MassIVEapplication/xmlftp://massive-ftp.ucsd.edu/v03/MSV000085838/primary200OKProteomicsJoshua J. CoonOrbitrap Eclipse (Thermo Scientific instrument model)Q Exactive HFSaccharomyces Cerevisiae (ncbitaxon:4932)Homo Sapiens (ncbitaxon:9606)https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=5bf9e5d19e314d61b0c1d0185b97d166University of Wisconsin-Madisonjcoon@chem.wisc.eduMassIVE333MOD:01214 - "modification from UniMod Chemical derivative - OBSOLETE because redundant, the difference component of MOD:01060. Remap to MOD:01060."MOD:00408 - "A protein modification that effectively replaces a residue amino or imino hydrogen with an acetyl group."MOD:00719 - "A protein modification that oxygenates an L-methionine residue to one of the diastereomeric L-methionine sulfoxide residues."Mass spectrometry (MS) serves as the centerpiece technology for proteome, lipidome, and metabolome analysis. To gain a better understanding of the multifaceted networks of myriad regulatory layers in complex organisms, integration of different multiomic layers is increasingly performed, including joint extraction methods of diverse biomolecular classes and comprehensive data analyses of different omics. Despite the versatility of MS systems, fractured methodology drives nearly all MS laboratories to specialize in analysis of a single ome at the exclusion of the others. Although liquid chromatography-mass spectrometry (LC-MS) analysis is similar for different biomolecular classes, the integration on the instrument level is lagging behind. The recent advancements in high flow proteomics enable us to take a first step towards integration of protein and lipid analysis. Here, we describe a technology to achieve broad and deep coverage of multiple molecular classes simultaneously through multi-omic single-shot technology (MOST), requiring only one column, one LC-MS instrument, and a simplified workflow. MOST achieved great robustness and reproducibility. Its application to a <i>Saccharomyces cerevisiae</i> study consisting of 20 conditions revealed 2842 protein groups and 325 lipids and potential molecular relationships.Multi-Omic Single-Shot Technology for Integrated Proteome and Lipidome Analysis.He Yuchen Y, Rashan Edrees H EH, Linke Vanessa V, Shishkova Evgenia E, Hebert Alexander S AS, Jochem Adam A, Westphall Michael S MS, Pagliarini David J DJ, Overmyer Katherine A KA, Coon Joshua J JJPanomics, l(2)k04204, joints, determination, Laboratory, Lipidomic, Liquid Chromatography Mass Spectrometry, instrument configuration, High Performance Liquid Chromatography Mass Spectrometry, Profiles, Ultra Performance Liquid Chromatography-Mass Spectrometry, protein, 6330543G17Rik, DmelCG42280, BEST:LD21715, High Performance Liquid Chromatography-Mass Spectrometry, Otitis Media with Effusion, Readability, Techniques, protein polypeptide chains, OME, HPLC-MS, Liquid Chromatography-Mass, Method, Joint, GRP1, Grp1, Analysis, protein aggregate, Work Flow, Otitis media with effusion - mucoid, INSL3R, Metabolic Profiles, Mass Spectrum Analysis, Ultra Performance Liquid Chromatography Mass Spectrometry, Analyses, PTPSTEP, Su(Mir)1, HardwareType, Saccharomyes cerevisiae, Mucoid otitis media, proteins, Baker, procedures, Saccharomyces uvarum var. melibiosus, GREAT, Methodological Studies, column, Saccharomyces capensis, Liquid Chromatography-Mass Spectrometries, l(2)k08110, Great, Baker's, l(2)CA4, Mycoderma cerevisiae, brewer's yeast, Prx3, GPH, joint, CG17705, Lipid., Arts, Procedure, Spectrum Analysis, shortstop/kakapo, Spectroscopy, Baker's Yeasts, Workflows, Saccharomyces diastaticus, Otitis media with effusion, DmelCG18076, serous otitis Media, Lipid, 3.1.3.48, LD21715, LGR8, Multi Omics, Yeast, Industrial, Lgr8, Secretory Otitis Media, Industrial Arts, Drives, instrument, Grv, Step, CG11628, High Pressure Liquid Chromatography Mass Spectrometry, Glue ear, Spectrometry, Integrative, Striatum-enriched protein-tyrosine phosphatase, Methodological, Dmel_CG32143, Methodological Study, SHOT, Saccharomyces cerevisiae (Desm.) Meyen ex E.C. Hansen, Lipidome, Dmel_CG32145, STEP, grv, Liquid, Proteomes, 42/4, Brewer's Yeast, Work Flows, lipids, OG12X, GRP1/cytohesin 1, Procedures, Peptidomics, Brewer's, Gene, baker's yeast, Spectrum Analyses, protein-containing complex, Saccharomyces italicus, hardware, CG11633, Multi-Omics, l(2)k05821, cytohesin/GRP1, polypeptide chain, l(2)k15606, yeast, Mass, Studies, Gene Products, Metabolic Profile, Technique, Mass Spectroscopy, Shot, lager beer yeast, UPLC-MS, study, Ultra-Performance Liquid Chromatography-Mass Spectrometry, l(2)k10821, Gpr106, Metabolomes, Profile, l(2)SH2 0323, Spectrometries, RXFPR2, Omics, S. cerevisiae, Study, S cerevisiae, Neural-specific protein-tyrosine phosphatase, Candida robusta, Transudative otitis media, articular joint, Pan-Omics, 1883, Chromatography-Mass Spectrometries, Otitis media, GPR106, CG32145, CG9370, CG32143, Integrative-Omics, Saccharomyces cerevisiae 'var. diastaticus', protein complex, kop, Proteins, Lipidomes, secretory otitis Media, CG18076, total expressed protein, stepk, High Pressure Liquid Chromatography-Mass Spectrometry, CG18637, Integrative Omics, Saccaromyces cerevisiae, Mucoid otitis media NOS (disorder), Sccharomyces cerevisiae, MS, otitis media with effusion, native protein, natural protein, chemical analysis, Protein, Multi-Omic, Pan Omics, techniques, l(2)SH0323, Mass Spectrum Analyses, CYH1, Saccharomyces oviformis, Mass Spectrum, l(2)k05434, articulation, Metabolic, transudative, l(2)k03010, kak, CG42280, Understanding, LGR8.1, OG12, DmelCG11628, Protein Gene Products, Gene Proteins, Data, Chromatography-Mass Spectrometry, LC-MS, assay, Og12x, Baker's Yeast, Data Analyses, Baker Yeast, methodologyRetrieval, Products, Bru, Raw, Product, Biologic Pharmaceuticals, Biologic Products, Biologic Medicines, Data File, Information Extraction, Extraction, Machine-Readable Data Files, Data Storage, Machine Readable Data Files, Biological, Biopharmaceuticals, Biopharmaceutical, Biologic Product, Storage, Del(8)44H, Data Linkage, Biological Product, Machine-Readable, Biologicals, Drugs, Svc, Data Retrieval, Machine-Readable Data File, Col4a-1, Biologic Drugs, Information, Biological Medicines, Natural, Biological Drug, Information Storage, Natural Product, Biologics, Information Extractions, Biological Drugs, Data Files, Files, Data Storage and Retrieval, Drug, Biological., Biological Medicine, Data, Medicine, Natural Products, Machine-Readable Data, Medicines, Biologic Drug, Information Retrieval, Biologic, PharmaceuticalsPanomics, l(2)k04204, Multi Omics, l(2)k05434, OG12X, Industrial, Integrative-Omics, l(2)k10821, Industrial Arts, Grv, determination, kop, l(2)k03010, Lipidomic, Arts, Integrative, Su(Mir)1, CG18076, Lipidomes, total expressed protein, chemical analysis., kak, Omics, 6330543G17Rik, CG18637, Integrative Omics, SHOT, OG12, shortstop/kakapo, Multi-Omics, l(2)k05821, Lipidome, l(2)k15606, grv, DmelCG18076, Multi-Omic, Pan Omics, Pan-Omics, l(2)CA4, assay, Og12x, Prx3, 42/4, Proteomes, ShotPanomics, l(2)k04204, Multi Omics, l(2)k05434, OG12X, Industrial, Integrative-Omics, l(2)k10821, Industrial Arts, Grv, determination, kop, l(2)k03010, Lipidomic, Arts, Integrative, Su(Mir)1, CG18076, Lipidomes, total expressed protein, chemical analysis., kak, Omics, 6330543G17Rik, CG18637, Integrative Omics, SHOT, OG12, shortstop/kakapo, Multi-Omics, l(2)k05821, Lipidome, l(2)k15606, grv, DmelCG18076, Multi-Omic, Pan Omics, Pan-Omics, l(2)CA4, assay, Og12x, Prx3, 42/4, Proteomes, ShotfalseMulti-omic Single-Shot Technology for Integrated Proteome and Lipidome AnalysisThis is the MOST raw data files including 20 biological conditions in triplicate.Mon Jul 27 21:02:00 BST 2020MSV00008583833617230