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Name Index:
Most of the webservers are classified in to different categories like
annotation server, bibliographic servers, comparative genomics servers etc.
The name are not yet hyperlinked. You can copy the name and use google to
find the website.
Subject Index to
Databases & software
Annotation
Berkeley Drosophila
Celera
Ensembl
GadFly
Genetic Annotation Index
Bibliographic (and full
text)
BioMedCentral (UK)
BioMedNet
BIOSIS Biological Abstracts, Zoological Abstracts Chemical Abstracts CA
CrossRef
EMBASE Excerpta Medica
Highwire Press
Medline See PubMed, Internet Grateful Med
OMIM Online Mendelian Inheritance in Man
PubMed Central Medline
PubRef See CrossRef
cDNA & clones, Genes,
Gene expression
BBID Biological Biochemical Image
Database
BODYMAP
cDNA relational databases
CGAP Cancer Gene Anatomy Project
Clone Maps
Clone Registry
dbEST Database of Expressed Sequence Tags
GENOTK
German Human cDNA Project
HUGE Human Unidentified Gene Encoded Large Proteins
Human BAC Ends Database
Human Gene Index
IMAGE Integrated Molecular Analysis of Genomes and their Expression
Mammalian Gene Collection MGC
PEDB Prostate ESTs DataBase
UniGene
Chromosomes
CEPH
Human Genome Sequencing
IXDB [chromosome X maps]
Various websites have links to individual chromosome databases.
Comparative genomics
See also Gene Expression, Model organisms
AceDB
allgenes.org
COG Clusters of Orthologous Groups of Proteins
DHMD Dysmorphic Human and Mouse Homology Database
DOTS Database of Transcribed Sequences See allgenes.org
Entrez Genomes
GDB Genome DataBase
GeneCards
Gene Census System
HOMOLOGENE
HOVERGEN Homologous Vertebrate Genes Database
Human Mouse Homology Maps
LocusLink
Mouse Genome Database MGD
RefSeq Reference Sequences
XREFdb
Database directories,
life sciences
DATABANKS
DBcat
Nucleic Acids Research
Diseases See also
Genes, Variations
CGAP Cancer Genome Anatomy Project
Mitelman Chromosomal Aberration Summary (genomewide-map)
OMIA Online Mendelian Inheritance in Animals
OMIM Online Mendelian Inheritance in Man
PEDB Prostate ESTs DataBase
Many more disease specific databases
Electrophoresis
2D PAGE
SWISS 2D
EST See cDNA
Gene expression See
also cDNA, Comparative Genomics, Genes, Microarrays
ASDB Alternative Splicing DataBase
ArrayExpress
Axeldb
BODYMAP
CGAP cDNA Expression Profiles
ChipDB
EGAD Expressed Gene Anatomy Database
EpoDB Erythropoiesis database
Express DB
FlyView
GGEG Global Gene Expression Group
G Protein Coupled Receptor Localization Database
GXD Gene Expression Database
Gene Express
Gene Expression Omnibus GEO
GeneX Project
HuGE Human Gene Expression Index
Human Gene Index
IMAGE Integrated Molecular Analysis of Genomes and their Expression
MAGEST
MIRAGE Molecular Informatics Resource for the Analysis of Gene Expression
Mouse Atlas and Gene Expression Database
Mouse Gene Expression Information Resource
ooTFD Transcription factors and gene expression
RNA Abundance
SAGEmap
STACK
TIGR Gene Indices
TRIPLES Transposon-Insertion Phenotypes, Localization and Expression in
Saccharomyces
ToxExpress
Gene Prediction
allgenes.org
Gene sequences See
Sequences
Genes See also Gene
Expression, Variations
allgenes.org
DeltaBase (gene families)
EID Exon-Intron database
EPD Eukaryotic Promoter Database gene ID
EpoDatabase Erythropoiesis database
ExInt
GeneCards
GeneScape
HomoloGene
IMGT
LocusLink
Mammalian Gene Collection
OMIA Online Mendelian Inheritance in Animals
OMIM Online Mendelian Inheritance in Man
PubGene
RefSeq Reference Sequences
UniGene
Many databases on specific genes.
Genomes See also
Comparative genomics, Sequences
AceDB
CropNet
DOGS Database of Genome Sizes
Entrez Genomes (includes bacterial viral, viroid)
GOBASE
GOLD Genomes OnLine Database
GeneMap 99
Genome Analysis Pipeline
Genome Catalog
Genome Channel
Genome MOT Genome MOnitoring Table
Human Genome Sequencing
MAGPIE Multipurpose Automated Genome Project Investigation Environment Genome
Sequencing
Mitelman Cancer Chromosomal Aberration Summary
RH [radiation hybrid] Map
TIGR Microbial Database
See also BDGP, C. elegans, SGD under Model organisms (and TAIR (The Arabidopsis
Information Resource and, EcoGene?)
Interactions, genetic &
molecular See also Pathways
BIGED
BIND Biomolecular Interaction Network Database
BRITE Biomolecular Relations in Information Transmission & Expression
DIP Database of Interacting Proteins
Database of Ribosomal Crosslinks
Dictionary of Interfaces in Proteins DIP
INTERACT
PRONET
PathCalling Yeast Interaction Database
SPAD Signaling Pathway Database
YPD Yeast Proteomics Database
Maps and mapping See
also Genes, Variants
dbSTS Database of Sequence Tagged Sites
Electronic PCR
GDB Genome DataBase
GenAtlas
Gene Map of the Human Genome
HuGeMap
Human Genome Sequencing
Human Mouse Homology Maps
IXDB [chromosome X maps]
OMIM Online Mendelian Inheritance in Man (Gene and Morbid maps)
REBASE
RHdb Radiation Hybrid Database
SAGEmap
Virgil
Microarrays
See also Gene expression
Array Express [software]
BBID Biological Biochemical Image Database
ChipDB
GEO
HuGE
RNA Abundance
Stanford Microarray DataBase
Model organisms See also
Comparative genomics, Gene expression
AceDB
AceDB
AceDB
Berkeley Drosophila Genome Project BDGP
C. elegans WWW Server
C. elegans Gene Knockout Consortium
Drosophila melanogaster genome
FlyBase
FlyView
GXD Gene Expression Database
GadFly
HomoloGene
Human Mouse Homology Maps
Interactive Fly
LocusLink
MGD Mouse Genome Database
MYGD MIPS Yeast Genome Database
Mouse Atlas and Gene Expression Database
Mouse Genome Informatics MGI
Mouse Gene Expression Information Resource
OmniBank
RGD Rat Genome Database
Rat Genome Data
RatMap
SGD Saccharomyces Genome Database
SGD Worm-Yeast Protein Comparison
Saccharomyces Genome Deletion Project
TRIPLES Transposon-Insertion Phenotypes, Localization and Expression in
Saccharomyces
UniGene
Worm Chip Directory
Worm PD
YPD
ZFIN Zebrafish Information Network
Molecular
Modeling See also Proteins
LPFC
MMDB
MODBASE
REBASE
Regulon DB
Mutations See Variations
Nomenclature and
Systematics/Taxonomy See
Nomenclature
glossary
ENZYME
IMGT
KeyNet
Taxonomy
TCDB Transporter Classification DataBase
Patents
US PTO Patent and Trademark Organization
(full-text and bibliographic summaries)
Many fee-based commercial patent databases (US and international)
Pathways See also
Interactions
BBID Biological Biochemical Image
Database
Biochemical Pathways (Boehringer Mannheim)
CSNDB Cell Signaling Networks Data base
ChipDB
GeneScape
Interactive Fly
KEGG Kyoto Encyclopedia of Genes and Genomes
Klotho
LIGAND
PUMA Phylogeny of Unicellular organisms Metabolic pathways Alignments See WIT
PathDB
Regulon DB
SPAD Signaling Pathway Database
Transpath
UM-BBD
UniGene
WIT2 What is There
Phenotype
Databases See also Gene expression, Model Organisms
DHMD
Gene knockout consortium
Genline
MKMD
Morphome
OMIA
OMIM
RNAi interference database
XREFdb
Plasmids See Entrez Genomes
Polymorphisms See
Variations
Probes & primers
Molecular Probe Data Base MPDB
Protein sequences See
sequences
Protein structure
prediction software
Proteins and Protein
structures See also Interactions, Sequences
3DinSight
AA Index Amino Acid Index
BioMagRes
COG
DSSP Database of Secondary Structure assignments for Proteins (and more)
Dali
Database of Ribosomal Crosslinks
Decoys R’Us
DiscoverEase (secreted proteins)
FSSP Fold classification based on Structure-Structure alignment of Proteins
Gene Census System
HIV Structural Reference Database
HSSP Homology derived Secondary Structures of
Proteins
HUGE Human Unidentified Gene Encoded Large Proteins
Human Protein Index
ISSD Integrated Sequence Structure Database
InterPro
Kabat
MIPS
MMDB Molecular Modeling DataBase
MODBASE
OWL
PDB Protein Data Bank
PIR Protein Information Resource
PIR-NRL3D
Presage
REBASE
RESID
SCOP Structural Classification of Proteins
SMART
SWISS 2D PAGE
SWISS 3D IMAGE
Protein domains (tertiary
structures)
3Dee Database of protein domain definitions
ASTRAL
CATH Class Architecture Topology Homology
CDD Conserved Domain Database
Pfam
ProSite
ProDom
SBASE
SMART
Protein families
BLOCKS
LPFC Library of Protein Family Cores
PIR Protein Information Resource
PROSITE
Pfam
Prints
ProClass
ProtFam
proWeb
Proteome
BBID Biological Biochemical Image Database
InterPro
WormPD
YPD
RNA
RNA Abundance
RNAi
RNA World Website (links to databases, web tools and more)
Research in Progress
CRISP Computer Retrieval of Information on
Scientific Projects
NIST ATP funded projects database (National Institute of Standards & Technology,
Advanced Technology project)
SBIR and STTR Award Data (Small Business Innovation Research & Small Business
Technology Transfer) See also CRISP.
SNPs See Variations
Sequences
AA Index
Celera Genomic Reference Database
DDBJ DNA DataBank Japan (xref EMBL, GenBank)
dbEST Database of Expressed Sequence Tags
EMBL European Molecular Biology Laboratory (xref DDBJ, GenBank)
Entrez Nucleotide
Entrez Sequences
GDB Genome DataBase
GSDB Genome Sequence DataBase
GenBank (xref DDBJ, EMBL)
GSS Genome Survey Sequences
HTGs High throughput Genome Sequences
Human Genome Sequencing
International Nucleotide DataBase
Kabat Database of Sequences of Proteins of immunological Interest
LifeSeq
NDB Nucleic Acid Database
OWL
PDB Protein Data Bank
PIR Protein Information Resource
Protein Sequence Database SEE PIR
RefSeq
SWISS-PROT
TIGR Gene Indexes
Transterm
TrEMBL
Servers
Amino Acid Server
DBGET/Link GenomeNet
Dali
Entrez (NCBI)
ExPASy Expert Protein Analysis System
MIPS Munich Information center for Protein Sequences
NCBI National Center for Biotechnology Information
RCSB Research Collaboratory for Structural Bioinformatics
SRS Sequence Retrieval System
Signal
transduction
BRITE
CSNDB
KEGG
SPAD
Transpath
Transgenics See also
Model Organisms, Variations
Induced Mutant Resource
MKMD Mouse Knockout and Mutation Database
OmniBank
TBASE Transgenic/Targeted mutation dataBase
Transgenic and Targeted Mutant Animal Database See TBASE
Variations
(alleles, mutations, polymorphisms, SNPs) See also Diseases, Genes, Gene
Expression
ALFRED Allele FREquency Database
CEPH
Celera SNP
dbSNP Database of Single Nucleotide Polymorphisms
Genotype DB
Genetic Annotation Index (GAI)
GOBASE [organelle Genome]
HGBASE Human Genic Bi-Allelic Sequence Database
HUGO Mutation Database Initiative
HuGE Net Human Genome Epidemiology Network
Human SNP Database
MITOMAP Mitochondrial Genome
Mitelman Cancer Chromosomal Aberration Summary
Molecular Effects of Drugs
OMIA Online Mendelian Inheritance in Animals
OMIM Online Mendelian Inheritance in Man (subset)
OMIM Locus Specific Mutation Databases (links)
PMD Protein Mutant Database
SNP Consortium
Single Nucleotide Polymorphisms in the Human Genome
XREFdb
Vectors
UniVec
VecScreen (software tool)
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