Expression and prognosis of CDC45 in cervical cancer based on the GEO database.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:34557356", "kind": "science-record", "revision": 7, "content_hash": "sha256:a80b60a8c4bae7b49187a2573c47ec40f8a8b13145517b8ae9035548dbe467f8", "created_at": "2026-11-01T15:41:53Z", "updated_at": "2026-11-01T22:04:47Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Expression and prognosis of CDC45 in cervical cancer based on the GEO database.", "doi": "10.7717/peerj.12114", "pmid": "34557356", "authors": ["Zikang He", "Xiaojin Wang", "Zhiming Yang", "Ying Jiang", "Luhui Li", "Xingyun Wang", "Zheyao Song", "Xiuli Wang", "Jiahui Wan", "Shijun Jiang", "Naiwen Zhang", "Rongjun Cui"], "journal": "PeerJ", "year": 2021, "abstract": "Cervical cancer is one of the most common malignant tumors in women, and its morbidity and mortality are increasing year by year worldwide. Therefore, an urgent and challenging task is to identify potential biomarkers for cervical cancer. This study aims to identify the hub genes based on the GEO database and then validate their prognostic values in cervical cancer by multiple databases. By analysis, we obtained 83 co-expressed differential genes from the GEO database (GSE63514, GSE67522 and GSE39001). GO and KEGG enrichment analysis showed that these 83 co-expressed it mainly involved differential genes in DNA replication, cell division, cell cycle, etc.. The PPI network was constructed and top 10 genes with protein-protein interaction were selected. Then, we validated ten genes using some databases such as TCGA, GTEx and oncomine. Survival analysis demonstrated significant differences in CDC45, RFC4, TOP2A. Differential expression analysis showed that these genes were highly expressed in cervical cancer tissues. Furthermore, univariate and multivariate cox regression analysis indicated that CDC45 and clinical stage IV were independent prognostic factors for cervical cancer. In addition, the HPA database validated the protein expression level of CDC45 in cervical cancer. Further studies investigated the relationship between CDC45 and tumor-infiltrating immune cells via CIBERSORT. Finally, gene set enrichment analysis (GSEA) showed CDC45 related genes were mainly enriched in cell cycle, chromosome, catalytic activity acting on DNA, etc. These results suggested CDC45 may be a potential biomarker associated with the prognosis of cervical cancer.", "claims": [{"id": "claim-method", "statement": "The differentially expressed genes (DEGs) between cancer tissues and non-cancerous tissues were screened out using GEO2R (Davis & Meltzer, 2007) (http://www.ncbi.nlm.nih.gov/geo/geo2r).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34557356", "locator": "sections[3] \"Data collection and data processing\" paragraph 3", "quote": "The differentially expressed genes (DEGs) between cancer tissues and non-cancerous tissues were screened out using GEO2R (Davis & Meltzer, 2007) (http://www.ncbi.nlm.nih.gov/geo/geo2r)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The following information was supplied regarding data availability:\nThe data is available at NCBI GEO: GSE63514, GSE67522, GSE39001, GSE52903.\nThe R code is available upon request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34557356", "locator": "sections[35] \"Data Availability Statement\" paragraphs 1-4", "quote": "The following information was supplied regarding data availability:\nThe data is available at NCBI GEO: GSE63514, GSE67522, GSE39001, GSE52903.\nThe R code is available upon request."}], "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:34557356"], "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:GSE39001"], "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:GSE39001"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:34557356", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.7717/peerj.12114", "sha256": 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GSE52903.\nThe R code is available upon request.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The following information was supplied regarding data availability:\nThe data is available at NCBI GEO: GSE63514, GSE67522, GSE39001, GSE52903.\nThe R code is available upon request.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM953492", "GSM953493", "GSM953494", "GSM953495", "GSM953496", "GSM953497", "GSM953498", "GSM953499", "GSM953500", "GSM953501", "GSM953502", "GSM953503", "GSM953504", "GSM953505", "GSM953506", "GSM953507", "GSM953508", "GSM953509", "GSM953510", "GSM953511", "GSM953512", "GSM953513", "GSM953514", "GSM953515", "GSM953516", "GSM953517", "GSM953518", "GSM953519", "GSM953520", "GSM953521", "GSM953522", "GSM953523", "GSM953524", "GSM953525", "GSM953526", "GSM953527", "GSM953528", "GSM953529", "GSM953530", "GSM953531", "GSM953532", "GSM953533", "GSM953534", "GSM953535", "GSM953536", 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"10558", "taxon": "Homo sapiens", "title": "Genome-wide analysis of gene expression to identify the probably functionally relevant pathways in cervical cancer progression", "resolution_checked_at": "2026-11-01T15:39:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "asset:table:pmid:34557356:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:a415101118e68bc9f3c2bc761b230b932133cef34e0823b1bdacfeb468189b96", "bytes": 965, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[16]/table-wrap[1]#table-1", "version": null, "note": "Association with overall survival and clinicopathologic characteristic in TCGA patients using Cox regression analysis.", "structure": {"pmcid": "PMC8420875", "section_index": 16, "section_title": "Verification and analysis of Hub genes in multiple databases", "row_count": 19, "column_count": 3}, "table": {"label": "Table 1", "caption": "Association with overall survival and clinicopathologic characteristic in TCGA patients using Cox regression analysis.", "rows": [["Clinical characteristics", "HR (95%CI)", "P-val"], ["UniCOX", "", ""], ["Age", "1.02 [1.00–1.04]", "0.134"], ["Stage I", "Ref.", ""], ["Stage II", "0.66 [0.28–1.51]", "0.318"], ["Stage III", "1.24 [0.58–2.66]", "0.582"], ["Stage IV", "6.22 [2.87–13.48]", "<0.001***"], ["Grade 1", "Ref.", ""], ["Grade 2", "1.02 [0.24–4.34]", "0.973"], ["Grade 3", "1.00 [0.23–4.30]", "0.997"], ["CDC45", "0.93 [0.88–0.98]", "0.008**"], ["RFC4", "0.99 [0.96–1.01]", "0.203"], ["TOP2A", "1.00 [0.99–1.02]", "0.598"], ["MultiCOX", "", ""], ["Stage I", "Ref.", ""], ["Stage II", "0.59 [0.25–1.37]", "0.220"], ["Stage III", "1.12 [0.52–2.42]", "0.766"], ["Stage IV", "5.54 [2.55–12.04]", "<0.001***"], ["CDC45", "0.93 [0.88–0.98]", "0.012*"]], "row_count": 19, "column_count": 3, 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