Gene expression profiling of WDR5 regulated genes in bladder cancer.

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Recently, our study found that WDR5 was upregulated in bladder cancer tissues, promoted bladder cancer cell proliferation, self-renewal and chemoresistance to cisplatin in bladder cancer cells in vitro, and tumor growth in vivo (Chen et al., 2015). To gain a molecular understanding of the role of WDR5 in promoting bladder cancer, we performed a genome-wide analysis on WDR5 knockdown by microarray gene expression profiling. Here we provide detailed experimental methods and analysis for the microarray data, which have been deposited into Gene Expression Omnibus (GEO): GSE59132.", "claims": [{"id": "claim-method", "statement": "All samples were normalized through the Robust Multi-array Average (RMA) using DNA-chip analyzer (dChip).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26484217", "locator": "sections[8] \"Data normalization and analysis\" paragraph 2", "quote": "All samples were normalized through the Robust Multi-array Average (RMA) using DNA-chip analyzer (dChip)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The deposited data can be found at: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE59132.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26484217", "locator": "sections[2] \"Direct link to deposited data\" paragraph 2", "quote": "The deposited data can be found at: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE59132."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Using RMA-normalized microarray data, the study identified 136 upregulated and 42 downregulated genes common to both WDR5-targeting siRNAs, with the raw CEL files deposited in GEO under accession GSE59132.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:26484217", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Here we provide detailed experimental methods and analysis for the microarray data, which have been deposited into Gene Expression Omnibus (GEO): GSE59132."}, {"asset": "source:pmid:26484217", "locator": "sections[8] \"Data normalization and analysis\" paragraph 2", "quote": "All samples were normalized through the Robust Multi-array Average (RMA) using DNA-chip analyzer (dChip)."}, {"asset": "source:pmid:26484217", "locator": "sections[8] \"Data normalization and analysis\" paragraph 2", "quote": "To further investigate the target genes of WDR5, differentially expressed genes were identified with both fold change of ≥ 1.5 and at least one group fold change of ≥ 2 in both siRNA compared with control siRNA."}, {"asset": "source:pmid:26484217", "locator": "sections[8] \"Data normalization and analysis\" paragraph 2", "quote": "There were 136 upregulated genes and 42 downregulated genes in both siRNAs of WDR5 compared with control siRNA [4]."}, {"asset": "source:pmid:26484217", "locator": "sections[1] \"p\" paragraph 1", "quote": "Data formatRaw data: CEL files"}, {"asset": "source:pmid:26484217", "locator": "sections[2] \"Direct link to deposited data\" paragraph 2", "quote": "The deposited data can be found at: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE59132."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Using RMA-normalized microarray data, the study identified 136 upregulated and 42 downregulated genes common to both WDR5-targeting siRNAs, with the raw CEL files deposited in GEO under accession GSE59132.", "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:26484217"], "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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