Extracellular matrix-related genes play an important role in the progression of NMIBC to MIBC: a bioinformatics analysis study.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:32391563", "kind": "science-record", "revision": 8, "content_hash": "sha256:3ebb923eff0187fb10ac9c0705ad817aaae9d7dfe7e70bb1139ea31193d0b934", "created_at": "2026-11-01T15:41:01Z", "updated_at": "2026-11-01T22:44:50Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Extracellular matrix-related genes play an important role in the progression of NMIBC to MIBC: a bioinformatics analysis study.", "doi": "10.1042/BSR20194192", "pmid": "32391563", "authors": ["Heng Zhang", "Gang Shan", "Jukun Song", "Ye Tian", "Ling-Yue An", "Yong Ban", "Guang-Heng Luo"], "journal": "Bioscience reports", "year": 2020, "abstract": "Bladder cancer is the 11th most common cancer in the world. Bladder cancer can be roughly divided into muscle invasive bladder cancer (MIBC) and non-muscle invasive bladder cancer (NMIBC). The aim of the present study was to identify the key genes and pathways associated with the progression of NMIBC to MIBC and to further analyze its molecular mechanism and prognostic significance. We analyzed microarray data of NMIBC and MIBC gene expression datasets (GSE31684) listed in the Gene Expression Omnibus (GEO) database. After the dataset was analyzed using R software, differentially expressed genes (DEGs) of NMIBC and MIBC were identified. These DEGs were analyzed using Gene Ontology (GO) enrichment, KOBAS-Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis, and protein-protein interaction (PPI) analysis. The effect of these hub genes on the survival of bladder cancer patients was analyzed in The Cancer Genome Atlas (TCGA) database. A total of 389 DEGs were obtained, of which 270 were up-regulated and 119 down-regulated. GO and KEGG pathway enrichment analysis revealed that DEGs were mainly involved in the pathway of protein digestion and absorption, extracellular matrix (ECM) receiver interaction, phantom, toll-like receptor (TLR) signaling pathway, focal adhesion, NF-κB signaling pathway, PI3K/Akt signaling pathway, and other signaling pathways. Top five hub genes COL1A2, COL3A1, COL5A1, POSTN, and COL12A1 may be involved in the development of MIBC. These results may provide us with a further understanding of the occurrence and development of MIBC, as well as new targets for the diagnosis and treatment of MIBC in the future.", "claims": [{"id": "claim-method", "statement": "The limma package for bioconductor (http://www.bioconductor.org/) was used to analyze the progressive gene differential expression between NMIBC and MIBC.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32391563", "locator": "sections[4] \"Data processing\" paragraph 2", "quote": "The limma package for bioconductor (http://www.bioconductor.org/) was used to analyze the progressive gene differential expression between NMIBC and MIBC."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data can be obtained from GEO website.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32391563", "locator": "sections[18] \"Data Availability\" paragraph 2", "quote": "Data can be obtained from GEO website."}], "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:32391563"], "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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SERPING1 FXYD6 CHST11 TIMP1 MAMDC2 PDGFC CTSK CYBRD1 CTSV TUBB6 SULF2 NEXN C5orf34 DCLK1 PRTFDC1 PCOLCE PNMA1 SLC7A7 CKS2 BCAT1 COL15A1 OGN KIAA0895 EPB41L3 PTRF CDC20 PBK SHCBP1 CLIC4 PDGFRL LINC01279 SERPINA3 CNN1 JAZF1 SUGCT MRGPRF DPYSL3 HMCN1 FIBIN CEP55 COL8A2 CAV1 PALLD CYP1B1 KIAA1598 TPST1 AHNAK2 CLEC2B MS4A4A OGFRL1 MN1 CNN3 NXN EVI2B ASB5 MT2A ACTG2 TRPS1 GBP5 GPC6 TREM1 FBN1 OSR2 SYNC CD163 IFIT1 SECTM1 PLAGL1 FBLN2 PCDHB5 NR3C1 MT1HL1 CACNA2D1 PLA2G7 SOSTDC1 STEAP1 PCOLCE2 MGC24103 PLSCR4 CXCL12 SGPP1 TMEM200A MT1E C5AR1 ASPN RNASE6 KATNAL1 AAED1 ALDH2 BCL2A1 OLFML3 TNFAIP6 DEPDC7 DSCR8 CRISPLD1 PEG10 ARSI IGF2BP3 CCL4 MT1X NAP1L3 PI3 TIMP2 DEPDC1B GLT8D2 ZNF521 C3orf80 CXCL10 EPYC ANLN KIAA1524 MGP CXCL9 CCL8 MLLT11 CFL2 TUBA1A RAB23 CD109 CHI3L1 FKBP10 FN1 C1QB FCER1G HIST1H3G ITGAM NUF2 CHRDL2 LOC100132891 CENPW LINC01094 PPAPDC1A CCL19 GXYLT2 KIF18A INHBA ADAMDEC1 IFI6 TGFBI HSD17B6 ANXA5 FLNA COL16A1 COLEC12 COL5A1 RARRES2 OLR1 OXCT1 THBS2 SERPINF1 DSC2 IL18 COL6A3 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