Microarray transcriptome datasets of maternal-zygotic DNA methyltransferase 3aa -/- zebrafish during early developmental stages.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36820127", "kind": "science-record", "revision": 4, "content_hash": "sha256:3b0d350c8b6f94371473265a3382c3306c08e3c4d6cef5c5cde0e08e28e67287", "created_at": "2026-11-01T19:01:25Z", "updated_at": "2026-11-01T22:51:20Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Microarray transcriptome datasets of maternal-zygotic DNA methyltransferase 3aa -/- zebrafish during early developmental stages.", "doi": "10.1016/j.dib.2023.108967", "pmid": "36820127", "authors": ["Masaki Shirai", "Nobuyoshi Shimoda", "Haruko Takahashi", "Kazuya Takayama", "Yutaka Kikuchi"], "journal": "Data in brief", "year": 2023, "abstract": "DNA methylation is an epigenetic regulator mediated by DNA methyltransferases (Dnmts). The methylation is involved in control of gene expression in vertebrates. It has been reported that there are mainly two types of de novo Dnmts, Dnmt3a and Dnmt3b, in mammals. These two Dnmts function in DNA methylation in the distinct or overlapping genomic regions. The zebrafish homologs of mammalian Dnmt3a are Dnmt3aa and Dnmt3ab. We generated a maternal-zygotic dnmt3aa deficient mutant (MZdnmt3aa) to identify the specific target regions for DNA methylation in the zebrafish genome and their function in the developmental process. Microarray analysis revealed alterations in gene expression by knock-out of dnmt3aa in early zebrafish development. Microarray datasets were produced from samples at five different developmental stages: 1-2 cell, shield, 5-somite, 1-day post fertilization (dpf), and 2 dpf. Herein, we present novel raw and processed transcriptome datasets generated by analysis of the MZdnmt3aa -/- mutant. The raw microarray data are available through the Gene Expression Omnibus (GEO), accession number GSE202646. These transcriptome data may be useful for comparing differences in gene expression among species of Dnmt3a mutants and for analyzing human diseases caused by DNMT3A such as acute myelogenous leukemia (AML).", "claims": [{"id": "claim-method", "statement": "Differential expression analysis was performed using limma package of R [9].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36820127", "locator": "sections[9] \"Microarray Data Analysis\" paragraph 3", "quote": "Differential expression analysis was performed using limma package of R [9]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Expression analysis of WT, dnmt3bb.2-/- and dnmt3aa-/- (Original data) (Gene Expression Omnibus (GEO)).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36820127", "locator": "sections[16] \"Data Availability\" paragraph 2", "quote": "Expression analysis of WT, dnmt3bb.2-/- and dnmt3aa-/- (Original data) (Gene Expression Omnibus (GEO))."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "", "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:36820127"], "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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