{"database":"GPMDB","file_versions":[],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":16,"searchCount":5},"additional":{"omics_type":["Other"],"submitter":["Wisniewski JR, et al."],"instrument_platform":["Instrument"],"disease":["Not Available"],"brenda_tissue":["Not available"],"species":["Mus_musculus_viruses, Mouse"],"publication":["25475432"],"submitter_mail":["jwisniew@biochem.mpg.de"],"submitter_affiliation":["Biochemical Proteomics Group, Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry"],"model":["http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005404","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005405","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005402","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005403","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005408","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005409","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005406","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005407","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005385","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005386","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005383","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005384","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005389","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005401","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005387","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005388","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005392","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005393","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005390","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005391","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005396","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005397","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005394","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005395","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005411","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005398","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005410","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005399","http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005382"],"cell_type":["Not available"],"repository":["GPMDB"],"pubmed_abstract":["Total protein approach (TPA) is a proteomic method that allows calculation of concentrations of individual proteins and groups of functionally related proteins in any protein mixture without spike-in standards. Using the two-step digestion-filter-aided sample preparation method and LC-MS/MS analysis, we generated comprehensive quantitative datasets of mouse intestinal mucosa, liver, red muscle fibers, brain, and of human plasma, erythrocytes, and tumor cells lines. We show that the TPA-based quantitative data reflect well-defined and specific physiological functions of different organs and cells, for example nutrient absorption and transport in intestine, amino acid catabolism and bile secretion in liver, and contraction of muscle fibers. Focusing on key metabolic processes, we compared metabolic capacities in different tissues and cells. In addition, we demonstrate quantitative differences in the mitochondrial proteomes. Providing insight into the abundances of mitochondrial metabolite transporters, we demonstrate that their titers are well tuned to cell-specific metabolic requirements. This study provides for the first time a comprehensive overview of the protein hardware mediating metabolism in different mammalian organs and cells. The presented approach can be applied to any other system to study biological processes. All MS data have been deposited in the ProteomeXchange with identifier PXD001352 (http://proteomecentral.proteomexchange.org/dataset/PXD001352)."],"pubmed_title":["Absolute protein quantification allows differentiation of cell-specific metabolic routes and functions."],"pubmed_authors":["Wiśniewski Jacek R JR,Koepsell Hermann H,Gizak Agnieszka A,Rakus Dariusz D,","Wiśniewski Jacek R JR, Koepsell Hermann H, Gizak Agnieszka A, Rakus Dariusz D, Rakus Dariusz D"],"name_synonyms":["polypeptide, Cell., proteins, cell"],"description_synonyms":["liquid chromatography tandem mass spectroscopy, multicellular organismal catabolic process, single-organism catabolic process, Bowel, Entire brain, muscle system, determination, Laboratory, slow muscle, Blood, Mus domesticus, Aminosaeure, bowel mucosa of organ, CASP-14, Intestinal Gland, organ mucosa of intestine, Homo sapiense, Tumor, House Mouse, solute:solute exchange, Homo sapien, Method, T-PA, Homo sapians, synganglion, TEP1, Nutrient, AU020998, Fresh Frozen Plasmas, Fresh Frozen, Muscle Tissues, Homo sapients, LCMSMS, amino acids, mucosa of bowel, catabolism, PTPSTEP, Tissue, iecur, Swiss Mice, Intestine, proteins, suprasegmental levels of nervous system, intestinal tract, intestine mucosa, Methodological Studies, bowel, Homo sapience, Sludge, Concentrations, Red, \"mice C57BL/6xCBA/CaJ hybrid\" RELATED misspelling [], house mouse, adult alimentary canal, Home sapiens, Biliary Sludge, plasma, Tumors, LC-MS2, suprasegmental structures, Frozen Plasma, mucosa of organ of intestine, set of muscles, Aminokarbonsaeure, external secretion, mouse, LC-MS/MS, set of skeletal muscles, Red Blood Cell, Procedure, Plasmas, brain structure, tumours, mice C57BL/6xCBA/CaJ hybrid, mucosa of organ of bowel, exocrine gland fluid/secretion, Tissue-type plasminogen activator chain A, count, tunica mucosa intestini, Tissue-type plasminogen activator chain B, Gland, PTEN1, single-organism transport, Homo sapian, Epithelium, Mini-ICE, 3.1.3.48, Corpuscles, Red Blood Corpuscle, secretion, Mus musculus, D8Ertd2e, Blood Cell, portion of blood plasma, bowel mucosa, breakdown, Caspase-14 subunit p10, organ mucosa of bowel, Step, mice, MMAC1, Encephalon, motor system, Swiss Mouse, Caspase-14 subunit p19, Striatum-enriched protein-tyrosine phosphatase, Methodological, intestine mucosa of organ, Nutrients, MICE, Methodological Study, Homo sapines, human, muscle element, domesticus, Red Blood Corpuscles, Corpuscle, blood plasm, Intestinal Glands, slow-twitch skeletal muscle, STEP, Red Blood Cells, liquid chromatography-tandem mass spectroscopy, Erythrocyte, small molecule transport, Mouse, Blood Corpuscles, red muscle, Entire intestine, BZS, exocrine gland secretion, AW212668, the brain, Brain, Fresh, 3.4.22.-, criteria, human being, Procedures, Fresh Frozen Plasma, exocrine gland fluid, GLM2, exocrine gland fluid or secretion, Neoplasms, musculature system, number, Aminocarbonsaeure, Alteplase, muscles, Gene, mini-ICE, guidelines, 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Metabolic Process, Bowel, Entire brain, muscle system, determination, Laboratory, slow muscle, Blood, Mus domesticus, Aminosaeure, Metabolic Concepts, bowel mucosa of organ, CASP-14, Intestinal Gland, organ mucosa of intestine, Homo sapiense, Tumor, House Mouse, Long Term, solute:solute exchange, Homo sapien, Method, T-PA, Homo sapians, Concepts, synganglion, Metabolism Concept, Gpi-1, Nutrient, Phenomenon, Effect, AU020998, Fresh Frozen Plasmas, Fresh Frozen, Muscle Tissues, Homo sapients, LCMSMS, amino acids, mucosa of bowel, catabolism, Nlk, PTPSTEP, Tissue, iecur, HardwareType, Swiss Mice, Intestine, proteins, metabolic process resulting in cell growth, suprasegmental levels of nervous system, intestinal tract, intestine mucosa, Methodological Studies, bowel, Homo sapience, Sludge, papilla, Concentrations, Red, biotransformation, \"mice C57BL/6xCBA/CaJ hybrid\" RELATED misspelling [], house mouse, adult alimentary canal, Home sapiens, Biliary Sludge, Catabolism, Long-Term Effects, 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Anabolism"],"view_count":["16"],"citation_count":["0"],"search_count":["5"],"full_dataset_link":["http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32310005401"],"search_domains":["dbgap_ncbi~0","patentfamilies~0","rfam~0","merops~0","complex-portal~0","uniprot~0","wormbaseparasite~0","embl-covid19~0","reactome~0","emdb~0","wgs_masters~0","ebiweb_resources~0","opentargets_genetics~0","biomodels_all~0","ipd-mhc~0","ebiweb_teams~0","taxonomy~0","genome_assembly~0","sc-experiments~0","ebiweb_people~0","enzymeportal_enzymes~0","ipd-nhkir~0","cellosaurus~0","pdbe~0","chebi~0","patentproteins~0","interpro7~0","uniref~0","chembl~0","pdbekb~0","gpcrdb~0","hgnc~0","sc-genes~0","intact~0","rhea~0","ebiweb_training~0","alphafold~0","imgt-hla~0","patentnucleotides~0","ensemblroot~0","eva_studies~0","non-coding~0","europepmc~0","pubmed~1","identifiers_registry~0","pdbechem~0","hpa-covid19~0","eva-variants-covid19~0","biosamples~0","gwas_catalog~0","biotools~0","tls_masters~0","mesh~0","coding~0","sra~0","opentargets~0","efo~0","embl-pathogen~0","project~0","pride~1","human_diseases~0","geo_datasets~0","embl~0","treefam~0","uniparc~0","ols~0","dgva~0","intenz~0","go~0","tsa_masters~0","biosamples-covid19~0","ebiweb_corporate~0","omim~0","lrg~0","earlycause-molecular-sequences~0","ipd-kir~0","empiar~0","rnacentral~0","orcid_data_claims~0","gpmdb~2","lineage-covid19~0","metagenomics~0","pfam~0","pride archive~1","varsite~0"],"reanalysis_count":["0"],"submitter_keywords":["Resource Reanalysis"],"citation_count_scaled":["0.0"],"reanalysis_count_scaled":["0.0"],"view_count_scaled":["0.004935225169648365"],"download_count_scaled":["0.0"],"normalized_connections":["1.0"],"additional_accession":[]},"is_claimable":false,"name":"Absolute protein quantification allows differentiation of cell specific metabolic routes and functions.","description":"Data from ProteomeXchange, PXD ID: PXD001352. Experiment: mouse, brain, file: 20140327_EXQ3_JRW_D75_L2.mzml. Published as part of Proteomics. 2014 Dec 5  . From the Abstract: {{i}} Total protein approach (TPA) is a proteomic method which allows calculation of concentrations of individual proteins and groups of functionally related proteins in any protein mixture without spike-in standards. Using the two step digestion-filter aided sample preparation method and LC-MS/MS analysis we generated comprehensive quantitative datasets of mouse intestinal mucosa, liver, red muscle fibers, brain, and of human plasma, erythrocytes, and tumor cells lines. We show that the TPA based quantitative data reflect well-defined and specific physiological functions of different organs and cells, for example nutrient absorption and transport in intestine, amino acid catabolism and bile secretion in liver, and contraction of muscle fibers ... {{/i}}","dates":{"submission":"2014-12-16"},"accession":"GPM32310005401","cross_references":{"pubmed":["25475432"],"Pride":["PXD001352"],"pride":[],"Pride Archive":["PXD001352"]}}