Data for the identification of proteins and post-translational modifications of proteins associated to histones H3 and H4 in S. cerevisiae, using tandem affinity purification coupled with mass spectrometry.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:26949727", "kind": "science-record", "revision": 3, "content_hash": "sha256:6f9cf140321c7ba276ebb96cdeddec3d6af428371f20e0ef37a2fbca7b037932", "created_at": "2026-11-01T15:40:16Z", "updated_at": "2026-11-01T18:48:00Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Data for the identification of proteins and post-translational modifications of proteins associated to histones H3 and H4 in S. cerevisiae, using tandem affinity purification coupled with mass spectrometry.", "doi": "10.1016/j.dib.2016.01.068", "pmid": "26949727", "authors": ["M Luz Valero", "Ramon Sendra", "Mercè Pamblanco"], "journal": "Data in brief", "year": 2016, "abstract": "Tandem affinity purification method (TAP) allows the efficient purification of native protein complexes which incorporate a target protein fused with the TAP tag. Purified multiprotein complexes can then be subjected to diverse types of proteomic analyses. Here we describe the data acquired after applying the TAP strategy on histones H3 and H4 coupled with mass spectrometry to identify associated proteins and protein post-translational modifications in the budding yeast, Saccharomyces cerevisiae. The mass spectrometry dataset described here consists of 14 files generated from four different analyses in a 5600 Triple TOF (Sciex) by information-dependent acquisition (IDA) LC-MS/MS. The above files contain information about protein identification, protein relative abundance, and PTMs identification. The instrumental raw data from these files has been also uploaded to the ProteomeXchange Consortium via the PRIDE partner repository, with the dataset identifier PRIDE: PXD002671 and http://dx.doi.org/10.6019/PXD002671. These data are discussed and interpreted in http://dx.doi.org/10.1016/j.jprot.2016.01.004. Valero et al. (2016) [1].", "claims": [{"id": "claim-data-access", "statement": "Data are within the article and also on ProteomeXchange Consortium, dataset identifier PRIDE: PXD002671; http://dx.doi.org/10.6019/PXD002671.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26949727", "locator": "sections[1] \"p\" paragraph 1", "quote": "Data are within the article and also on ProteomeXchange Consortium, dataset identifier PRIDE: PXD002671; http://dx.doi.org/10.6019/PXD002671."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study identified around 400 proteins associated with H3 and H4, estimated their relative abundance using Mascot emPAI with a significance threshold of p<0.05, and deposited the source data in ProteomeXchange via PRIDE under PXD002671.", "kind": "quantitative", "target": {"value": 0.05, "unit": "p-value", "tolerance": null, "source": "The significant threshold was set to p<0.05."}, "evidence": [{"asset": "source:pmid:26949727", "locator": "sections[3] \"p\" paragraph 1", "quote": "Among around 400 proteins associated to H3 and H4, most of them are involved in chromatin dynamics, and H3, H4, H2B and H2A histones, Rtt106p, Spt16p, Pob3p and Psh1p were the most abundant."}, {"asset": "source:pmid:26949727", "locator": "sections[8] \"Database search and protein identification\" paragraph 5", "quote": "Mascot v2.4 (Matrix Science) searches were run to obtain emPAI values, in order to quantify approximately the relative content of the co-purified proteins (Supplementary Tables S7–S10)."}, {"asset": "source:pmid:26949727", "locator": "sections[8] \"Database search and protein identification\" paragraph 5", "quote": "The significant threshold was set to p<0.05."}, {"asset": "source:pmid:26949727", "locator": "sections[8] \"Database search and protein identification\" paragraph 6", "quote": "The MS raw data (wiff files, peak lists, and protein identification results) have been deposited in the ProteomeXchange Consortium [7] via the PRIDE partner repository with the dataset identifier PRIDE: PXD002671; http://dx.doi.org/10.6019/PXD002671."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The study identified around 400 proteins associated with H3 and H4, estimated their relative abundance using Mascot emPAI with a significance threshold of p<0.05, and deposited the source data in ProteomeXchange via PRIDE under PXD002671.", "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:26949727"], "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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