Microarray data and gene expression statistics for Saccharomyces cerevisiae exposed to simulated asbestos mine drainage.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:28560281", "kind": "science-record", "revision": 8, "content_hash": "sha256:1ef6ec1e7ce8f1a7d5f2283856aeb655cb3e41e8c561eb5ee38902e55ebf06ee", "created_at": "2026-11-01T15:40:26Z", "updated_at": "2026-11-01T22:43:00Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Microarray data and gene expression statistics for Saccharomyces cerevisiae exposed to simulated asbestos mine drainage.", "doi": "10.1016/j.dib.2017.05.021", "pmid": "28560281", "authors": ["Heather E Driscoll", "Janet M Murray", "Erika L English", "Timothy C Hunter", "Kara Pivarski", "Elizabeth D Dolci"], "journal": "Data in brief", "year": 2017, "abstract": "Here we describe microarray expression data (raw and normalized), experimental metadata, and gene-level data with expression statistics from Saccharomyces cerevisiae exposed to simulated asbestos mine drainage from the Vermont Asbestos Group (VAG) Mine on Belvidere Mountain in northern Vermont, USA. For nearly 100 years (between the late 1890s and 1993), chrysotile asbestos fibers were extracted from serpentinized ultramafic rock at the VAG Mine for use in construction and manufacturing industries. Studies have shown that water courses and streambeds nearby have become contaminated with asbestos mine tailings runoff, including elevated levels of magnesium, nickel, chromium, and arsenic, elevated pH, and chrysotile asbestos-laden mine tailings, due to leaching and gradual erosion of massive piles of mine waste covering approximately 9 km2. We exposed yeast to simulated VAG Mine tailings leachate to help gain insight on how eukaryotic cells exposed to VAG Mine drainage may respond in the mine environment. Affymetrix GeneChip® Yeast Genome 2.0 Arrays were utilized to assess gene expression after 24-h exposure to simulated VAG Mine tailings runoff. The chemistry of mine-tailings leachate, mine-tailings leachate plus yeast extract peptone dextrose media, and control yeast extract peptone dextrose media is also reported. To our knowledge this is the first dataset to assess global gene expression patterns in a eukaryotic model system simulating asbestos mine tailings runoff exposure. Raw and normalized gene expression data are accessible through the National Center for Biotechnology Information Gene Expression Omnibus (NCBI GEO) Database Series GSE89875 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE89875).", "claims": [{"id": "claim-method", "statement": "One-way analysis of variance (ANOVA) was used to compare the individual gene expression data with respect to mine-tailings exposure, i.e. simulated asbestos mine drainage versus control.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:28560281", "locator": "sections[11] \"Gene expression statistical methods\" paragraph 3", "quote": "One-way analysis of variance (ANOVA) was used to compare the individual gene expression data with respect to mine-tailings exposure, i.e. simulated asbestos mine drainage versus control."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Microarray data and some sample metadata are available at NCBI GEO SeriesGSE89875: rhttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE89875.Water and media chemistry data tables as well as gene statistical data tables are available in this article.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:28560281", "locator": "sections[1] \"p\" paragraph 1", "quote": "Microarray data and some sample metadata are available at NCBI GEO SeriesGSE89875: rhttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE89875.Water and media chemistry data tables as well as gene statistical data tables are available in this article."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The paper used one-way ANOVA on RMA-normalized gene-level data to identify differentially expressed genes between simulated asbestos mine drainage and control treatments, with multiple-comparison correction by a false discovery rate (FDR) of 0.05. The raw and normalized microarray data are available through NCBI GEO Series GSE89875.", "kind": "quantitative", "target": {"value": 0.05, "unit": "p-value", "tolerance": null, "source": "Gene-level ANOVA with S. cerevisiae-only probesets found 735 genes that are differentially expressed between treatment and control groups (unadjusted p-value <0.05; fold change >|1.5|) (Supplementary Tables 2–3)."}, "evidence": [{"asset": "source:pmid:28560281", "locator": "sections[5] \"Microarray data\" paragraph 2", "quote": "Gene-level ANOVA with S. cerevisiae-only probesets found 735 genes that are differentially expressed between treatment and control groups (unadjusted p-value <0.05; fold change >|1.5|) (Supplementary Tables 2–3)."}, {"asset": "source:pmid:28560281", "locator": "sections[11] \"Gene expression statistical methods\" paragraph 3", "quote": "One-way analysis of variance (ANOVA) was used to compare the individual gene expression data with respect to mine-tailings exposure, i.e. simulated asbestos mine drainage versus control."}, {"asset": "source:pmid:28560281", "locator": "sections[11] \"Gene expression statistical methods\" paragraph 3", "quote": "Multiple comparison correction was performed using a FDR of 0.05 [8]."}, {"asset": "source:pmid:28560281", "locator": "sections[5] \"Microarray data\" paragraph 2", "quote": "Raw and normalized microarray data for all Affymetrix GeneChip® Yeast Genome 2.0 Array probesets are available through NCBI GEO Series GSE89875: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE89875."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The paper used one-way ANOVA on RMA-normalized gene-level data to identify differentially expressed genes between simulated asbestos mine drainage and control treatments, with multiple-comparison correction by a false discovery rate (FDR) of 0.05. 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