Co-expression network analysis identified candidate biomarkers in association with progression and prognosis of breast cancer.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:31280346", "kind": "science-record", "revision": 4, "content_hash": "sha256:c984524a1113abe1d3e91a8df6bf81373d443bc4f1139d519c13cc5af7a23b07", "created_at": "2026-11-01T17:32:55Z", "updated_at": "2026-11-01T22:00:40Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Co-expression network analysis identified candidate biomarkers in association with progression and prognosis of breast cancer.", "doi": "10.1007/s00432-019-02974-4", "pmid": "31280346", "authors": ["Qiang Zhou", "Jiangbo Ren", "Jinxuan Hou", "Gang Wang", "Lingao Ju", "Yu Xiao", "Yan Gong"], "journal": "Journal of cancer research and clinical oncology", "year": 2019, "abstract": "PURPOSE: Breast cancer is one of the most common malignancies among females, and its prognosis is affected by a complex network of gene interactions. Weighted gene co-expression network analysis was used to construct free-scale gene co-expression networks and to identify potential biomarkers for breast cancer progression.\nMETHODS: The gene expression profiles of GSE42568 were downloaded from the Gene Expression Omnibus database. RNA-sequencing data and clinical information of breast cancer from TCGA were used for validation.\nRESULTS: A total of ten modules were established by the average linkage hierarchical clustering. We identified 58 network hub genes in the significant module (R2 = 0.44) and 6 hub genes (AGO2, CDC20, CDCA5, MCM10, MYBL2, and TTK), which were significantly correlated with prognosis. Receiver-operating characteristic curve validated that the mRNA levels of these six genes exhibited excellent diagnostic efficiency in the test data set of GSE42568. RNA-sequencing data from TCGA showed that the expression levels of these six genes were higher in triple-negative tumors. One-way ANOVA suggested that these six genes were upregulated at more advanced stages. The results of independent sample t test indicated that MCM10 and TTK were associated with tumor size, and that AGO2, CDC20, CDCA5, MCM10, and MYBL2 were overexpressed in lymph-node positive breast cancer.\nCONCLUSIONS: AGO2, CDC20, CDCA5, MCM10, MYBL2, and TTK were identified as candidate biomarkers for further basic and clinical research on breast cancer based on co-expression analysis.", "claims": [{"id": "claim-method", "statement": "Weighted gene co-expression network analysis was used to construct free-scale gene co-expression networks and to identify potential biomarkers for breast cancer progression.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31280346", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Weighted gene co-expression network analysis was used to construct free-scale gene co-expression networks and to identify potential biomarkers for breast cancer progression."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The gene expression profiles of GSE42568 were downloaded from the Gene Expression Omnibus database.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31280346", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "The gene expression profiles of GSE42568 were downloaded from the Gene Expression Omnibus database."}], "state": "complete"}, {"id": "claim-target-result", "statement": "AGO2, CDC20, CDCA5, MCM10, MYBL2, and TTK were identified as candidate biomarkers for further basic and clinical research on breast cancer based on co-expression analysis.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:31280346", "locator": "sections[0] \"Abstract\" paragraph 4", "quote": "AGO2, CDC20, CDCA5, MCM10, MYBL2, and TTK were identified as candidate biomarkers for further basic and clinical research on breast cancer based on co-expression analysis."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "AGO2, CDC20, CDCA5, MCM10, MYBL2, and TTK were identified as candidate biomarkers for further basic and clinical research on breast cancer based on co-expression analysis.", "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:31280346"], "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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