Identification and validation of genetic signature associated with aging in chronic obstructive pulmonary disease.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36309899", "kind": "science-record", "revision": 5, "content_hash": "sha256:ec29822c99efebea320cd9c857abd4cd785f3d7a48250a68a48c46319782d603", "created_at": "2026-11-01T18:15:43Z", "updated_at": "2026-11-01T22:50:29Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification and validation of genetic signature associated with aging in chronic obstructive pulmonary disease.", "doi": "10.18632/aging.204358", "pmid": "36309899", "authors": ["Shanshan Chen", "Yuan Zhan", "Jinkun Chen", "Jixing Wu", "Yiya Gu", "Qian Huang", "Zhesong Deng", "Xiaojie Wu", "Yongman Lv", "Jungang Xie"], "journal": "Aging", "year": 2022, "abstract": "Aging plays an essential role in the development for chronic obstructive pulmonary disease (COPD). The aim of this study was to identify and validate the potential aging-related genes of COPD through bioinformatics analysis and experimental validation. Firstly, we compared the gene expression profiles of aged and young COPD patients using two datasets (GSE76925 and GSE47460) from Gene Expression Omnibus (GEO), and identified 244 aging-related different expressed genes (DEGs), with 132 up-regulated and 112 down-regulated. Then, by analyzing the data for cigarette smoke-induced COPD mouse model (GSE125521), a total of 783 DEGs were identified between aged and young COPD mice, with 402 genes increased and 381 genes decreased. Additionally, functional enrichment analysis revealed that these DEGs were actively involved in COPD-related biological processes and function pathways. Meanwhile, six genes were identified as the core aging-related genes in COPD after combining the human DEGs and mouse DEGs. Eventually, five out of six core genes were validated to be up-regulated in the lung tissues collected from aged COPD patients than young COPD patients, namely NKG7, CKLF, LRP4, GDPD3 and CXCL9. Thereinto, the expressions of NKG7 and CKLF were negatively associated with lung function. These results may expand the understanding for aging in COPD.", "claims": [{"id": "claim-method", "statement": "In order to identify the DEGs between the young and aged groups, the limma R packages (http://www.bioconductor.org/packages) was used to perform the negative binomial distribution method according to the two standard deviations where the absolute value of FC was greater than the median of FC.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36309899", "locator": "sections[10] \"Microarray data acquisition and process\" paragraph 2", "quote": "In order to identify the DEGs between the young and aged groups, the limma R packages (http://www.bioconductor.org/packages) was used to perform the negative binomial distribution method according to the two standard deviations where the absolute value of FC was greater than the median of FC."}], "state": "complete"}, {"id": "claim-data-access", "statement": "To identify the genes associated with aging in COPD patients, two microarray datasets (GSE76925 and GSE47460) were downloaded from Gene Expression Omnibus (GEO, http://www.ncbi.nlm.nih.gov/geo) [50, 51].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36309899", "locator": "sections[10] \"Microarray data acquisition and process\" paragraph 2", "quote": "To identify the genes associated with aging in COPD patients, two microarray datasets (GSE76925 and GSE47460) were downloaded from Gene Expression Omnibus (GEO, http://www.ncbi.nlm.nih.gov/geo) [50, 51]."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Eventually, five out of six core genes were validated to be up-regulated in the lung tissues collected from aged COPD patients than young COPD patients, namely NKG7, CKLF, LRP4, GDPD3 and CXCL9.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36309899", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Eventually, five out of six core genes were validated to be up-regulated in the lung tissues collected from aged COPD patients than young COPD patients, namely NKG7, CKLF, LRP4, GDPD3 and CXCL9."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Eventually, five out of six core genes were validated to be up-regulated in the lung tissues collected from aged COPD patients than young COPD patients, namely NKG7, CKLF, LRP4, GDPD3 and CXCL9.", "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:36309899"], "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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