Identification of potential biomarkers in cervical cancer with combined public mRNA and miRNA expression microarray data analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:30250588", "kind": "science-record", "revision": 8, "content_hash": "sha256:5dc04f18696c30dc73f06c1bc31edb7d8c6d8e8199a9937fb8de992333ed1a11", "created_at": "2026-11-01T15:40:37Z", "updated_at": "2026-11-01T22:43:32Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of potential biomarkers in cervical cancer with combined public mRNA and miRNA expression microarray data analysis.", "doi": "10.3892/ol.2018.9323", "pmid": "30250588", "authors": ["Sizhe Wang", "Xiaojin Chen"], "journal": "Oncology letters", "year": 2018, "abstract": "Cervical cancer is the fourth most prevalent malignancy in females worldwide. Early diagnosis is key to improving survival rates. Molecular biomarkers are an important method for diagnosing a number of types of cancer, including cervical cancer. The present study utilized public data from three mRNA microarray datasets and one microRNA dataset to analyze the key genes involved in cervical cancer. The mRNA and microRNA expression profile datasets (GSE9750, GSE46857, GSE67522 and GSE30656) were downloaded from the Gene Expression Omnibus database (GEO). Differentially expressed genes (DEGs) and microRNAs (DEMs) were screened using the online tool GEO2R. By using the DEGs consistent across the three mRNA datasets, a functional and pathway enrichment analysis was performed using the Database for Annotation, Visualization and Integrated Discovery. A protein-protein interaction (PPI) network was constructed and module analysis performed using the Search Tool for the Retrieval of Interacting Genes. Validated target genes of the DEMs were identified using the miRecords website. Using the identified target genes of the DEMs, a survival analysis was performed using the OncoLnc online tool. A total of 73 DEGs and 19 DEMs were screened from the microarray expression profile datasets. 'Integrin-mediated', 'proteolysis' and 'phosphoinositide 3 kinase-protein kinase 3' signaling pathways were the most enriched in the DEGs. Three of the DEGs, including Ras homolog family member B (RhoB), stathmin 1 (STMN1) and cyclin D1 (CCNB1) were validated DEM target genes. The OncoLnc survival analysis identified that RhoB was associated with a significantly longer overall survival, whereas STMN1 was associated with a significantly reduced overall survival time in patients with cervical cancer. Finally, data from The Cancer Genome Atlas revealed an association between the mRNA expression levels of RhoB and STMN1, and the overall survival time for patients with cervical cancer. In conclusion, RhoB and STMN1 were identified as key genes that may provide potential targets for cervical cancer diagnosis and treatment.", "claims": [{"id": "claim-data-access", "statement": "The datasets generated and/or analyzed during the current study are available in the GEO repository, (https://www.ncbi.nlm.nih.gov/geo).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30250588", "locator": "sections[20] \"Availability of data and materials\" paragraph 2", "quote": "The datasets generated and/or analyzed during the current study are available in the GEO repository, (https://www.ncbi.nlm.nih.gov/geo)."}], "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:30250588"], "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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"sha256": "sha256:59b1ba7e2d0ea1954727cf3599024ae4dae0d733c18b2096c45bcfa7d62d3269", "bytes": 1027, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[12]/table-wrap[1]#tI-ol-0-0-9323", "version": null, "note": "List of 84 genes, 11 of which exhibited an inconsistent trend, that were identified as upregulated or downregulated using the GSE9750, GSE46857 and GSE67522 microarray datasets.", "structure": {"pmcid": "PMC6144068", "section_index": 12, "section_title": "Identification of DEGs in microarray datasets and PPI network construction", "row_count": 10, "column_count": 1}, "table": {"label": "Table I.", "caption": "List of 84 genes, 11 of which exhibited an inconsistent trend, that were identified as upregulated or downregulated using the GSE9750, GSE46857 and GSE67522 microarray datasets.", "rows": [["A, Upregulated DEGs"], ["IGF1, KRT1, AHNAK, FHL1, PRRX1, CYP3A5, ZFP36, CCND1, IGFBP5, PALMD, APOD, PIK3R1, PGM5, FOSB, GSTM5, DCN, BAIAP2, SYNGR1, HOPX, CXCL14, MPZL2, LAMA2, CDH13, CRYAB, MAL, EGR1, ARG1, DUSP1, TGM3, DPT, RGS5, SDPR, SORBS1, FOS, RHOB, CXCL12, JAM2, SPARCL1, AQP1, COL17A1, CAB39L, SLC5A1, GPX3, PTGS1, PTGIS"], [""], ["B, Downregulated DEGs"], [""], ["BRCA1, LAMP3, ASF1B, RYR1, SMC4, AURKA, CKS1B, PCNA, SPP1, TYMS, APOL1, PLOD2, STMN1, CKS2, LYN, AGRN, CCNB2, PRC1, TOP2A, CXCL9, WDHD1, RSAD2, HMMR, MCM6, IFNAR2, PLAUR, CENPF, BIRC3"], [""], ["C, Genes with an inconsistent trend"], [""], ["PEG3, NTRK2, BNIP3, MYH11, SVEP1, TRIM13, UNC93A, ARMCX1, IL17RC, KRT7, SLC6A8"]], "row_count": 10, "column_count": 1, "numeric_cells": 2, "header_rows": 1, "locator": "section[12]/table-wrap[1]#tI-ol-0-0-9323"}}, {"id": "asset:table:pmid:30250588:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:e4f21e5faf31bdff08fd0c574d9c25b11942c8df9725b161645c715513634c69", "bytes": 1040, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[13]/table-wrap[1]#tII-ol-0-0-9323", "version": null, "note": "Functional/pathway enrichment analysis of the differentially expressed genes from 3 cervical cancer mRNA expression profiles.", "structure": {"pmcid": "PMC6144068", "section_index": 13, "section_title": "Functional pathway enrichment analysis", "row_count": 14, "column_count": 4}, "table": {"label": "Table II.", "caption": "Functional/pathway enrichment analysis of the differentially expressed genes from 3 cervical cancer mRNA expression profiles.", "rows": [["Term", "Description", "Count", "P-value"], ["hsa05222", "Small cell lung cancer", "5", "3.34×10−3"], ["hsa04620", "Toll-like receptor signaling pathway", "5", "6.45×10−3"], ["hsa04510", "Focal adhesion", "6", "1.59×10−2"], ["hsa04512", "ECM-receptor interaction", "4", "2.42×10−2"], ["hsa05200", "Pathways in cancer", "7", "3.29×10−2"], ["hsa04062", "Chemokine signaling pathway", "5", "4.94×10−2"], ["hsa04150", "mTOR signaling pathway", "3", "5.71×10−2"], ["hsa00590", "Arachidonic acid metabolism", "3", "6.51×10−2"], ["hsa04110", "Cell cycle", "4", "6.56×10−2"], ["hsa05214", "Glioma", "3", "7.99×10−2"], ["hsa04115", "p53 signaling pathway", "3", "9.11×10−2"], ["hsa04730", "Long-term depression", "3", "9.34×10−2"], ["hsa05218", "Melanoma", "3", "9.80×10−2"]], "row_count": 14, "column_count": 4, "numeric_cells": 40, "header_rows": 1, "locator": "section[13]/table-wrap[1]#tII-ol-0-0-9323"}}, {"id": "asset:table:pmid:30250588:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:bcc28033e17d1e06fd0a066b3af4c84c24a6288dc6295cabb32ba95236333eb6", "bytes": 1738, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[14]/table-wrap[1]#tIII-ol-0-0-9323", "version": null, "note": "Differentially expressed miRNAs in cervical cancer screened out from miRNA expression microarray GSE30656 and their target genes which have been reported and validated using miRecords.", "structure": {"pmcid": "PMC6144068", "section_index": 14, "section_title": "miRNA-DEG pairs", "row_count": 22, "column_count": 4}, "table": {"label": "Table III.", "caption": "Differentially expressed miRNAs in cervical cancer screened out from miRNA expression microarray GSE30656 and their target genes which have been reported and validated using miRecords.", "rows": [["miRNA", "Adjusted P-value", "Log fold change", "Validated target genes"], ["miR-106b", "2.05×10−7", "1.02", "E2F1, CDKN1A, VEGFA, E2F1, CDKN1A, ITCH"], ["miR-125b", "4.82×10−4", "−1.44", "ERBB2, ERBB3, LIN28, BAK1, NTRK3, C10orf104, H3F3B, ADAMTS1, PERP"], ["miR-149", "1.04×10−4", "−1.14", "N/A"], ["miR-15b", "1.42×10−3", "1.01", "BCL2, CCNE1, RECK, MKK4, RECK, BMI1"], ["miR-16", "5.47×10−4", "1.06", "TPPP3, BCL2, VEGFA, CCND1, PDCD4, RAB21, CADM1, SKAP2, WT1, BCL2"], ["miR-192", "3.98×10−2", "1.18", "DHFR, WNK1, RB1"], ["miR-193b", "2.69×10−4", "−1.29", "PLAU, ESR1"], ["miR-194", "2.24×10−2", "1.07", "N/A"], ["miR-200a", "9.84×10−3", "1.07", "ZEB2, ZEB1 FOG2, ERBB2IP, BAP1, KLHL20"], ["miR-203", "1.57×10−5", "−3.00", "N/A"], ["miR-205", "2.16×10−2", "−2.26", "ZEB2, ZEB1, VEGFA, INPPL1, ERBB3, PRKCE, MED1"], ["miR-21", "1.69×10−5", "2.10", "TPM1, NFIB, PDCD4, SERPINB5, CDKN1A, FAS, FAM3C, HIPK3, PRRG4, ACTA2"], ["miR-223", "1.38×10−2", "1.04", "NFIA, LMO2, LMO2, STMN1, RHOB, IRS1, FBXW7, EPB41L3"], ["miR-370", "1.04×10−3", "−2.37", "MAP3K8"], ["miR-494", "2.18×10−2", "−1.22", "PTEN"], ["miR-565", "1.61×10−2", "−1.04", "N/A"], ["miR-572", "1.23×10−2", "−1.04", "N/A"], ["miR-575", "1.02×10−3", "−1.46", "N/A"], ["miR-630", "1.34×10−2", "−1.20", "N/A"], ["miR-638", "1.21×10−2", "−1.37", "N/A"], ["miR-99a", "6.46×10−4", "−1.25", "RAVER2, mTOR, IGF-IR, RPTOR, FGFR3"]], "row_count": 22, "column_count": 4, "numeric_cells": 67, "header_rows": 1, "locator": "section[14]/table-wrap[1]#tIII-ol-0-0-9323"}}, {"id": "asset:table:pmid:30250588:4", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:7e132d0bd750cfcf565899a38d38872d93b781bb82cb1cf7bc841ea827692d06", "bytes": 438, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[15]/table-wrap[1]#tIV-ol-0-0-9323", "version": null, "note": "The prognostic value of two differentially expressed genes identified in patients with other types of cancer.", "structure": {"pmcid": "PMC6144068", "section_index": 15, "section_title": "Overall survival analysis", "row_count": 5, "column_count": 3}, "table": {"label": "Table IV.", "caption": "The prognostic value of two differentially expressed genes identified in patients with other types of cancer.", "rows": [["Cancer type", "Ras homolog family member B", "Stathmin 1"], ["Breast", "0.158", "0.569"], ["Gastric", "0.046", 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