Data on mass spectrometry based identification of allergens from sunflower (Helianthus annuus L.) pollen proteome.

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Now-a-days mass spectrometry is the method of choice for allergen identification based on homology searching. Here, we provide the mass spectrometry dataset associated with our previously published research article on identification of sunflower pollen allergens (Ghosh et al., 2015 [1]). In this study allergenicity of sunflower (Helianthus annuus) pollen grains were primarily investigated by clinical studies followed by detailed immunobiochemical and immunoproteomic analyses. The mass spectrometry data for the identification of allergens were deposited to ProteomeXchange Consortium via PRIDE partner repository with the dataset identifier PXD002397.", "claims": [{"id": "claim-data-access", "statement": "Data available within this article and accessible at ProteomeXchange Consortium via PRIDE partner repository with the dataset identifier PRIDE: PXD002397.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27054187", "locator": "sections[1] \"p\" paragraph 1", "quote": "Data available within this article and accessible at ProteomeXchange Consortium via PRIDE partner repository with the dataset identifier PRIDE: PXD002397."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Seven allergenic proteins from sunflower pollen were identified using MALDI-TOF/TOF and LC-ESI qTOF with significance set at P<0.05, and the associated mass-spectrometry data are available through PRIDE under accession PXD002397.", "kind": "quantitative", "target": {"value": 0.05, "unit": "p-value", "tolerance": null, "source": "P<0.05 as significance threshold"}, "evidence": [{"asset": "source:pmid:27054187", "locator": "sections[2] \"Value of the data\" paragraph 2", "quote": "Seven allergenic proteins were identified from sunflower pollen using a combination of two ionization methods and two different databases."}, {"asset": "source:pmid:27054187", "locator": "sections[11] \"Database search and allergen identification\" paragraph 2", "quote": "P<0.05 as significance threshold"}, {"asset": "source:pmid:27054187", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "The mass spectrometry data for the identification of allergens were deposited to ProteomeXchange Consortium via PRIDE partner repository with the dataset identifier PXD002397."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "Seven allergenic proteins from sunflower pollen were identified using MALDI-TOF/TOF and LC-ESI qTOF with significance set at P<0.05, and the associated mass-spectrometry data are available through PRIDE under accession PXD002397.", "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:27054187"], "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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Allergenic proteins were excised from 2D gel, and in-gel digested spots were identified using a combination of two different mass spectrometric techniques (MALDI TOF/TOF and LC-ESI qTOF) and searching the MS/MS data against NCBInr database and EST library of H. annuus."], ["Experimental features", "Trypsin digested IgE reactive proteins were subjected to MALDI-TOF/TOF. The raw MS/MS spectra were initially searched against NCBInr database. Unmatched peptides with low significance score were further subjected to similarity searches against the H. annuus EST database Unmatched proteins, after MALDI-TOF/TOF, were subjected to LC-ESI qTOF for better peak resolution, maximum signal, and maximum coverage. They were loaded on nano-LC-ESI MS/MS. Similarly, MS/MS spectra were searched against NCBInr and EST library of H. annuus. 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