Exploration and identification of anoikis-related genes in polycythemia vera.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36873934", "kind": "science-record", "revision": 4, "content_hash": "sha256:79864bfacc2aba164e8182b4d1dc42b7f52922ad330ba169df9fdc37c37a9b22", "created_at": "2026-11-01T19:01:30Z", "updated_at": "2026-11-01T22:51:25Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Exploration and identification of anoikis-related genes in polycythemia vera.", "doi": "10.3389/fgene.2023.1139351", "pmid": "36873934", "authors": ["Wufuer Aini", "Limin Xie", "Wanyu Hu", "Yuan Tang", "Hongling Peng", "Guangsen Zhang", "Tuo Deng"], "journal": "Frontiers in genetics", "year": 2023, "abstract": "Background: Polycythemia Vera (PV) is a type of typical Myeloproliferative Neoplasms (MPNs) characterized with excessive erythropoiesis and thrombosis. Anoikis is a special programmed cell death mode induced by the adhesion disorder between cells and extracellular matrix (ECM) or adjacent cells facilitating cancer metastasis. However, few studies have focused on the role of anoikis in PV, especially on the development of PV. Methods: The microarray and RNA-seq results were screened from the Gene Expression Omnibus (GEO) database and the anoikis-related genes (ARGs) were downloaded from Genecards. The functional enrichment analysis of intersecting differentially expressed genes (DEGs) and protein-protein interaction (PPI) network analysis were performed to discover hub genes. The hub genes expression was tested in the training (GSE136335) and validation cohort (GSE145802), and RT-qPCR was performed to verify the gene expression in PV mice. Results: In the training GSE136335, a total of 1,195 DEGs was obtained from Myeloproliferative Neoplasm (MPN) patients compared with controls, among which 58 were anoikis-related DEGs. The significant enrichment of the apoptosis and cell adhesion pathways (i.e., cadherin binding) were shown in functional enrichment analysis. The PPI network was conducted to identify top five hub genes (CASP3, CYCS, HIF1A, IL1B, MCL1). The expression of CASP3 and IL1B were significantly upregulated both in validation cohort and PV mice and downregulated after treatment, suggesting that CASP3 and IL1B could be important indicators for disease surveillance. Conclusion: Our research revealed a relationship between anoikis and PV for the first time by combined analysis of gene level, protein interaction and functional enrichment, allowing novel insights into mechanisms of PV. Moreover, CASP3 and IL1B may become promising indicators of PV development and treatment.", "claims": [{"id": "claim-method", "statement": "Differentially expressed genes (DEGs) between patients with MPNs and healthy controls were identified in GSE136335 dataset via the “limma” R package (Gentleman, 2005), the cutoff for adjustment: p-value <0.05 and FC (fold change) > 1.5.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36873934", "locator": "sections[5] \"Data processing and screening of anoikis-related DEGs\" paragraph 2", "quote": "Differentially expressed genes (DEGs) between patients with MPNs and healthy controls were identified in GSE136335 dataset via the “limma” R package (Gentleman, 2005), the cutoff for adjustment: p-value <0.05 and FC (fold change) > 1.5."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The original contributions presented in the study are included in the article/Supplementary Material. Further inquiries can be directed to the corresponding author.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36873934", "locator": "sections[16] \"Data availability statement\" paragraph 2", "quote": "The original contributions presented in the study are included in the article/Supplementary Material. Further inquiries can be directed to the corresponding author."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Our research revealed a relationship between anoikis and PV for the first time by combined analysis of gene level, protein interaction and functional enrichment, allowing novel insights into mechanisms of PV.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36873934", "locator": "sections[0] \"Abstract\" paragraph 4", "quote": "Our research revealed a relationship between anoikis and PV for the first time by combined analysis of gene level, protein interaction and functional enrichment, allowing novel insights into mechanisms of PV."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Our research revealed a relationship between anoikis and PV for the first time by combined analysis of gene level, protein interaction and functional enrichment, allowing novel insights into mechanisms of PV.", "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:36873934"], "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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