title: Mass-spectrometry-based draft of the human proteome.
abstract: Proteomes are characterized by large protein-abundance differences, cell-type- and time-dependent expression patterns and post-translational modifications, all of which carry biological information that is not accessible by genomics or transcriptomics. Here we present a mass-spectrometry-based draft of the human proteome and a public, high-performance, in-memory database for real-time analysis of terabytes of big data, called ProteomicsDB. The information assembled from human tissues, cell lines and body fluids enabled estimation of the size of the protein-coding genome, and identified organ-specific proteins and a large number of translated lincRNAs (long intergenic non-coding RNAs). Analysis of messenger RNA and protein-expression profiles of human tissues revealed conserved control of protein abundance, and integration of drug-sensitivity data enabled the identification of proteins predicting resistance or sensitivity. The proteome profiles also hold considerable promise for analysing the composition and stoichiometry of protein complexes. ProteomicsDB thus enables navigation of proteomes, provides biological insight and fosters the development of proteomic technology.
authors.affiliation: 1] Chair of Proteomics and Bioanalytics, Technische Universität München, Emil-Erlenmeyer Forum 5, 85354 Freising, Germany [2] SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany [3].
authors.forename: Mathias
authors.initials: M
authors.lastname: Wilhelm
authors.affiliation: 1] SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany [2].
authors.forename: Judith
authors.initials: J
authors.lastname: Schlegl
authors.affiliation: 1] Chair of Proteomics and Bioanalytics, Technische Universität München, Emil-Erlenmeyer Forum 5, 85354 Freising, Germany [2].
authors.forename: Hannes
authors.initials: H
authors.lastname: Hahne
authors.affiliation: 1] Chair of Proteomics and Bioanalytics, Technische Universität München, Emil-Erlenmeyer Forum 5, 85354 Freising, Germany [2].
authors.forename: Amin Moghaddas
authors.initials: AM
authors.lastname: Gholami
authors.affiliation: SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany.
authors.forename: Marcus
authors.initials: M
authors.lastname: Lieberenz
authors.affiliation: Cellzome GmbH, Meyerhofstraße 1, 69117 Heidelberg, Germany.
authors.forename: Mikhail M
authors.initials: MM
authors.lastname: Savitski
authors.affiliation: SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany.
authors.forename: Emanuel
authors.initials: E
authors.lastname: Ziegler
authors.affiliation: SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany.
authors.forename: Lars
authors.initials: L
authors.lastname: Butzmann
authors.affiliation: SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany.
authors.forename: Siegfried
authors.initials: S
authors.lastname: Gessulat
authors.affiliation: Chair of Proteomics and Bioanalytics, Technische Universität München, Emil-Erlenmeyer Forum 5, 85354 Freising, Germany.
authors.forename: Harald
authors.initials: H
authors.lastname: Marx
authors.affiliation: Cellzome GmbH, Meyerhofstraße 1, 69117 Heidelberg, Germany.
authors.forename: Toby
authors.initials: T
authors.lastname: Mathieson
authors.affiliation: Chair of Proteomics and Bioanalytics, Technische Universität München, Emil-Erlenmeyer Forum 5, 85354 Freising, Germany.
authors.forename: Simone
authors.initials: S
authors.lastname: Lemeer
authors.affiliation: JPT Peptide Technologies GmbH, Volmerstraße 5, 12489 Berlin, Germany.
authors.forename: Karsten
authors.initials: K
authors.lastname: Schnatbaum
authors.affiliation: JPT Peptide Technologies GmbH, Volmerstraße 5, 12489 Berlin, Germany.
authors.forename: Ulf
authors.initials: U
authors.lastname: Reimer
authors.affiliation: JPT Peptide Technologies GmbH, Volmerstraße 5, 12489 Berlin, Germany.
authors.forename: Holger
authors.initials: H
authors.lastname: Wenschuh
authors.affiliation: Institute of Pathology, Technische Universität München, Trogerstraße 18, 81675 München, Germany.
authors.forename: Martin
authors.initials: M
authors.lastname: Mollenhauer
authors.affiliation: Institute of Pathology, Technische Universität München, Trogerstraße 18, 81675 München, Germany.
authors.forename: Julia
authors.initials: J
authors.lastname: Slotta-Huspenina
authors.affiliation: SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany.
authors.forename: Joos-Hendrik
authors.initials: JH
authors.lastname: Boese
authors.affiliation: Cellzome GmbH, Meyerhofstraße 1, 69117 Heidelberg, Germany.
authors.forename: Marcus
authors.initials: M
authors.lastname: Bantscheff
authors.affiliation: SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany.
authors.forename: Anja
authors.initials: A
authors.lastname: Gerstmair
authors.affiliation: SAP AG, Dietmar-Hopp-Allee 16, 69190 Walldorf, Germany.
authors.forename: Franz
authors.initials: F
authors.lastname: Faerber
authors.affiliation: 1] Chair of Proteomics and Bioanalytics, Technische Universität München, Emil-Erlenmeyer Forum 5, 85354 Freising, Germany [2] Center for Integrated Protein Science Munich, Germany.
authors.forename: Bernhard
authors.initials: B
authors.lastname: Kuster
mesh_terms: D001826:Body Fluids / Q000737:chemistry / Q000378:metabolism; D002460:Cell Line; D030562:Databases, Protein; D020869:Gene Expression Profiling; D015894:Genome, Human / Q000235:genetics; D006801:Humans; D013058:Mass Spectrometry; D058977:Molecular Sequence Annotation; D009928:Organ Specificity; D020543:Proteome / Q000032:analysis* / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D040901:Proteomics; D012333:RNA, Messenger / Q000032:analysis / Q000235:genetics
chemical_list: D020543:Proteome; D012333:RNA, Messenger