG risk signature was highly correlated with tumor mutation burden and immune infiltration in ccRCC. Notably, lower PAFAH2, a member of 6 MRGs, was found in ccRCC. Knockdown of PAFAH2 contributed to renal cancer cell proliferation and migration. Collectively, a 6-MRG prognostic risk signature is generated to estimate the prognostic status of ccRCC patients, providing a novel insight in the prognosis prediction and treatment of ccRCC.", "claims": [{"id": "claim-method", "statement": "Subsequently, the hub MRGs were screened via univariate cox regression as well as LASSO regression.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37460577", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Subsequently, the hub MRGs were screened via univariate cox regression as well as LASSO regression."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets were analyzed in this study. This data can be found here: https://portal.gdc.cancer.gov/ (TCGA-ccRCC) and https://www.ncbi.nlm.nih.gov/geo/ (GEO- GSE22541).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37460577", "locator": "sections[36] \"Data availability\" paragraph 2", "quote": "Publicly available datasets were analyzed in this study. This data can be found here: https://portal.gdc.cancer.gov/ (TCGA-ccRCC) and https://www.ncbi.nlm.nih.gov/geo/ (GEO- GSE22541)."}], "state": "complete"}, {"id": "claim-target-result", "statement": "A 6-MRG prognostic risk signature comprising PAFAH2, ACADSB, ACADM, HADH, PYCR1 and ITPKA was constructed and showed prognostic value in ccRCC.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37460577", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "A new metabolism-related signature of 6 hub MRGs (PAFAH2, ACADSB, ACADM, HADH, PYCR1 and ITPKA) was constructed, with a good prognostic prediction ability in the TCGA cohort."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "A 6-MRG prognostic risk signature comprising PAFAH2, ACADSB, ACADM, HADH, PYCR1 and ITPKA was constructed and showed prognostic value in ccRCC.", "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:37460577"], "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": "blocked", "blocked_on": "data:accession_absent", "description": "The GEO series accession resolves and its sample accessions are listed. 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