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Biodefense Proteomics Resource Center

http://www.proteomicsresource.org/default.aspx

Description :
Proteomics and host-pathogen interactions for biodefense-related microorganisms

HAMAP

http://www.expasy.org/sprot/hamap/

Description :
High-quality Automated and Manual Annotation of microbial Proteomes

Human Proteinpedia

http://www.humanproteinpedia.org/

Description :
Community portal for sharing and integration of human proteomic data

dbLEP

http://dblep.hupo.org.cn/

Description :
With the rapid progress of HLPP (Human Liver Proteome Project), massive data of liver proteome expression profile has been generated. To manage the valuable resource effectively and present it for researchers with different interest to carry out analysis conveniently, a web-based database of liver proteome expression profile named dbLEP has been developed. The researchers especially interested in large scale proteome or specific protein function could get great benefit from it. Currently dbLEP holds two datasets of human fetal liver and HLPP French liver with approximately 17247 proteins and 36990 peptides. Some other datasets, such as HLPP Chinese liver and subcellula, C57 mouse liver subcellula will be online soon. Both non-redundant proteins and all possible proteins are presented so that users could understand each dataset comprehensively. Besides the complete identification, dbLEP provides related information like mass spectrums for users to verify the confidence. Plenty of protein annotation, such as description of function, family, GO classification etc. and lots of cross links to the other related databases, such as UniPort, Kegg and HPRD etc., are provided as well. Users could get information by browsing each dataset, searching interested proteins with specified accession number, protein name, subcellular localization, or searching in batch mode. Meanwhile, users are enabled to customize their own filter criteria based on unique peptide count, spectrum count etc., and then get the corresponding identification subset with specific confidence. Blast and FTP services are also available. dbLEP is accessible at http://lep.hupo.org.cn and http://dblep.hupo.org.cn.

Aknowledgement :
This work has been supported by the Chinese National Key Program of Basic Research (2006CB910803), the National High Technology Research and Development Program of China (2006AA02A312, 2006AA02Z334), National Natural Science Foundation of China (30621063) and Beijing Municipal Key Research Program (H030230280590).

References :
1. He F. (2005) Human liver proteome project: plan, progress, and perspectives. Mol Cell Proteomics 4(12): 1841-1848.
2.Zhang X, Guo Y, Song Y, Sun W, Yu C, Zhao X, Wang H, Jiang H, Li Y, Qian X, Jiang Y, He F. (2006) Proteomic analysis of individual variation in normal livers of human beings using difference gel electrophoresis. Proteomics 6(19): 5260-5268
3. Song Y, Hao Y, Sun A, Li T, Li W, Guo L, Yan Y, Geng C, Chen N, Zhong F, Wei H, Jiang Y, He F. (2006) Sample preparation project for the subcellular proteome of mouse liver. Proteomics 6(19): 5269-5277.

Open Proteomics Database

http://bioinformatics.icmb.utexas.edu/OPD/

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

Sys-BodyFluid

http://www.biosino.org/bodyfluid/

Description :
Proteomes of 11 human body fluids

PPDB: Plant Proteomics Database

http://ppdb.tc.cornell.edu/

Description :
Plant Proteomics Database

Proteome Analysis at EBI

http://www.ebi.ac.uk/proteome/

Description :
The Proteome Analysis Database at EBI provides statistical and comparative analyses of the predicted proteomes of organisms for which there are fully-sequenced genomes.

ISPIDER Central

http://www.ispider.manchester.ac.uk/cgi-bin/ProteomicSearch.pl

Description :
The ISPIDER Central provides a range of services for integrative data analysis in mass spectrometry-based proteomics. It enables users to query multiple proteomic repositories and to add information to proteins retrieved from searches for integrative in silico experiments in proteomics.

ProteomicsSURF

http://www.proteomicssurf.com/

Description :
ProteomicsSURF is a site dedicated to disease proteomics which aims to identify proteins involved in human disease and to understand how their expression, structure and function cause illness.

Proteome Analyst

http://www.cs.ualberta.ca/~bioinfo/PA/

Description :
Proteome Analyst is a high-throughput tool for predicting properties for each protein in a proteome. The user provides a proteome in fasta format, and the system employs Psi-blast, Psipred and Modeller to predict protein function and subcellular localization. Proteome Analyst uses machine-learned classifiers to predict things such as GO molecular function. User-supplied training data can also be used to create custom classifiers.

CPRMap

http://www.cprmap.com/ Clinical Proteomics Research Map (CPRMap) is dedicated to provide web information on clinical proteomics technologies and its applied proteomics.

HUPO Proteomics Standards Initiative

http://psidev.sourceforge.net/

Description :
HUPO Proteomics Standards Initiative (PSI) provides data representation standards to facilitate the exchange, comparison and validation of proteomics data.

PEDRo

http://pedrodownload.man.ac.uk/

Description :
Software and schemata for modelling, capturing and disseminating proteomics experimental data

ProteinProspector

http://prospector.ucsf.edu/

Description :
Various tools used for sequence database mining in connection with mass spectrometry experiments.

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