Cyclin-dependent kinase 1 shows to be a potential genetic target for chemical cystitis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:34080795", "kind": "science-record", "revision": 8, "content_hash": "sha256:e0be2ed332b8689e655675cb8f5d3963d60d202d514d853f8762fe03b85d3561", "created_at": "2026-11-01T15:41:37Z", "updated_at": "2026-11-01T22:03:54Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Cyclin-dependent kinase 1 shows to be a potential genetic target for chemical cystitis.", "doi": "10.1002/iid3.454", "pmid": "34080795", "authors": ["Kun Wang", "Huaping Du", "Qianfeng Zhuang", "Hao Lu", "Renfang Xu", "Dong Xue"], "journal": "Immunity, inflammation and disease", "year": 2021, "abstract": "BACKGROUND: In the present study, we aimed to explore whether common genetic targets or signaling pathways existed in chemical cystitis.\nMETHODS: Gene Expression Omnibus (GEO) database was used to search the related gene expression profiles. The differentially expressed genes (DEGs) were identified by using GEO2R. The DAVID 6.8 Beta and R software were used to perform Kyoto Encyclopedia of Genes and Genomes pathway analysis and Gene Ontology function analysis of DEGs. The protein-protein interaction network was constructed by STRING 11.0 to reveal the potential gene interactions. The expression of cyclin-dependent kinase 1 (Cdk1) at the messnger RNA (mRNA) and protein levels was examined by real-time polymerase chain reaction (PCR) and Western blot analysis analysis, respectively.\nRESULTS: The GEO database was searched, and the gene expression profiles of GSE55986 and GSE68539 were downloaded. A total of 262 DEGs and 356 DEGs were identified from GSE55986 and GSE68539, respectively. We found that the p53 signaling pathway might play a key role in the development of chemical cystitis, and Cdk1 acted as a crucial gene in the p53 signaling pathway. Moreover, the experimental results of real-time PCR and Western blot analysis analysis demonstrated that the expression of Cdk1 at the mRNA and protein levels in cystitis tissues was significantly increased in different animal models of chemical cystitis compared with the control group.\nCONCLUSION: Cdk1 might be a potential pathogenic genetic target for chemical cystitis.", "claims": [{"id": "claim-method", "statement": "Statistical analysis was performed by SPSS 23.0 Statistics software using Student's t test.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34080795", "locator": "sections[11] \"Statistical analysis\" paragraph 2", "quote": "Statistical analysis was performed by SPSS 23.0 Statistics software using Student's t test."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The series matrix files of GSE55986 and GSE68539 were downloaded from the GEO database. Three normal samples (GSM1349866, GSM1349867, and GSM1349868) and three CYP‐induced samples (GSM1349869, GSM1349870, and GSM1349871) were extracted from the GSE55986 profile.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34080795", "locator": "sections[4] \"Microarray data\" paragraph 2", "quote": "The series matrix files of GSE55986 and GSE68539 were downloaded from the GEO database."}, {"asset": "source:pmid:34080795", "locator": "sections[4] \"Microarray data\" paragraph 2", "quote": "Three normal samples (GSM1349866, GSM1349867, and GSM1349868) and three CYP‐induced samples (GSM1349869, GSM1349870, and GSM1349871) were extracted from the GSE55986 profile."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "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:34080795"], "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:GSE55986"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "blocked", "blocked_on": "method:student_t", "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:GSE55986"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:run_analysis blocked on method:student_t"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:34080795", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1002/iid3.454", "sha256": "sha256:01ad4b6416da3cbc44900f0a5a1b540b9c4506c9ed0a08176ce1600691e9bbdd", "bytes": 26970, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1002/iid3.454", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC8342199", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE55986", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE55986", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE55986", "version": null, "note": "The series matrix files of GSE55986 and GSE68539 were downloaded from the GEO database. Three normal samples (GSM1349866, GSM1349867, and GSM1349868) and three CYP‐induced samples (GSM1349869, GSM1349870, and GSM1349871) were extracted from the GSE55986 profile.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The series matrix files of GSE55986 and GSE68539 were downloaded from the GEO database. 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Three normal samples (GSM1349866, GSM1349867, and GSM1349868) and three CYP‐induced samples (GSM1349869, GSM1349870, and GSM1349871) were extracted from the GSE55986 profile.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The series matrix files of GSE55986 and GSE68539 were downloaded from the GEO database. 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RESULTS: Th", "he experimental results of real-time PCR and Western blot analysis analysis demonstrated that the expr", "expression of Cdk1 was validated by qPCR and Western blot analysis analysis. Figure 5A‐D demonstrates", "expression of Cdk1 was verified by qPCR and Western blot analysis analysis. (A) The primer sequences"], "order_basis": "paper_text_order:789", "id": "assay:1"}, {"role": "data_generation", "definition_id": "qpcr", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["thway. Moreover, the experimental results of real-time PCR and Western blot analysis analysis demonstra", "ls. Gene expression of Cdk1 was validated by qPCR and Western blot analysis analysis. Figure 5", "roup. The expression of Cdk1 was verified by qPCR and Western blot analysis analysis. (A) The", "on of Cdk1 at the mRNA level was examined by qPCR analysis in three models. (C, D) The express"], "order_basis": "paper_text_order:1245", "id": "assay:2"}, {"role": "data_generation", "definition_id": "animal_model", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["y, 24 ± 1°C and a 12‐h light/dark cycle. The mice were given free access to tap water and food. All", "idelines. In the ketamine‐induced model, the mice were administered with 30 mg/kg/day ketamine (Sig", "normal saline. In the CYP‐induced model, the mice were administered with 300 mg/kg/day CYP (Thermo", "normal saline. In the LPS‐induced model, the mice were administered with 25 mg/kg LPS (Thermo Compa"], "order_basis": "paper_text_order:1870", "id": "assay:3"}, {"role": "analysis", "definition_id": "group_comparison", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["Statistical analysis was performed by SPSS 23.0 Statistics software using Student's t test."], "order_basis": "consumes_earlier_output", "id": "assay:4"}]}