A number of websites provide host services for massive proteomic data sets. These repositories are excellent resources for accessing raw data and quick experimental summaries.
A centralized, standards compliant, public data repository for proteomics data,…
A centralized, standards compliant, public data repository for proteomics data, including protein and peptide identifications, post-translational modifications and supporting spectral evidence. PRIDE…
Provides an overview of the biological information stored in public databases…
Provides an overview of the biological information stored in public databases or provided by annotations according to the Gene Ontology, (II) predicts proteins that are secreted to search for…
An atlas of protein expression of Medicago truncatula in association with…
An atlas of protein expression of Medicago truncatula in association with Sinorhizobium meliloti. The Medicago Proteome Atlas provides evidence for more than 23013 protein groups (19679 from the…
Offers a seamless integration of and navigation through protein-related data.…
Offers a seamless integration of and navigation through protein-related data. neXtProt contains proteomics data for over 85% of the human proteins. Moreover, this tool includes over 8000 phenotypic…
Maps the human protein subset or parts list coded by genes on each chromosome.…
Maps the human protein subset or parts list coded by genes on each chromosome. C-HPP aims to define the full set of proteins encoded in each chromosome through development of a standardized approach…
Enables navigation of proteomes, provides biological insight and fosters the…
Enables navigation of proteomes, provides biological insight and fosters the development of proteomic technology. ProteomicsDB is a mass-spectrometry-based draft of the human proteome and a public,…
A web-based resource to aid analysis of existing biological data and inspire…
A web-based resource to aid analysis of existing biological data and inspire future biological investigations. Phosphomouse presents experimental data about tissue-specific protein abundance and…
A data warehouse that addresses one of the important challenges of modern…
A data warehouse that addresses one of the important challenges of modern biology: how to integrate and make use of the diversity and volume of current biological data. Its main focus is genomic and…
Compiles properties of more than 53 000 characterized mammalian proteins.…
Compiles properties of more than 53 000 characterized mammalian proteins. HumanPSD provides association of human proteins with diseases and their potential utilization as biomarkers. It reports drugs…
Provides an integrated resource for experimentally identified proteins in…
Provides an integrated resource for experimentally identified proteins in Arabidopsis and maize (Zea mays).
Hosts qualitative and quantitative information on proteins (including those…
Hosts qualitative and quantitative information on proteins (including those from MRM-based assays) reported in plasma and serum and hence serves as reference platform for biomarker discovery.
An integrated web-based resource that catalogues the genomic and proteomic…
An integrated web-based resource that catalogues the genomic and proteomic annotations identified in colorectal cancer (CRC) tissues and cell lines. The data catalogued to-date include sequence…
Provides a resource of protein phosphorylation data from multiple plants. With…
Provides a resource of protein phosphorylation data from multiple plants. With the large-scale phosphorylation data and associated web-based tools, P3DB will be a valuable resource for both plant and…
Provides convenient and interactive search tools allowing users to retrieve, to…
Provides convenient and interactive search tools allowing users to retrieve, to analyze and also to predict mobile RNAs/proteins. Each entry in the PlaMoM database contains detailed information such…
A database for proteome-wide analysis of single-pass membrane proteins.…
A database for proteome-wide analysis of single-pass membrane proteins. Membranome currently collects data on >6000 bitopic proteins from Homo sapiens, Arabidopsis thaliana, Dictyostelium…
An online resource of proteins known or predicted to be related to the synapse…
An online resource of proteins known or predicted to be related to the synapse or synaptic activity.
Provides information on 217 proteins identified in a proteomic analysis of…
Provides information on 217 proteins identified in a proteomic analysis of nucleoli isolated from Arabidopsis cell culture.
Concerns biochemically characterized proteins data. CharProtDB provides a…
Concerns biochemically characterized proteins data. CharProtDB provides a source of transitive assignments of function which allow to make annotation pipelines. This annotation contains (1) gene…
Contains protein information from manually curated articles data. PlantPReS…
Contains protein information from manually curated articles data. PlantPReS currently comprises more than 20413 entries from 456 manually curated articles, and contains 10600 unique stress responsive…
A literature based manually curated protein centric database of rice proteins.…
A literature based manually curated protein centric database of rice proteins. MCDRP provides experimental data embedded in published articles in a computer searchable format. The database has data…
Provides a repository of structure and function annotations on the…
Provides a repository of structure and function annotations on the 'missing proteins' of the human proteome. HPSF hosts missing proteins that have not been validated at protein level which…
Contains several body fluid proteomes; including plasma, urine, and…
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…
Provides the research community with up-to-date information on putative…
Provides the research community with up-to-date information on putative peptides in A. thaliana, collected from publicly available datasets and predicted based on novel expression data. ARA-PEPs is a…
A relational database containing all structural proteins of Arthropod cuticle…
A relational database containing all structural proteins of Arthropod cuticle identified to date.
An integrated proteome database for use in cancer research.
An integrated proteome database for use in cancer research.
Allows users to query the different types of data present in the Saccharomyces…
Allows users to query the different types of data present in the Saccharomyces Genome Database (SGD) data. YeastMine is an integrated data warehouse with precomputed tables based on the InterMine…
UniProt provides 'proteome' sets of proteins thought to be expressed…
UniProt provides 'proteome' sets of proteins thought to be expressed by organisms whose genomes have been completely sequenced. It may include both manually reviewed (UniProtKB/Swiss-Prot)…
A database for comparative genomics of group A and group B streptococci.
A database for comparative genomics of group A and group B streptococci.
A rice proteome database based on shotgun proteogenomics, which incorporates…
A rice proteome database based on shotgun proteogenomics, which incorporates the genomic features of experimental shotgun proteomics data.
Permits to access, discover and disseminate omics data sets. OmicsDI is an…
Permits to access, discover and disseminate omics data sets. OmicsDI is an open-source platform that can integrate proteomics, genomics, metabolomics and transcriptomics data sets. This platform…
Integrates different tools for omics data analyses. Listeriomics integrates all…
Integrates different tools for omics data analyses. Listeriomics integrates all the complete Listeria species genomes, transcriptomes, and proteomes published to date. It allows navigation among all…
Provides a central platform for housing and analyzing our yeast proteome…
Provides a central platform for housing and analyzing our yeast proteome dynamics datasets at the single cell level. CYCLoPs differs from existing databases in a number of ways: (1) whereas other…
Reflects the capability of predicting accurate structures and helps to assess…
Reflects the capability of predicting accurate structures and helps to assess the potential for developing proteome level structural databases for various organisms with some of the best…
Aims to fully represent all relevant aspects of a proteomics experiment and to…
Aims to fully represent all relevant aspects of a proteomics experiment and to make them easily accessible to the user.
Offers complete nonredundant data sets representing the human, mouse and rat…
Offers complete nonredundant data sets representing the human, mouse and rat proteomes, built from the Swiss-Prot, TrEMBL, Ensembl and RefSeq databases. IPI is a nonredundant human proteome set that…
Provides key data about the hepatitis C virus sequences and ensures consistency…
Provides key data about the hepatitis C virus sequences and ensures consistency of the annotations, which enables reliable keyword queries.
Aims at collecting cell wall proteomic experimental data. WallProtDB contains…
Aims at collecting cell wall proteomic experimental data. WallProtDB contains 2,170 proteins and ESTs identified experimentally in 36 cell wall proteomics studies performed on 11 different plant…
Provides a comprehensive list of resources in different domains, such as…
Provides a comprehensive list of resources in different domains, such as proteomics, genomics, phylogeny/evolution, systems biology, population genetics and transcriptomics. ExPASy is the Swiss…
A free access database that contains the genomic and proteomic information of…
A free access database that contains the genomic and proteomic information of 74 fully sequenced cyanobacterial genomes belonging to seven orders. CKB also contains tools for sequence analysis. The…
Provides cellular surfaceome snapshots at high resolution. The CSPA is…
Provides cellular surfaceome snapshots at high resolution. The CSPA is presented in form of an easy-to-navigate interactive database, a downloadable data matrix and with tools for targeted surfaceome…
A large dataset of models encompassing more than 60,000 small proteins and…
A large dataset of models encompassing more than 60,000 small proteins and protein domains for the rice. For each protein sequence, 5 top structures were chosen using a novel clustering methodology…
A repository built to house phosphoprotein, phosphopeptide, and phosphosite…
A repository built to house phosphoprotein, phosphopeptide, and phosphosite data specific to Medicago. Medicago PhosphoProtein Database holds 3457 unique phosphopeptides that contain 3404…
A free and easily accessed service for the shrimp research community that…
A free and easily accessed service for the shrimp research community that provides a comprehensive and up-to-date database of quality-filtered decapod gene and protein sequences together with…
Quantifies protein abundance and phosphorylation levels across developmental…
Quantifies protein abundance and phosphorylation levels across developmental time. The Atlas of Maize Proteotypes comprises 14165 proteins and 18405 phosphopeptides, quantified across eight tissues.…
A database of cereal prolamin epitopes, peptides and proteins for expert users…
A database of cereal prolamin epitopes, peptides and proteins for expert users that are dealing with protein chemistry, proteomics and mass spectrometry, method developments and related applications…
A resource for researchers studying Listeria and related organisms. The L.…
A resource for researchers studying Listeria and related organisms. The L. monocytogenes 10403S BioCyc database allows users to (i) have a comprehensive view of all reactions and pathways predicted…
A database using manual curation from 38 423 articles published before 1 April…
A database using manual curation from 38 423 articles published before 1 April 2014, and integrating protein interactomes and several transcriptome datasets. FR database provides detailed information…
A database based on the results of Synechococcus sp. PCC 7002 omics studies.…
A database based on the results of Synechococcus sp. PCC 7002 omics studies. CyanOmics comprises one genomic dataset, 29 transcriptomic datasets and one proteomic dataset and should prove useful for…
Supports powerful query, reporting, and analysis capabilities over a…
Supports powerful query, reporting, and analysis capabilities over a significant portion of the MGI database. The main source of MouseMine data is the Mouse Genome Informatics, which includes a…
Integrates and analyzes the completely sequenced and available S. pneumoniae…
Integrates and analyzes the completely sequenced and available S. pneumoniae genome sequences. Further, links to several tools are provided to compare the pool of gene and protein sequences, and…
Domiciles proteomic and genomic information on 150 HPV strains sequenced to…
Domiciles proteomic and genomic information on 150 HPV strains sequenced to date. Retreival of such vast information from different resources with a provision of prediction and validation of proteins…
An aggregation portal for Arabidopsis proteomic data currently being produced…
An aggregation portal for Arabidopsis proteomic data currently being produced by the community and unites a large collection of specialized resources to a single portal.
An integrated database resource which includes multiple web-based applications.…
An integrated database resource which includes multiple web-based applications. These include a GBrowse2-based wheat genome viewer with BLAST search portal, TAGdb for searching wheat…
Hosts a proteomics database for Streptomyces, Caulobacter and Neisseria. SWICZ…
Hosts a proteomics database for Streptomyces, Caulobacter and Neisseria. SWICZ contains knowledge based data of time series of protein expression for various stages of development of the given…
A biological web search engine based on the Semantic Web technologies. The…
A biological web search engine based on the Semantic Web technologies. The IntegromeDB search engine allows scanning data on gene regulation, gene expression, protein-protein interactions, pathways,…
A comprehensive data collection for maize. Optimas-DW integrates data from…
A comprehensive data collection for maize. Optimas-DW integrates data from different data domains such as transcriptomics, metabolomics, ionomics, proteomics and phenomics. A web interface allows…
An algorithm was developed to act as the interface between EMPRES-i disease…
An algorithm was developed to act as the interface between EMPRES-i disease event data and publicly available influenza virus sequences in OpenfluDB.
Contains a collection of statistics concerning: kinases, cell death, membrane…
Contains a collection of statistics concerning: kinases, cell death, membrane proteins, nuclear proteins, metabolism, signal transduction, secreted proteins, and transcription factors.…
A relational database, containing all Lepidoptera chorion proteins identified…
A relational database, containing all Lepidoptera chorion proteins identified to date. Lepidoptera chorion proteins can be classified in two major protein families, A and B. This classification was…
An integrated Proteome resources center in China. Currently, iProX is composed…
An integrated Proteome resources center in China. Currently, iProX is composed of a proteomics database and an experiment data submission system. iProX encourages and welcomes direct user submissions…
It contains eleven kinds of body fluid proteomes, including plasma/serum,…
It contains eleven kinds of body fluid proteomes, including plasma/serum, urine, cerebrospinal fluid, saliva, bronchoalveolar lavage fluid, synovial fluid, nipple aspirate fluid, tear fluid, seminal…
A database with the goal of collecting curated cancer proteomics data. dbDEPC…
A database with the goal of collecting curated cancer proteomics data. dbDEPC provides a resource for information on protein-level expression changes. It explores protein profile differences among…
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