Transcriptional profiling of Foxo3a and Fancd2 regulated genes in mouse hematopoietic stem cells.

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Foxo factors, particularly Foxo3a, function to regulate the self-renewal of HSCs and contribute to the maintenance of the HSC pool during aging by providing resistance to oxidative stress. Fancd2-deficient mice had multiple hematopoietic defects, including HSC loss in early development and in response to cellular stresses including oxidative stress. The cellular mechanisms underlying HSC loss in Fancd2-deficient mice include abnormal cell cycle status, loss of quiescence, and compromised hematopoietic repopulating capacity of HSCs. To address on a genome wide level the genes and pathways that are impacted by deletion of the Fancd2 and Foxo3a, we performed microarray analysis on phenotypic HSCs (Lin-ckit+Sca-1+CD150+CD48-) from Fancd2 single knockout, Foxo3a single knockout and Fancd2-/-Foxo3a-/- double-knockout (dKO) mice. Here we provide detailed methods and analysis on these microarray data which has been deposited in Gene Expression Omnibus (GEO): GSE64215.", "claims": [{"id": "claim-data-access", "statement": "The deposited data can be found at: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE64215.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:25984447", "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=GSE64215."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The paper reports that “Foxo3a and Fancd2 target genes are enriched in pathways involved in DNA repair, DNA binding and cell cycle checkpoints”; no statistical method is specified in the provided text, and the source data are deposited in GEO under accession GSE64215.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:25984447", "locator": "sections[8] \"Discussion\" paragraph 2", "quote": "Accordingly, our results reveal that Foxo3a and Fancd2 target genes are enriched in pathways involved in DNA repair, DNA binding and cell cycle checkpoints."}, {"asset": "source:pmid:25984447", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Here we provide detailed methods and analysis on these microarray data which has been deposited in Gene Expression Omnibus (GEO): GSE64215."}, {"asset": "source:pmid:25984447", "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=GSE64215."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The paper reports that “Foxo3a and Fancd2 target genes are enriched in pathways involved in DNA repair, DNA binding and cell cycle checkpoints”; no statistical method is specified in the provided text, and the source data are deposited in GEO under accession GSE64215.", "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:25984447"], "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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