Tag: proteomics resources

The PRIDE PRoteomics IDEntifications database is a centralized, standards compliant, public data repository that provides protein and peptide identifications together with supporting evidence.

The PeptideAtlas Project provides a publicly-accessible database of peptides identified in tandem mass spectrometry proteomics studies and software tools. Mass spectrometer output files are collected for human, mouse, yeast, and several other organis ...

The ProteomeXchange consortium has been set up to provide a single point of submission of MS proteomics data to the main existing proteomics repositories, and to encourage the data exchange between them for optimal data dissemination.

The Open Targets Platform is a comprehensive and robust data integration for access to and visualisation of potential drug targets associated with disease. It brings together multiple data types and aims to assist users to identify and prioritise tar ...

ProteomicsDB is a protein-centric in-memory database for the exploration of large collections of quantitative mass spectrometry-based proteomics data. ProteomicsDB was first released in 2014 to enable the interactive exploration of the first draft of ...

jPOSTrepo (Japan ProteOme STandard Repository) is a data repository of sharing MS raw/processed data.

The RESID Database of Protein Modifications is a comprehensive collection of annotations and structures for protein modifications including amino-terminal, carboxyl-terminal and peptide chain cross-link post-translational modifications.

Proteome-pI is an online database containing information about predicted isoelectric points for 5,029 proteomes (21 million of sequences) calculated using 18 methods. The isoelectric point, the pH at which a particular molecule carries no net electri ...

CutDB is one of the first systematic efforts to build an easily accessible collection of documented proteolytic events for natural proteins in vivo or in vitro. A CutDB entry is defined by a unique combination of these three attributes: protease, pro ...

As a reversible post-translational modification (PTM) discovered decades ago, protein lysine acetylation was known for its regulation of transcription through the modification of histones. Recent studies discovered that lysine acetylation targets bro ...

GELBANK is a publicly available database of two-dimensional gel electrophoresis (2DE) gel images of proteomes from organisms with known genome information (available at http://gelbank.anl.gov). GELBANK serves as a database for those proteomics labs t ...

dbPTM is a databases which accumulates the biological information related to protein post-translational modification (PTM), such as the catalytic sites, structural information, solvent accessibility of residues, protein secondary structures, protein ...

The SWISS-2DPAGE database has been established in 1993 and is maintained collaboratively by the Central Clinical Chemistry Laboratory of the Geneva University Hopital and the Swiss Institute of Bioinformatics (SIB). The current release (Octobre, 2003 ...

The publicly available Proteome Database System for Microbial Research 2D-PAGE has been established at the Max Planck Institute for Infection Biology and serves as a template for a prototype of a European Proteome Database of Pathogenic Bacteria. The ...

With the rapid progress of the HLPP (Human Liver Proteome Project), a massive quantity of liver proteome expression profile data has been generated. To manage the valuable resource effectively and present it for researchers, a web-based database of l ...

Mass-spectrometry-based proteomics data for human, yeast, E.coli and Mycobacterium

Proteomics of post-translational modifications

Platform for Identifying Mutated Proteins

A database of protein S-nitrosylation

Peptide identification and ion information from proteome experiments

Qualitative and quantitative information on proteins in human plasma and serum

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 (MA ...

DynaProt 2D provides dynamic online access to proteomes and 2D gels. The database was designed to administer complete in silico proteomes and links them with experimental proteomic data in the manner of two-dimensional electrophoresis gels (IPG-Dalt) ...

Body fluids became an important target for proteomic research and proteomic study had produced more and more body fluid related protein data. Sys-BodyFluid was aimed to collect and analyze these proteome data. It contains eleven kinds of body fluid p ...

Mass spectrometry (MS)-based immunopeptidomics investigates the repertoire of peptides presented at the cell surface by major histocompatibility complex (MHC) molecules. The broad clinical relevance of MHC-associated peptides, e.g. in precision medic ...

AAindex is a database of amino acid indices and amino acid mutation matrices. An amino acid index is a set of 20 numerical values representing various physicochemical and biochemical properties of amino acids. An amino acid mutation matrix is general ...

Biozon is a platform that allows for the storage, management, and analysis of interrelated proteins, genes, interactions, protein families, cellular pathways and more. These heterogeneous data types and the relations between them are locally warehous ...