Whole transcriptome microarrays identify long non-coding RNAs associated with cardiac hypertrophy.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:26484228", "kind": "science-record", "revision": 6, "content_hash": "sha256:861dc73db3b21059ed02333895d0db0a45e53b582e608576c2b0f108b417944b", "created_at": "2026-11-01T15:40:12Z", "updated_at": "2026-11-01T21:20:12Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Whole transcriptome microarrays identify long non-coding RNAs associated with cardiac hypertrophy.", "doi": "10.1016/j.gdata.2015.05.014", "pmid": "26484228", "authors": ["Lu Zhang", "Eman A Hamad", "Mélanie Vausort", "Hajime Funakoshi", "Nathalie Nicot", "Petr V Nazarov", "Laurent Vallar", "Arthur M Feldman", "Daniel R Wagner", "Yvan Devaux"], "journal": "Genomics data", "year": 2015, "abstract": "Long non-coding RNAs (lncRNAs) have recently emerged as a novel group of non-coding RNAs able to regulate gene expression. While their role in cardiac disease is only starting to be understood, their involvement in cardiac hypertrophy is poorly known. We studied the association between lncRNAs and left ventricular hypertrophy using whole transcriptome microarrays. Wild-type mice and mice overexpressing the adenosine A2A receptor were subjected to transverse aortic constriction (TAC) to induce left ventricular hypertrophy. Expression profiles of lncRNAs in the heart were characterized using genome-wide microarrays. An analytical pipeline was specifically developed to extract lncRNA data from microarrays. We identified 2 lncRNAs up-regulated and 3 lncRNAs down-regulated in the hearts of A2A-receptor overexpressing-mice subjected to TAC compared to wild-type mice. Differential expression of these 2 lncRNAs was validated by quantitative PCR. Complete microarray dataset is available at Gene Expression Omnibus (GEO) database (http://www.ncbi.nlm.nih.gov/geo/) under the accession number GSE45423. Here, we describe in details the experimental design, microarray performance and analysis.", "claims": [{"id": "claim-method", "statement": "Normalized data were analyzed using the t-test procedure within Significance Analysis of Microarrays software (version 3.09) [3] to identify differentially expressed transcripts.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26484228", "locator": "sections[6] \"Differential expression\" paragraph 2", "quote": "Normalized data were analyzed using the t-test procedure within Significance Analysis of Microarrays software (version 3.09) [3] to identify differentially expressed transcripts."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Complete microarray dataset is available at Gene Expression Omnibus (GEO) database (http://www.ncbi.nlm.nih.gov/geo/) under the accession number GSE45423.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26484228", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Complete microarray dataset is available at Gene Expression Omnibus (GEO) database (http://www.ncbi.nlm.nih.gov/geo/) under the accession number GSE45423."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Using a t-test within Significance Analysis of Microarrays (q-value < 5%), the study identified 2 lncRNAs up-regulated and 3 down-regulated in TAC-treated A2A-receptor-overexpressing mice, with the complete dataset available through GEO under accession GSE45423.", "kind": "quantitative", "target": {"value": 5.0, "unit": "per cent", "tolerance": null, "source": "Normalized data were analyzed using the t-test procedure within Significance Analysis of Microarrays software (version 3.09) [3] to identify differentially expressed transcripts. Transcripts with q-value < 5% were considered as statistically significant."}, "evidence": [{"asset": "source:pmid:26484228", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "We identified 2 lncRNAs up-regulated and 3 lncRNAs down-regulated in the hearts of A2A-receptor overexpressing-mice subjected to TAC compared to wild-type mice."}, {"asset": "source:pmid:26484228", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Complete microarray dataset is available at Gene Expression Omnibus (GEO) database (http://www.ncbi.nlm.nih.gov/geo/) under the accession number GSE45423."}, {"asset": "source:pmid:26484228", "locator": "sections[6] \"Differential expression\" paragraph 2", "quote": "Normalized data were analyzed using the t-test procedure within Significance Analysis of Microarrays software (version 3.09) [3] to identify differentially expressed transcripts. Transcripts with q-value < 5% were considered as statistically significant."}, {"asset": "source:pmid:26484228", "locator": "sections[2] \"Direct link to deposited data\" paragraph 2", "quote": "http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?&acc=GSE45423."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Using a t-test within Significance Analysis of Microarrays (q-value < 5%), the study identified 2 lncRNAs up-regulated and 3 down-regulated in TAC-treated A2A-receptor-overexpressing mice, with the complete dataset available through GEO under accession GSE45423.", "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:26484228"], "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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