Identifying key genes and functionally enriched pathways in Th2-high asthma by weighted gene co-expression network analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35550122", "kind": "science-record", "revision": 4, "content_hash": "sha256:772359617054210bcd6bbc6aff0232871d41e8726ad220f51fff8c7ee4da15f3", "created_at": "2026-11-01T18:14:26Z", "updated_at": "2026-11-01T22:06:30Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identifying key genes and functionally enriched pathways in Th2-high asthma by weighted gene co-expression network analysis.", "doi": "10.1186/s12920-022-01241-9", "pmid": "35550122", "authors": ["Yao Cao", "Yi Wu", "Li Lin", "Lin Yang", "Xin Peng", "Lina Chen"], "journal": "BMC medical genomics", "year": 2022, "abstract": "BACKGROUND: Asthma is a chronic lung disease characterized by reversible inflammation of the airways. The imbalance of Th1/Th2 cells plays a significant role in the mechanisms of asthma. The aim of this study was to identify asthma-related key genes and functionally enriched pathways in a Th2-high group by using weighted gene coexpression network analysis (WGCNA).\nMETHODS: The gene expression profiles of GSE4302, which included 42 asthma patients and 28 controls, were selected from the Gene Expression Omnibus (GEO). A gene network was constructed, and genes were classified into different modules using WGCNA. Gene ontology (GO) was performed to further explore the potential function of the genes in the most related module. In addition, the expression profile and diagnostic capacity (ROC curve) of hub genes of interest were verified by dataset GSE67472.\nRESULTS: In dataset GSE4302, subjects with asthma were divided into Th2-high and Th2-low groups according to the expression of the SERPINB2, POSTN and CLCA1 genes. A weighted gene coexpression network was constructed, and genes were classified into 7 modules. Among them, the red module was most closely associated with Th2-high asthma, which contained 60 genes. These genes were significantly enriched in different biological processes and molecular functions. A total of 8 hub genes (TPSB2, CPA3, ITLN1, CST1, SERPINB10, CEACAM5, CHD26 and P2RY14) were identified, and the expression levels of these genes (except TPSB2) were confirmed in dataset GSE67472. ROC curve analysis validated that the expression of these 8 genes exhibited excellent diagnostic efficiency for Th2-high asthma and Th2-low asthma.\nCONCLUSIONS: The study provides a novel perspective on Th2-high asthma by WGCNA, and the hub genes and potential pathways involved may be beneficial for the diagnosis and management of Th2-high asthma.", "claims": [{"id": "claim-method", "statement": "A gene network was constructed, and genes were classified into different modules using WGCNA.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35550122", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "A gene network was constructed, and genes were classified into different modules using WGCNA."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Our data can be found in the Gene Expression Omnibus (GEO, https://www.ncbi.nlm.nih.gov/geo/, GSE4302 and GSE67472) database.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35550122", "locator": "sections[22] \"Availability of data and materials\" paragraph 2", "quote": "Our data can be found in the Gene Expression Omnibus (GEO, https://www.ncbi.nlm.nih.gov/geo/, GSE4302 and GSE67472) database."}], "state": "complete"}, {"id": "claim-target-result", "statement": "A total of 8 hub genes (TPSB2, CPA3, ITLN1, CST1, SERPINB10, CEACAM5, CHD26 and P2RY14) were identified, and the expression levels of these genes (except TPSB2) were confirmed in dataset GSE67472.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35550122", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "A total of 8 hub genes (TPSB2, CPA3, ITLN1, CST1, SERPINB10, CEACAM5, CHD26 and P2RY14) were identified, and the expression levels of these genes (except TPSB2) were confirmed in dataset GSE67472."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "A total of 8 hub genes (TPSB2, CPA3, ITLN1, CST1, SERPINB10, CEACAM5, CHD26 and P2RY14) were identified, and the expression levels of these genes (except TPSB2) were confirmed in dataset GSE67472.", "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:35550122"], "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. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE4302"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE4302"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:35550122", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1186/s12920-022-01241-9", "sha256": 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