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QuickLinks:
This Page: * Human Genome Project * Progress In Genome Projects * Genetics and Life Sciences * Protein Research * Proteomics * Models * Transgenic * Homology * Research Sites

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Protein Research

Article "Meeting halfway on the bridge between folding theory and experiment," Vijay S. Pande, PNAS April 1, 2003 (pdf)
Article: "Microsecond electrophoresis," Matthew L. Plenert and Jason B. Shear, PNAS January 2003 (pdf)
Bloomsbury Centre for Structure Biology
BoLA Nomenclature Committee information source on the bovine major histocompatibility complex - its genes, proteins and polymorphism.
BRITE database of binary relations for computation and graph comparisons
BSM SearchLauncher: Protein secondary structure prediction
Cambridge Crystallographic Data Center
CATH: Protein Structure Classification
Center for Eukaryotic Structural Genomics 3-D structure of proteins encoded by Arabidopsis thaliana
Comparative and Functional Genomics
Computational Biosciences protein and DNA sequence analysis and annotation
Cytokines Online Pathfinder Encyclopaedia (COPE)
Danish Centre For Human Genome Research human 2-D PAGE databases for proteome analysis
DOE Genomes to Life Contractor-Grantee Workshop I (2003)
DOE Genomics:GTL Contractor-Grantee Workshop II (2004)
EBI Macromolecular Structure Database European project for the collection, management and distribution of data about macromolecular structures, derived in part from the Protein Data Bank (PDB).
European Bioinformatics Institute (EBI) European Molecular Biology Laboratory (EMBL) research center that manages databases of biological data including nucleic acid, protein sequences, and macromolecular structures.
ExPASy - Swiss-Prot and TrEMBL protein sequence database and the computer-annotated supplement
ExPASy Molecular Biology Server (SWISS-PROT, etc.) EBI server dedicated to the analysis of protein sequences and structure as well as 2-D PAGE
Functional Genomics Jump Station
GeneCards Database human genes, products, and involvement in disease
GeneParser identification of protein coding regions
Human Mitochondrial Protein Database
Human Proteome Organisation International group formed to further the understanding of human proteins and to realize the benefits of proteomics by encouraging cooperation among scientific, governmental, and financial communities.
Human Proteomics Initiative (HPI) Project to annotate all known human sequences to the quality standards of Swiss-Prot, including information on each known protein.
Images of Biological Molecules 3-D structures of proteins and nucleic acids
IMB Jena Image Library of Biological Macromolecules
iProClass family relationships and structural/functional features of proteins
MetaCyc: Metabolic Pathway Database describes metabolic pathways, reactions, enzymes, and substrate compounds from multiple organisms
Mitochondria Project Database for mitochondria-related genes, proteins and diseases
NHGRI Homeodomain Resource non-redundant protein sequences, 3D structures, and genomic information
NNPREDICT server Prediction of protein sequence secondary structure
Nucleic Acid Database (NDB) Project goal is to assemble and distribute structural information about nucleic acids
O Protein Crystallographic Package O file for users of package
PairCoil predicts coiled-coil domains in protein sequences
PDBSum: Summaries and Structural analysis of PDB data files
PEDANT: Protein Extraction, Description, and ANalysis Tool
Peptaibol Database Crystallography Department, Birkbeck College, London
Pfam - Protein families database of alignments and HMMs protein families database of alignments and HMMs
PIR Non-Redundant Reference Protein Database
PRINTS Protein Sequence Motif Database
probeBase database of published rRNA-targeted oligonucleotide probe sequences, DNA microarray layouts and associated information
Protein Data Bank (PDB) Repository for 3-D macromolecular structure data
Protein Information Resources - Protein Sequence Database
Protein Science a publication of the Protein Society
Protein Structure Group, Computational Biosciences exploring protein threading, ab initio folding, and classification
Protein Structure Prediction Center
Proteomics Standards Initiative Aims to define community standards for data representation in proteomics to facilitate data comparison, exchange, and verification.
proteomicsSurf
ProtoMap+ hierarchical classification of all SWISSPROT and TrEMBL proteins
ProtoNet offers automatic hierarchical classification of proteins
proWeb Project protein family documentation
REBASE[R]: Restriction Enzyme Database information about restriction enzymes and related proteins
RESID Database Information annotations and structures for protein modifications
SBASE: A Protein Domain Library
SearchLauncher provides a single point of entry for related WWW search and analysis services
Secondary structure assignment database (DSSP) program for DSSP database
SignalP predicts signal peptides cleavage sites in amino acid sequences
SRPDB (Signal Recognition Particle Database)
Structural Classification of Proteins database of structural and evolutionary relationships among proteins
Structural Genomics Initiatives Devoted to studies that take a genomics or computational approach to determining protein structures and functions.
Swiss Proteomics Society Organization to promote research and education in the science of proteomics in Switzerland and other countries.
SWISS-MODEL Automated Comparative Protein Modelling Server
Swiss-Prot Annotated database of protein amino acid sequences.
Systems Biology Pacific Northwest National Laboratory (PNNL)
Teresa Head-Gordon Group; Department of Bioengineering; University of California, Berkeley protein folding and structure prediction and modeling aqueous hydration
The Molecules of Life Simple interactive introduction to laboratory techniques used to understand the structure of protein molecules. For general audiences.
The Proteome Society Organization to provide worldwide opportunities regarding protein study for education, networking, and information exchange among scientists.
Transcription Regulatory Regions Database
UMBER: University of Manchester Bioinformatics Education and Research accesses protein sequence and structure databases

Proteomics

123Genomics Genomics, Proteomics and Bioinformatics Knowledge Base
ABIM Organism Databases links to many different databases
Article "Meeting halfway on the bridge between folding theory and experiment," Vijay S. Pande, PNAS April 1, 2003 (pdf)
BIATECH: Biology - Integration - Analysis - Technology - Environment - Computation - Health independent nonprofit biomedical research center
Biological Biochemical Image Database searchable database of images of putative biological pathways, macromolecular structures, gene families, and cellular relationships
Briefings in Functional Genomics and Proteomics Journal
Brutlag Bioinformatics Group located in the Biochemistry Department at Stanford University and affiliated with the Stanford Medical Informatics program
Cytokines Online Pathfinder Encyclopaedia (COPE)
Genomics and Bioinformatics Center, Chinese Academy of Sciences
Human Mitochondrial Protein Database
Human Proteome Organisation International group formed to further the understanding of human proteins and to realize the benefits of proteomics by encouraging cooperation among scientific, governmental, and financial communities.
Human Proteomics Initiative (HPI) Project to annotate all known human sequences to the quality standards of Swiss-Prot, including information on each known protein.
Munich Information Center for Protein Sequences (Mips)
Pharmacogenomics Online News, events, publications and suppliers
probeBase database of published rRNA-targeted oligonucleotide probe sequences, DNA microarray layouts and associated information
Prostate Expression Database
Protein Information Resource A Division of National Biomedical Research Foundation
Proteomics from Google
Proteomics Standards Initiative Aims to define community standards for data representation in proteomics to facilitate data comparison, exchange, and verification.
ProtoMap+ hierarchical classification of all SWISSPROT and TrEMBL proteins
proWeb Project protein family documentation
REBASE[R]: Restriction Enzyme Database information about restriction enzymes and related proteins
SBASE: A Protein Domain Library
SpectroscopyNow covers proteomics and spectroscopies
Structural Bioinformatics, Inc. computational proteomics
Structural Genomics Initiatives Devoted to studies that take a genomics or computational approach to determining protein structures and functions.
Swiss Proteomics Society Organization to promote research and education in the science of proteomics in Switzerland and other countries.
Swiss-Prot Annotated database of protein amino acid sequences.
Systems Biology Pacific Northwest National Laboratory (PNNL)
Systems Biology MIT Technology Review systems biology article, March 2002.
The Proteome Society Organization to provide worldwide opportunities regarding protein study for education, networking, and information exchange among scientists.

Models

Caltech List of Model Organism Databases
Comprehensive Microbial Resource from TIGR
Dog Genome Project
Entrez Structure (MMDB: Molecular Modelling Database) Three-D macromolecular structure data.
euGenes: Genomic Information for Eukaryotic Organisms
Gene Expression Nervous System Atlas (GENSAT) brain slice images of BAC transgenic mice
Genomes and Organisms
GenomeWeb extensive links for genomics of various organisms
Human to Mouse Homology Map
International Mammalian Genome Society
Jackson Laboratory
Mammalian Genetics and Development Section, ORNL
Microbial Genome Program at the Department of Energy
Model Organisms for Biomedical Research National Institutes of Health
Mouse Atlas and Gene Expression Database Project
Mouse BAC Sequencing Program Program to Sequence Regions of Mouse DNA of High Biomedical Importance
Mouse Genome Centre Mammalian Genetics Unit, UK
Mouse Genome Informatics at Jackson Laboratory includes Mouse Genome Database (MGD) and Encyclopedia of the Mouse Genome
NIH Plan for Mouse Genomics and Genetics Resources
References for Gene Knockouts in Mice that Affect Nervous System Phenotypes and Function (mailing list)
Report of a 1998 NIH Workshop on Model Organism Databases
Sanger Center list of Model Organism Databases
Tennessee Mouse Genome Consortium
Transgenic Animal Web
Transgenic Animal Web Links to Useful Resources
Transgenic/Targeted Mutation Database (TBASE)
U.S. Dept. of Energy Microbial Cell Project
Virtual Library Genetics a subject catalog covering genetics in the biosciences; includes animals, plants, microbes, human genetics and genomic research
WWW Virtual Library: Model Organisms
XREFDb project to link model organism genes to human homologs

Transgenic

A Practical Guide to Containment: Greenhouse Research with Transgenic Plants and Microbes
Gene Expression Nervous System Atlas (GENSAT) brain slice images of BAC transgenic mice
Transgenic Animal Web
Transgenic Animal Web Links to Useful Resources
Transgenic/Targeted Mutation Database (TBASE)
Virtual Library Genetics a subject catalog covering genetics in the biosciences; includes animals, plants, microbes, human genetics and genomic research

Homology

Database of Human Disease Causing Gene Homologues in Dictyostelium Discoideum
Dysmorphic Human-Mouse Homology Database (DHMHD)
Human to Mouse Homology Map
Virtual Library Genetics a subject catalog covering genetics in the biosciences; includes animals, plants, microbes, human genetics and genomic research
XREFDb project to link model organism genes to human homologs

Research Sites

Australian Genome Research Facility
Australian National Genomic Information Server
Baylor College of Medicine Human Genome Center
Biotechnology Research Information part of the Netherlands Institute for Scientific Information Services
Broad Institute fulfulling the promise of genetics for medicine
Brown Lab, Stanford University, California
Caltech Genome Research Laboratory BAC library resources, physical mapping, building framework BAC-EST map, and sequencing Pyrobaculum aerophilum.
Canadian Genetic Diseases Network consortium of genetic scientists and core technology facilities
Cancer Genome Anatomy Project interdisciplinary program to establish the information and technological tools needed to decipher the molecular anatomy of a cancer cell
Centre d'Etude du Polymorphisme Humain
Cold Spring Harbor Laboratory
Cold Spring Harbor Laboratory Human Genome Sequencing
Cooperative Human Linkage Center (CHLC)
Department of Genome Analysis, GBF
DKFZ (German Cancer Research Center) - Heidelberg, Germany in German
DNA Sequence and Technology Center Stanford University
DOE and NIH Research Sites
DOE National Laboratories and User Facilities
EBI Research and Services Groups
Eccles Institute of Human Genetics University of Utah
Eleanor Roosevelt Institute at the University of Denver
European Molecular Biology Laboratory
Généthon
GenLink database for human genetics and telomere research
GenLink Human Chromosome-Specific Sites
Genome Canada
Genome Information Research Center Osaka University
Genome Sequencing Centre Jena
GenomeNet
Genoscope
German Human Genome Project
German Human Genome Project Resource Center and Primary Database
Gesellschaft fuer Biotechnologische Forschung
Howard Hughes Medical Institute major U.S. philanthropic organization that supports research in genetics, cell biology, immunology, structural biology, and neuroscience.
Human Genome Mapping Project (HGMP) Resource Centre access to leading-edge tools for research in genomics, genetics, and functional genomics
Human Genome Organisation (HUGO)
Human Genome Project Research in Progress
Institute for Genomic Research (TIGR)
Institute of Genetics Supports research on the genetic and biochemical basis of health and disease
Japan Science and Technology Corporation ( JST ) Advanced Lifescience Information System ( ALIS )
Joint Genome Institute Department of Energy sequencing institution
Kazusa DNA Research Institute
Korea Research Institute of Bioscience and Biotechnology (KRIBB)
Lawrence Livermore National Laboratory Biology & Biotechnology Research Program
Lawrence Livermore National Laboratory Genome Center
Los Alamos National Laboratory Center for Human Genome Studies
M.D. Anderson Cancer Center, Department of Molecular Genetics
Marshfield Medical Research Foundation Center for Medical Genetics
Max Planck Institute of Molecular Genetics
Merck Genome Research Institute Gene function studies
MITOMAP A human mitochondrial genome database
Molecular Genetics Labs Cedars-Sinai Medical Center data on human chromosomes 11 and 21, BAC-STS map, mouse data
National Center for Genome Resources
National Institutes of Health National Human Genome Research Institute
National Laboratory for the Genetics of Israeli Populations national repository for human cell lines
NIH Center for Molecular Modeling 3-D structure and physiochemical properties
Oklahoma University
Pittsburgh Supercomputing Center Biomedical Supercomputing Initiative
Queen's University Forsdyke Laboratory of Molecular Biology and Bioinformatics
Roslin Institute Online mission is to understand and improve the productivity, breeding, and welfare of farm animals
Sanger Center a genome research centre set up by the Wellcome Trust
Stanford Genomic Resources
Stanford Human Genome Center
TelDB: GenLink Multimedia Telomere Resource
Telethon Institute for Genetics and Medicine
University of California, Irvine
University of Michigan Sequencing Core
University of Oklahoma Advanced Center for Genome Technology
University of Pennsylvania Center for Bioinformatics
University of Texas, San Antonio Genome Center
University of Victoria, Biology Department
University of Washington Genome Center
Utah Genome Center Projects at the center encompass large-scale sequencing, capillary, genotyping, and ELSI.
Washington University Genome Sequencing Center
WashU-Merck EST Project
WEHI (Walter and Eliza Hall Institute of Medical Research) - Melbourne, Australia
Weizmann Institute - Rehovot, Israel
Wellcome Trust
World Health Organization: Genetic techniques

Links updated 17-Dec-04

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Last modified: Wednesday, October 29, 2003

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