{"database":"MassIVE","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://massive-ftp.ucsd.edu/v03/MSV000087476/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":{"citationCount":1,"reanalysisCount":0,"viewCount":0,"searchCount":0},"additional":{"omics_type":["Proteomics"],"submitter":["Ying Ge"],"instrument_platform":["timsTOF Pro"],"species":["Homo Sapiens (ncbitaxon:9606)"],"full_dataset_link":["https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=e1f76ae545cb46ffa8883506f652b678"],"submitter_email":["ge2@wisc.edu"],"submitter_affiliation":["University of Wisconsin-Madison"],"sample_protocol":[""],"repository":["MassIVE"],"file_size":["2,531"],"ptm_modification":["MS:1002864 - No post-translational-modifications are included in the identified peptides of this dataset"],"data_protocol":[""],"pubmed_abstract":["Global bottom-up mass spectrometry (MS)-based proteomics is widely used for protein identification and quantification to achieve a comprehensive understanding of the composition, structure, and function of the proteome. However, traditional sample preparation methods are time-consuming, typically including overnight tryptic digestion, extensive sample cleanup to remove MS-incompatible surfactants, and offline sample fractionation to reduce proteome complexity prior to online liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis. Thus, there is a need for a fast, robust, and reproducible method for protein identification and quantification from complex proteomes. Herein, we developed an ultrafast bottom-up proteomics method enabled by Azo, a photocleavable, MS-compatible surfactant that effectively solubilizes proteins and promotes rapid tryptic digestion, combined with the Bruker timsTOF Pro, which enables deeper proteome coverage through trapped ion mobility spectrometry (TIMS) and parallel accumulation-serial fragmentation (PASEF) of peptides. We applied this method to analyze the complex human cardiac proteome and identified nearly 4000 protein groups from as little as 1 mg of human heart tissue in a single one-dimensional LC-TIMS-MS/MS run with high reproducibility. Overall, we anticipate this ultrafast, robust, and reproducible bottom-up method empowered by both Azo and the timsTOF Pro will be generally applicable and greatly accelerate the throughput of large-scale quantitative proteomic studies. Raw data are available via the MassIVE repository with identifier MSV000087476."],"pubmed_title":["Ultrafast and Reproducible Proteomics from Small Amounts of Heart Tissue Enabled by Azo and timsTOF Pro."],"pubmed_authors":["Aballo Timothy J TJ, Roberts David S DS, Melby Jake A JA, Buck Kevin M KM, Brown Kyle A KA, Ge Ying Y"],"pubmed_abstract_synonyms":["liquid chromatography tandem mass spectroscopy, Raw., big, Ghrfr, CG1849, scale tissue, Bru, human being, Herz, Procedures, conformation, determination, Peptidomics, Effects, leg, peltate hair, STK10, surfactants, Mbp1, Gene, adult heart, branchial heart, protein, Spectrum Analyses, protein-containing complex, Long Term, froggy, LC-MS-MS, Gyltl1a, Human, Agent, l(1)AA33, Surface-Active Agent, Polypeptides, circulatory vessel, protein polypeptide chains, Readability, Techniques, method, large, Differential Mobility Analysis, peptido, polypeptide chain, Homo sapiens, Method, method used in an experiment, LC-MSMS, Mass, Gene Products, Studies, 1, 2, Del(8)44H, Analysis, protein aggregate, myd, Effect, Technique, Man, Mass Spectroscopy, Mass Spectrum Analysis, Svc, LCMSMS, Man (Taxonomy), peptides, Analyses, Longterm, heart or heart like organ, MS2, MDDGB6, Runt, plant peltate hair, Surface, Surface Active Agents, Tissue, Mbp-1, Surface-Active, proteins, LARGE, procedures, Long-Term, cardiac structure, Fast, Study, BPFD#36, Amphiphilic, cardiac pump, Methodological Studies, l(1)B2/13.1, ATP:Fas-activated serine/threonine protein phosphotransferase activity, RUN, Run, sample, great, peptidos, Long-Term Effect, relational structural quality, Long-Term Effects, FAST, LB5, LC-MS2, dorsal tube, vertebrate heart, l(1)LB9, gyltl1b-b, protein complex, Surfactant, Active Agent, Modern, Proteins, LC-MS/MS, DmelCG1849, Longterm Effect, total expressed protein, FASTK, lit, function, Hearts, Procedure, Rnt, Surface Active, Spectrum Analysis, Peptide, AA33, Spectroscopy, lLB5, LC/MS/MS, chambered heart, MS, native protein, natural protein, Surfactants, MDDGA6, mKIAA0609, Protein, Long Term Effects, chemical analysis, IMS, heart, Ion Mobility, simple tissue, cardium, techniques, scales, KIAA0609, Mass Spectrum Analyses, Differential Mobility, tandem MS, little, fg, Mass Spectrum, gyltl1b, Col4a-1, scale, MS/MS, Active Agents, mdc1d, Spectrometry, expanded, l(1)19Ea, Methodological, Understanding, Methodological Study, sample population, human, Longterm Effects, Protein Gene Products, plan specification, P235, Gene Proteins, MDC1D, Agents, enr, enlarged, liquid chromatography-tandem mass spectroscopy, surface active agent, Tensides, Modern Man, Amphiphilic Agents, liquid chromatography tandem mass spectrometry, Peptid, assay, Polypeptide, Proteomes, Tenside, humans, methodology, Surface Active Agent"],"name_synonyms":["small, dorsal tube, vertebrate heart, circulatory vessel, cardiac pump, chambered heart, Herz, simple tissue., reduced, underdeveloped, Peptidomics, heart or heart like organ, heart, Tissue, hypoplasia, adult heart, branchial heart, cardium, tiny, Hearts, cardiac structure"],"pubmed_title_synonyms":["small, dorsal tube, vertebrate heart, circulatory vessel, cardiac pump, chambered heart, Herz, simple tissue., reduced, underdeveloped, Peptidomics, heart or heart like organ, heart, Tissue, hypoplasia, adult heart, branchial heart, cardium, tiny, Hearts, cardiac structure"],"description_synonyms":["small, dorsal tube, vertebrate heart, circulatory vessel, cardiac pump, chambered heart, Herz, simple tissue., reduced, underdeveloped, Peptidomics, heart or heart like organ, Manuscripts, heart, Tissue, hypoplasia, adult heart, branchial heart, cardium, tiny, Hearts, cardiac structure"],"citation_count":["1"],"additional_accession":[]},"is_claimable":false,"name":"Ultrafast and Reproducible Proteomics from Small amounts of Heart Tissue Enabled by Azo and timsTOF Pro","description":"Data for the manuscript \"Ultrafast and Reproducible Proteomics from Small amounts of Heart Tissue Enabled by Azo and timsTOF Pro\".","dates":{"publication":"Fri May 21 07:26:00 BST 2021"},"accession":"MSV000087476","cross_references":{"pubmed":["34236868"]}}