Transcriptomic data analysis and differential gene expression of antioxidant pathways in king penguin juveniles (Aptenodytes patagonicus) before and after acclimatization to marine life.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:27752524", "kind": "science-record", "revision": 8, "content_hash": "sha256:40bca088b2cc430dce8a5455e1cacfaf3f7313af0ae49d5d4b9757101ca84678", "created_at": "2026-11-01T15:40:21Z", "updated_at": "2026-11-01T22:42:48Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Transcriptomic data analysis and differential gene expression of antioxidant pathways in king penguin juveniles (Aptenodytes patagonicus) before and after acclimatization to marine life.", "doi": "10.1016/j.dib.2016.09.021", "pmid": "27752524", "authors": ["Benjamin Rey", "Cyril Dégletagne", "Claude Duchamp"], "journal": "Data in brief", "year": 2016, "abstract": "In this article, we present differentially expressed gene profiles in the pectoralis muscle of wild juvenile king penguins that were either naturally acclimated to cold marine environment or experimentally immersed in cold water as compared with penguin juveniles that never experienced cold water immersion. Transcriptomic data were obtained by hybridizing penguins total cDNA on Affymetrix GeneChip Chicken Genome arrays and analyzed using maxRS algorithm, \"Transcriptome analysis in non-model species: a new method for the analysis of heterologous hybridization on microarrays\" (Dégletagne et al., 2010) [1]. We focused on genes involved in multiple antioxidant pathways. For better clarity, these differentially expressed genes were clustered into six functional groups according to their role in controlling redox homeostasis. The data are related to a comprehensive research study on the ontogeny of antioxidant functions in king penguins, \"Hormetic response triggers multifaceted anti-oxidant strategies in immature king penguins (Aptenodytes patagonicus)\" (Rey et al., 2016) [2]. The raw microarray dataset supporting the present analyses has been deposited at the Gene Expression Omnibus (GEO) repository under accessions GEO: GSE17725 and GEO: GSE82344.", "claims": [{"id": "claim-method", "statement": "Differentially expressed genes between NI vs. SA or NI vs. AA were determined using the empirical Bayes moderated t-statistics implemented in the Bioconductor package limma [5].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27752524", "locator": "sections[8] \"Microarray analysis\" paragraph 2", "quote": "Differentially expressed genes between NI vs. SA or NI vs. AA were determined using the empirical Bayes moderated t-statistics implemented in the Bioconductor package limma [5]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data is within this article and raw data is available in Gene Expression Omnibus repositories (GEO:GSE17725; http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE17725and GEO:GSE82344; http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?token=yxibwieatzavpqv&acc=GSE82344).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27752524", "locator": "sections[1] \"p\" paragraph 1", "quote": "Data is within this article and raw data is available in Gene Expression Omnibus repositories (GEO:GSE17725; http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE17725and GEO:GSE82344; http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?token=yxibwieatzavpqv&acc=GSE82344)."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study used the maxRS algorithm to analyze differentially expressed gene profiles in king penguin pectoralis muscle, with the raw microarray data deposited in GEO under accessions GSE17725 and GSE82344; no numerical result was stated in the Abstract.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:27752524", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "In this article, we present differentially expressed gene profiles in the pectoralis muscle of wild juvenile king penguins that were either naturally acclimated to cold marine environment or experimentally immersed in cold water as compared with penguin juveniles that never experienced cold water immersion."}, {"asset": "source:pmid:27752524", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Transcriptomic data were obtained by hybridizing penguins total cDNA on Affymetrix GeneChip Chicken Genome arrays and analyzed using maxRS algorithm, “Transcriptome analysis in non-model species: a new method for the analysis of heterologous hybridization on microarrays” (Dégletagne et al., 2010) [1]."}, {"asset": "source:pmid:27752524", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "The raw microarray dataset supporting the present analyses has been deposited at the Gene Expression Omnibus (GEO) repository under accessions GEO: GSE17725 and GEO: GSE82344."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The study used the maxRS algorithm to analyze differentially expressed gene profiles in king penguin pectoralis muscle, with the raw microarray data deposited in GEO under accessions GSE17725 and GSE82344; no numerical result was stated in the Abstract.", "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:27752524"], "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": "blocked", "blocked_on": "data:accession_absent", "description": "The GEO series accession resolves and its sample accessions are listed. 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