MAPU: Max-Planck Unified database of organellar, cellular, tissue and body fluid proteomes

TY - JOUR

T1 - MAPU: Max-Planck Unified database of organellar, cellular, tissue and body fluid proteomes

AU - Zhang, Yanling

AU - Zhang, Yong

AU - Adachi, Jun

AU - Olsen, Jesper Velgaard

AU - Shi, Rong

AU - de Souza, Gustavo

AU - Pasini, Erica

AU - Foster, Leonard J

AU - Macek, Boris

AU - Zougman, Alexandre

AU - Kumar, Chanchal

AU - Wisniewski, Jacek R

AU - Jun, Wang

AU - Mann, Matthias

N1 - Keywords: Animals; Body Fluids; Cell Line; Databases, Protein; Erythrocytes; Humans; Internet; Liver; Mass Spectrometry; Mice; Organelles; Proteome; Proteomics; Reproducibility of Results; User-Computer Interface

PY - 2007/1

Y1 - 2007/1

N2 - Mass spectrometry (MS)-based proteomics has become a powerful technology to map the protein composition of organelles, cell types and tissues. In our department, a large-scale effort to map these proteomes is complemented by the Max-Planck Unified (MAPU) proteome database. MAPU contains several body fluid proteomes; including plasma, urine, and cerebrospinal fluid. Cell lines have been mapped to a depth of several thousand proteins and the red blood cell proteome has also been analyzed in depth. The liver proteome is represented with 3200 proteins. By employing high resolution MS and stringent validation criteria, false positive identification rates in MAPU are lower than 1:1000. Thus MAPU datasets can serve as reference proteomes in biomarker discovery. MAPU contains the peptides identifying each protein, measured masses, scores and intensities and is freely available at http://www.mapuproteome.com using a clickable interface of cell or body parts. Proteome data can be queried across proteomes by protein name, accession number, sequence similarity, peptide sequence and annotation information. More than 4500 mouse and 2500 human proteins have already been identified in at least one proteome. Basic annotation information and links to other public databases are provided in MAPU and we plan to add further analysis tools.

AB - Mass spectrometry (MS)-based proteomics has become a powerful technology to map the protein composition of organelles, cell types and tissues. In our department, a large-scale effort to map these proteomes is complemented by the Max-Planck Unified (MAPU) proteome database. MAPU contains several body fluid proteomes; including plasma, urine, and cerebrospinal fluid. Cell lines have been mapped to a depth of several thousand proteins and the red blood cell proteome has also been analyzed in depth. The liver proteome is represented with 3200 proteins. By employing high resolution MS and stringent validation criteria, false positive identification rates in MAPU are lower than 1:1000. Thus MAPU datasets can serve as reference proteomes in biomarker discovery. MAPU contains the peptides identifying each protein, measured masses, scores and intensities and is freely available at http://www.mapuproteome.com using a clickable interface of cell or body parts. Proteome data can be queried across proteomes by protein name, accession number, sequence similarity, peptide sequence and annotation information. More than 4500 mouse and 2500 human proteins have already been identified in at least one proteome. Basic annotation information and links to other public databases are provided in MAPU and we plan to add further analysis tools.

U2 - 10.1093/nar/gkl784

DO - 10.1093/nar/gkl784

M3 - Journal article

C2 - 17090601

SN - 0305-1048

VL - 35

SP - D771-9

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - Database issue

ER -