Characterization of the gila monster (Heloderma suspectum suspectum) venom proteome.

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The gila monster venom was collected, analyzed by 2D-gel electrophoresis and after Coomassie-Brilliant Blue staining the major spots were excised, subjected to in-gel trypsin digestion, and analyzed by LC-MS/MS. Subsequently, the venom proteins were identified based on de novo sequencing and homology searching. The mass spectrometry proteomics data have been deposited to the ProteomeXchange (dataset identifier PXD0001343), and in the present article we present an overview of the identified proteins. Protein identification failed for three of the selected spots, with the method described above. Instead, an iterative process, based on de novo sequencing, was employed.", "claims": [{"id": "claim-data-access", "statement": "The data is accessible via this article, via the related research article[1], and at the ProteomeXchange consortium (http://proteomecentral.proteomexchange.org) via the PRIDE partner repository with the dataset identifier PXD0001343[2,3].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:26217734", "locator": "sections[2] \"table-wrap\" paragraph 1", "quote": "The data is accessible via this article, via the related research article[1], and at the ProteomeXchange consortium (http://proteomecentral.proteomexchange.org) via the PRIDE partner repository with the dataset identifier PXD0001343[2,3]."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study presents the first global protein characterization of lizard venom, identifies 19 novel helodermatid venom proteins using de novo sequencing and homology searching with a 0.1% peptide false-discovery-rate filter and a minimum of three peptides, and makes the source data available through ProteomeXchange via PRIDE under PXD0001343.", "kind": "quantitative", "target": {"value": 0.1, "unit": "per cent", "tolerance": null, "source": "After the PEAKS analyses the resulting list of proteins were filtered using a peptide false discovery rate of 0.1% and only proteins identified with a minimum of 3 peptides are reported."}, "evidence": [{"asset": "source:pmid:26217734", "locator": "sections[4] \"list\" paragraph 1", "quote": "The data present the first global protein characterization of lizard venom"}, {"asset": "source:pmid:26217734", "locator": "sections[4] \"list\" paragraph 1", "quote": "The data facilitates identification of 19 novel helodermatid venom proteins"}, {"asset": "source:pmid:26217734", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Subsequently, the venom proteins were identified based on de novo sequencing and homology searching."}, {"asset": "source:pmid:26217734", "locator": "sections[11] \"Protein identification\" paragraph 2", "quote": "After the PEAKS analyses the resulting list of proteins were filtered using a peptide false discovery rate of 0.1% and only proteins identified with a minimum of 3 peptides are reported."}, {"asset": "source:pmid:26217734", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "The mass spectrometry proteomics data have been deposited to the ProteomeXchange (dataset identifier PXD0001343), and in the present article we present an overview of the identified proteins."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The study presents the first global protein characterization of lizard venom, identifies 19 novel helodermatid venom proteins using de novo sequencing and homology searching with a 0.1% peptide false-discovery-rate filter and a minimum of three peptides, and makes the source data available through ProteomeXchange via PRIDE under PXD0001343.", "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:26217734"], "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_unresolved", "description": "The GEO series accession resolves and its sample accessions are listed. 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