Bioinformatic identification of key genes and molecular pathways in the spermatogenic process of cryptorchidism.

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The gene expression profile data of GSE25518 was obtained from the Gene Expression Omnibus (GEO) database. Microarray data were analyzed using BRB-Array Tools to identify differentially expressed genes (DEGs) between high azoospermia risk (HAZR) patients and controls. In addition, other analytical methods were deployed, including hierarchical clustering analysis, class comparison between patients with HAZR and the normal control group, gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis, and the construction of a protein-protein interaction (PPI) network. In total, 1015 upregulated genes and 1650 downregulated genes were identified. GO and KEGG analysis revealed enrichment in terms of changes in the endoplasmic reticulum cellular component and the endoplasmic reticulum protein synthetic process in the HAZR group. Furthermore, the arachidonic acid pathway and mTOR pathway were also identified as important pathways, while RICTOR and GPX8 were indentified as key genes involved in the spermatogenic process of patients with cryptorchidism. In present study, we found that changes in the synthesis of endoplasmic reticulum proteins, arachidonic acid and the mTOR pathway are important in the incidence and spermatogenic process of cryptorchidism. GPX8 and RICTOR were also identified as key genes associated with cryptorchidism. Collectively, these data may provide novel clues with which to explore the precise etiology and mechanism underlying cryptorchidism and cryptorchidism-induced human infertility.", "claims": [{"id": "claim-method", "statement": "A t-test was used to compare these two groups and identify DEGS, where P < 0.01.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31832523", "locator": "sections[4] \"Identification of DEGs\" paragraph 2", "quote": "A t-test was used to compare these two groups and identify DEGS, where P < 0.01."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The gene expression profile data of GSE25518 (an ID code relating to specific expression data) based on the platform of GPL570 (Affymetrix Human Genome U133 Plus 2.0 Array) were obtained from the Gene Expression Omnibus (GEO) database, National Center for Biotechnology Information (NCBI) (http://www.ncbi.nlm.nih.gov/geo/).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31832523", "locator": "sections[3] \"Affymetrix microarray data\" paragraph 2", "quote": "The gene expression profile data of GSE25518 (an ID code relating to specific expression data) based on the platform of GPL570 (Affymetrix Human Genome U133 Plus 2.0 Array) were obtained from the Gene Expression Omnibus (GEO) database, National Center for Biotechnology Information (NCBI) (http://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:31832523"], "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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