Bioinformatics World    

Alphabetical List

"I know the name of a bioinformatics resource and I want to check where
it is described within the Bioinformatics World - Main Index."

A to Z

This section lists all resources which are included in the pages of the Main Index in alphabetical order, which can be especially useful in those cases where a classification of a certain program or database is ambiguous. A link does not lead to the resource itself but to the respective chapter on Bioinformatics World, allowing a quick-access to its description. Please note that several resources are listed on more than one page of Bioinformatics World, but the link always opens the "main section".        

Total number of entries: 674

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1-9

2can (EBI)
2ZIP (Max Planck Institute for Molecular Genetics)
A
        
ABIM (Atelier BioInformatique de Marseille)
ABIVIEW (EMBOSS, Pasteur)
AceView (NCBI)
AEdb (EBI)
Affymetrix, Inc. (Santa Clara, CA, USA)
Alifold (TBI, University of Vienna)
ALIGN (GENESTREAM)
AlignACE (Harvard University)
AltExtron (EBI)
AltPas (EBI)
AltSplice (EBI)
AltTrans (EBI)
AltTss (EBI)
AmiGO (GO Consortium)
ANN-Spec (CBS, Denmark)
ANTIGENIC (EMBOSS, Pasteur)
Applied Bioinformatics (Open Mind Journals)
ARED (KFSH&RC, Riyadh, Saudi Arabia)
ArrayExpress (EBI)
ASD - Alternative Splicing Database (EBI)
ASG - Alternative Splicing Gallery (NC State University)
ASmodeler (ECgene)
ATD - Alternate Transcript Diversity Database (EBI)
AVID (TOUCAN)
   
B
    
BACKTRANSEQ (EMBOSS, Pasteur)
BankIt (GenBank)
BCM Search Launcher (Baylor College of Medicine)
Bergen University (Denmark) 
BiblioSphere PathwayEdition (Genomatix Inc., Munich, Germany)
BIND (Blueprint, Toronto, Canada)
BIND IDs (Blueprint, Toronto, Canada)
BioCarta Pathways (BioCarta, Inc., San Diego, USA)
BioCarta Pathways on CGAP (CGAP, NCI)
BioCyc (SRI International)
BioCyc IDs (SRI International)
BioEdit (Ibis Therapeutics, Carlsbad)
Bioinformatic Harvester (EMBL)  
Bioinformatics (Oxford University Press)
Biology Workbench (SDSC)
BioMart (EBI+CSHL) 
BioMart Central Server (EBI+CSHL)
BioMed Central (London, UK)
Bioperl.org (consortium)
BioPlanet (forum)
BIOSED (EMBOSS, Pasteur)
BLAST (EBI) 
BLAST (EMBnet.ch) 
BLAST (NCBI) 
BLAST2sequences (NCBI)
BLAST-Oligo (NCBI)
BLAST-Peptide (NCBI) 
BLAST the Human Genome (NCBI)
BLASTView  (Ensembl: EMBL, Sanger)
BLASTZ (TOUCAN)
BLAT (UCSC) 
BLink (NCBI)
BLOCKS server (Fred Hutchinson Cancer Research Center)
BLOCKS - 3D Blocks (FHCRC)
BLOCKS - Block Maker (FHCRC)
BLOCKS - Block Searcher (FHCRC)
BLOCKS - COBBLER (FHCRC)
BLOCKS - CODEHOP (FHCRC)
BLOCKS - IMPALA (FHCRC)
BLOCKS - LAMA (FHCRC)
BLOCKS - Multiple Alignment Processor (FHCRC)
BLOCKS - RPS-BLAST (FHCRC) 
BLOCKS - SIFT (FHCRC)
BLOCKS - Trees from Blocks (FHCRC)
BMC Bioinformatics (Bio Med Central)
Bookshelf (NCBI)
Bos taurus (Cow) - genome resources
Boxshade (EMBnet.ch and Pasteur)
BRENDA (Cologne University, Germany)
Briefings in Bioinformatics (Henry Stewart Publications)
     
C
    
California Riverside University (USA)
Cancer Chromosomes (NCBI Entrez)
CAP (EMBOSS, Pasteur)
CCDS (EBI, NCBI, UCSC, Sanger)
CCDS IDs (EBI, NCBI, UCSC, Sanger)
CDART - Conserved Domain Architecture Retrieval Tool (NCBI)
CDD - Conserved Domain Database (NCBI)
cDNA xProfiler (CGAP, NCI)
C.elegans (Worm) - genome resources
CELERA Genomics (Rockville, MD, USA)
CENSOR (GIRI, USA)
CGAP - Cancer Genome Anatomy Project (NCI)
CGAP Batch Gene Finder (CGAP, NCI)
CGAP Chromosomes (CGAP, NCI)
CGAP Gene Finder (CGAP, NCI)
CGAP Genes (CGAP, NCI)
CGAP GO Browser (CGAP, NCI)
CGAP Pathways (CGAP, NCI)
CGAP Tissues (CGAP, NCI)
CGAP Tools (CGAP, NCI)
CHAOS (Berkeley)
ChEBI (EBI)
ChEBI IDs (EBI)
Cheminformatics.org (Cambridge University, UK)
Chime (MDL)
Chromas (Technelysium)
CINEMA (Manchester University)
CIRDNA (EMBOSS, Pasteur)
CleanEx (SIB)
CleanEx IDs (SIB)
ClustalW (EBI)
ClustalW (EMBnet.ch)
ClustalW-XXL (EMBnet.ch)
Cluster (University of Tokyo)
Cluster-Buster (Zlab, Boston University)
CMS MBR (Univ. of California)
Cn3D (NCBI)
COG and KOG (NCBI)
COMPEL (GRESA group , ICG, Novosibirsk and GBF, Braunschweig, Germany)
CompelPatternSearch (GRESA group , ICG, Novosibirsk and GBF, Braunschweig, Germany)
CONS (EMBOSS, Pasteur)
Consensus (RSAT)
Consensus (Washington University in St.Louis)
Consensus Match (TOUCAN)
ConSite (CGB, Karolinska)
CPHmodels (CBS, Denmark)
CREB Target Gene Database (Salk Institute, La Jolla, CA)
CREME (Dcode.org, Lawrence Livermore National Lab)
cSNP Analysis (Applied Biosystems)
CUBIC - Columbia University Bioinformatics Center (Columbia University, New York) 
CUTSEQ (EMBOSS, Pasteur)
Cutter (Tours University, France)
CVCGD - Cardiovascular Comparative Genomics Database (Lawrence Berkeley Laboratory) 
CYGD - Comprehensive Yeast Genome Database (MIPS, Munich, Germany)
          
D
    
Danio rerio (Zebrafish) - genome resources
DAVID (NCI-Frederick)
DBA - DNA Block Aligner (EBI)
DbClustal (EBI)
Dbfetch (EBI)
dbSNP (NCBI)
dbSNP IDs (NCBI)
DBTSS - Database of Transcriptional Start Sites (Tokyo University)
DBTSS - Search for TF Binding Site (Tokyo University)
Dcode.org - Tools for comparative genomics (Lawrence Livermore Nat. Lab)
DDBJ (NIG)
DEGAPSEQ (EMBOSS, Pasteur)
DGED (CGAP, NCI)
DIALIGN (EMBOSS, Pasteur)
DiAlign (Genomatix Inc., Munich, Germany)
DiAlignTF (Genomatix Inc., Munich, Germany)
DIFFSEQ (EMBOSS, Pasteur)
DIGEST (EMBOSS, Pasteur)
DigiNorthern (Roswell Park Cancer Institute)
DIP - Database of Interacting Proteins (UCLA)
DiseaseInfo Viewer (H-InvDB)
DisEMBL (EMBL)
DNA-pattern (RSAT)
DOAJ - Directory of Open Access Journals (Lund University Libraries, Sweden)
Dragon Promoter Finder (KEL, Singapore)
Drosophila melanogaster (Fruitfly) - genome resources
Dyad-analysis (RSAT)
   
E

EBI (European Bioinformatics Institute)
EBI Databases (EBI)
EBI MartView (EBI)
EBI Services (EBI)
EBI Site Map (EBI)
EBI Toolbox (EBI)
ECfunction (ECgene)
ECgene (Ewha Womans University, Seoul, Korea)
ECgene Browser (ECgene)
ECprofiler (ECgene)
ECR Browser (Dcode.org, Lawrence Livermore National Lab)
Education (NCBI)
EEL - Enhancer Element Locator (University of Helsinki)
EGO - Eukaryotic Gene Orthologs (TIGR)
EINVERTED (EMBOSS, Pasteur)
Eisen Lab (Lawrence Berkeley Laboratory)
ElDorado (Genomatix Inc., Munich, Germany)
ELM - Eukaryotic Linear Motif Resource (EMBL and others)
EMBL-Bank (EBI)
EMBnet.ch (Swiss EMBnet node) 
EMBOSS (SOURCEFORGE.net)
EMBOSS-Align (EBI)
EMMA (EMBOSS, Pasteur)
ENCODE - ENCyclopedia Of DNA Elements (NIH and others)
ENCODE at Ensembl (Ensembl)
ENCODE at UCSC (UCSC)
Endothelial Cell biology - microarray datasets
Ensembl - basic search (EBI + Sanger) 
Ensembl Databases (EBI+Sanger)
Ensembl Human Genome Database (EBI + Sanger) 
Ensembl IDs (EBI+Sanger)
Ensembl MartView (Ensembl)
EnsMart (Ensembl: EBI + Sanger)
Entrez (NCBI) 
Entrez Gene (NCBI)
Entrez Gene IDs (NCBI)
Entrez Genome (NCBI)
Entrez Genome Project (NCBI)
Entrez Journals (NCBI)
Entrez SNP (NCBI)
ENZYME (ExPASy)
ENZYME IDs (ExPASy)
EPCLUST (Expression Profiler, EBI)
EP:GO (Expression Profiler, EBI)
e-PCR (NCBI)
EPD - Eukaryotic Promoter Database (SIB)
EPO - European Patent Office (Munich, Germany)
Eponine (Sanger)
EQUICKTANDEM (EMBOSS, Pasteur)
ER-GolgiDB (Columbia University, New York) 
eShadow (Dcode.org, Lawrence Livermore National Lab)
Essential Codes for Molecular Biology (Oxford University)
ESTexpress (ECgene, Ewha Womans University, Seoul, Korea)
ETANDEM (EMBOSS, Pasteur)
ExPASy (SIB) 
ExPASy Site Map (SIB)
Expression Profiler (EBI)
Expression Profiler: Next Generation (EP:NG) (EBI)
EXTRACTSEQ (EMBOSS, Pasteur)
  
F

Fasta (EBI) 
FastM (Genomatix Inc., Munich, Germany)
Fetch (EMBnet.ch)
FIE - 5'-End Information Extraction (KEL, Singapore)
FindExplanators (Washington University)
FirstEF (CSHL)
FlyBase (consortium)
FootPrinter (TOUCAN)
FootPrinter (Washington University)
FPS - Family Pairwise Search (SDSC)
FrameWorker (Genomatix Inc., Munich, Germany)
FUZZNUC (EMBOSS, Pasteur)
               
G

GAD - Genetic Association Database (NIH)
GDB - Human Genome Database (RTI International, North Carolina, USA)
GEArray products (SuperArray Bioscience Corporation)
GEECEE (EMBOSS, Pasteur)
GenBank (NCBI)
GenBank IDs (NCBI)
Gene2Promoter (Genomatix Inc., Munich, Germany)
GeneCards (Weizmann Institute)
GeneCards IDs (Weizmann Institute)
GeneLynx (Karolinska)
GeneMark (EBI)
GeneNest (Max Planck Institute for Molecular Genetics)
GeneNote (Weizmann Institute)
Gene Ontology Consortium (consortium)
Gene Ontology Assignments (TIGR)
Genetic Code Viewer (EBI)
Genew - Human Gene Nomenclature Database (HGNC)
GENIO/logo (Stuttgart University)
Genomatix (Genomatix Inc., Munich, Germany)
Genome Alignment (Dcode.org, Lawrence Livermore National Lab)
Genome Atlas Database (CBS, Denmark)
Genome Channel (ORNL)
GENOMES (Expression Profiler, EBI)
Genome-scale DNA-pattern (RSAT)
Genome-scale Patser (RSAT)
GenomeVISTA (Lawrence Berkeley Laboratory)
GenomeWeb (RFCGR, UK)
Genomic Biology (NCBI)
GENPEPT (NCBI)
GENSCAN (MIT)
GEO - Gene Expression Omnibus (NCBI)
GEO IDs (NCBI)
GFP-cDNA (EMBL and DKFZ)
GIBBS (Pasteur) 
Gibbs Motif Sampler (Wadsworth Center, New York)
Gibbs Sampler (RSAT)
GLAM (Zlab, Boston University)
GlobPlot (EMBL)
Glovar (Sanger)
GLS (CGAP, NCI)
GNF Gene Expression Atlas (Novartis)
GOA (EBI)
GO IDs (AmiGO)
GOLD - Genomes OnLine Database (Lawrence Berkeley Laboratory and others)
Google Scholar (Google)
GOTM (Vanderbilt University, Tennessee)
GPD - Genomatix Promoter Database (Genomatix Inc., Munich, Germany)
Gramene MartView (consortium)
GXD - Gene Expression Database (Jackson Laboratory, Maine, USA)
   
H

H-ANGEL (H-InvDB)
HapMap (CSHL and many others)
HapMart (CSHL and many others)
HelixTurnHelix (EMBOSS, Pasteur)
HGMD - The Human Gene Mutation Database (University of Wales)
HGMD IDs (University of Wales)
HGNC - HUGO Gene Nomenclature Committee (University College London)
HGSC - Human Genome Sequencing Center (Baylor College of Medicine)
HGVbase (EBI and others)
HiMAP - Human Interactome Map (University of Michigan)
H-InvDB (JBIRC + DDBJ)
H-InvDB IDs (JBIRC + DDBJ)
HMMER (EMBOSS, Pasteur)
HomoloGene (NCBI)
HPR - Human Protein Atlas (HPR program, Sweden)
HPR IDs (HPR program, Sweden)
HPRD - Human Protein Reference Database (Johns Hopkins School of Medicine, Baltimore, and Institute of Bioinformatics, Bangalore, India)
HPRD IDs (Johns Hopkins School of Medicine, Baltimore, and Institute of Bioinformatics, Bangalore, India)
HUGO (organisation)
HumanCyc (SRI International)
Human Genome Resources (NCBI)
     
I

ICB (Weill Medical College of Cornell University)
ID Mapping (PIR)
iHOP (Protein Design Group, National Center of Biotechnology, Madrid, Spain)
Immunology and Inflammation - microarray datasets
Improbizer (UCSC)
IntAct (EBI)
IntAct IDs (EBI)
Integr8 (EBI)
IntEnz (EBI)
IntEnz IDs (EBI)
InterPro (EBI) 
InterPro IDs (EBI)
iPfam (Sanger)
IPI - International Protein Index (EBI)
IPI IDs (EBI)
IUPAC Nucleotide and Amino Acid Codes (2can, EBI)
IUPAC Periodic Table of the Elements (IUPAC)
        
J

Jalview (University of Dundee, Scotland)
JASPAR (CGB, Karolinska)
JASPAR IDs (CGB, Karolinska)
JBCB - Journal of Bioinformatics and Computational Biology (World Scientific Publishing)
J-Express (Bergen University) and J-Express Pro (MolMine software solutions)
JPRED2 (EBI)
   
K

K-Browser (Berkeley)
KEGG - Kyoto Encyclopedia of Genes and Genomes (Kyoto University)
KegArray (KEGG)
KEGG BRITE (KEGG)
KEGG DBGET (KEGG)
KEGG EXPRESSION (KEGG)
KEGG GENES (KEGG)
KEGG IDs (Kyoto University)
KEGG KAAS-KEGG Automatic Annotation Server (KEGG)
KEGG LIGAND (KEGG)
KEGG ORTHOLOGY (KO) (KEGG)
KEGG PATHWAY (KEGG)
KEGG Pathways on CGAP (CGAP, NCI)
KEGG SSDB (KEGG)
Kyoto University Bioinformatics Center (Kyoto, Japan)
  
L

LabOnWeb (Compugen)
LAGAN Alignment Toolkit (Stanford )
LAGAN (Stanford)
LAGAN - Multi-LAGAN (Stanford)
LAGAN - Shuffle-LAGAN (Stanford)
LAGAN (TOUCAN)
LALIGN (EMBnet.ch)
LINDNA (EMBOSS, Pasteur)
LOCtarget (Columbia University, New York) 
LocusLink (NCBI)
LOGOS from BLOCKS (FHCRC)
LOGOS from MEME (SDSC)
LOGOS from MotifSampler (Leuven Katholieke Universiteit, Belgium)
LOGOS from SEQLOGO (EBI)

M
  
Macaca mulatta (Rhesus monkey) - genome resources
MapView (Ensembl: EMBL, Sanger)
Map Viewer (NCBI)
MAR-Wiz (Futuresoft Corp., USA)
Match (BIOBASE)
MATCHER (EMBOSS, Pasteur)
MatDefine (Genomatix Inc., Munich, Germany)
MatInspector (Genomatix Inc., Munich, Germany)
MAVID (Berkeley)
MedDB (Medical University of Vienna, Austria)
Medical University Vienna - Library Browsers (Medical University of Vienna, Austria) 
MegaBLAST (NCBI)
MEGAMERGER (EMBOSS, Pasteur)
MEME / MAST (SDSC)
MERGER (EMBOSS, Pasteur)
MetaCyc (SRI International)
META PP (Columbia University, New York)
Mfold (RPI, Troy, New York)
Mfold web server (RPI, Troy, New York)
MGD - Mouse Genome Database (Jackson Laboratory, Maine, USA)
MGED - Microarray Gene Expression Data Society (EBI and others)
MGI - Mouse Genome Informatics (Jackson Laboratory, Maine, USA)
MGI IDs (Jackson Laboratory, Maine, USA)
MGS - Mouse Genome Sequence Project (Jackson Laboratory, Maine, USA)
MIAME (MGED - Microarray Gene Expression Data Society)
miRBase (Sanger)
miRBase IDs (Sanger)
MITOMAP (NIH)
MMDB (NCBI) 
MMDB IDs (NCBI)
ModelInspector (Genomatix Inc., Munich, Germany)
ModuleScanner (TOUCAN)
ModuleSearcher (TOUCAN)
MotifLocator (TOUCAN)
Motif Matcher (UCSC)
MotifSampler (TOUCAN)
Motif Scan (MyHits, SIB)
MotifScanner (TOUCAN)
MSCAN (CGB, Karolinska)
MSD - Macromolecular Structure Database (EBI)
MULAN (Dcode.org, Lawrence Livermore National Lab)
MultiPipMaker (Penn State)
multiTF (Dcode.org, Lawrence Livermore National Lab)
MUSCLE (EBI)
Mus musculus (Mouse) - genome resources
mVISTA (Lawrence Berkeley Laboratory)

N

NAR (Nucleic Acids Research) (bioinformatics issues)
NATURE Human Genome Collection (Nature Publishing Group)
NCBI (National Center of Biotechnology Information, Bethesda, USA)
NCBI Resource Guide (NCBI)
NCBI Site Map (NCBI)
NCI60 - Cancer Microarray Project (Stanford and others)
NEEDLE (EMBOSS, Pasteur)
NESbase (CBS, Denmark)
NetAffx (Affymetrix)
NetChop (CBS, Denmark)
NetGene2 (CBS, Denmark)
NetNglyc (CBS, Denmark)
NetOglyc (CBS, Denmark)
NetPhos (CBS, Denmark)
NetStart (CBS, Denmark)
NMP-db (Columbia University, New York) 
NNPP - Neural Network Promoter Prediction (Berkeley)
NRNUC (NCBI)
NRPEP (NCBI)
     
O

OBO - Open Biomedical Ontologies (SourceForge.net)
Oligo-analysis (RSAT)
OMIM (NCBI)
OMIM IDs (NCBI)
Oncomine (University of Michigan)
ORF Finder (NCBI)
OTFBS - Over-represented Transcription Factor Binding Site Prediction Tool (Institute of Bioinformatics, Tsinghua University, Beijing, China)

P

PALINDROME (EMBOSS, Pasteur)
PANTHER (Applied Biosystems)
Pan troglodytes (Chimpanzee) - genome resources
PASTESEQ (EMBOSS, Pasteur)
Pasteur Institute (Pasteur, Paris)
Patch (BIOBASE)
PATMATCH (Expression Profiler, EBI)
PatSearch (ITB, Bari, Italy)
Patser (RSAT)
Pattern-Assembly (RSAT)
Pattern Search (PIR)
PDB - Protein Data Bank (RCSB)
PDB IDs (RCSB)
pDRAW32 (AcaClone software)
PepCoil (EMBOSS, Pasteur)
PEPSTATS (EMBOSS, Pasteur)
PeptideCutter (ExPASy)
Peptide Match (PIR)
PESTFIND and EPESTFIND (EMBOSS, Pasteur)
PESTfind Analysis Webtool (EMBnet Austria)
Pfam (Sanger) 
PfamAlyzer (CGB, Karolinska)
Pfam IDs (Sanger)
PharmGKB (Stanford)
PharmGKB IDs (Stanford)
PharmGKB Pathways (Stanford)
PHI-BLAST (NCBI)
PHYLIP (Washington University, Seattle)
PHYLIP (Pasteur)
PhyloBlast (University of British Columbia, Vancouver, Canada)
PhyloCon (Washington University in St.Louis)
PhyloVISTA (Lawrence Berkeley Laboratory)
PicTar (New York University)
pI/MW (ExPASy)
PipMaker (Penn State)
PIR (Georgetown University Medical Center, Washington)
PLoS Computational Biology (Public Library of Science)
P-Match (BIOBASE)
PolyA_DB (University of Medicine and Dentistry of New Jersey)
PolyA_DB IDs (University of Medicine and Dentistry of New Jersey)
PPSearch (EBI)
PredictNLS (Columbia University, New York) 
PredictProtein (Columbia University, New York) 
PRESTA - PRomoter EST Association (Academy of Sciences of the Czech Republic)
Primer3 (Whitehead Institute) and EPRIMER3 (EMBOSS, Pasteur)
PrimerBank (Harvard Medical School)
PRINTS (Manchester University)
PRINTS IDs (Manchester University)
PromoSer (Zlab, Boston University)
Promoter2.0 (CBS, Denmark)
PromoterInspector (Genomatix Inc., Munich, Germany)
Promoter Scan (BIMAS, NIH)
PROSITE (ExPASy)
PROSITE IDs (ExPASy)
ProtComp (Softberry)
Protein Colourer (EBI)
Protein Duster (UCSC)
Protein Explorer (Massachusetts University)
Proteome BioKnowledge Library (Incyte)
Prowler (Applied Biosystems)
PRSS3 (EMBnet.ch)
PSI-BLAST (NCBI) 
PSORT (Tokyo University)
PubChem (NCBI)
PubChem BioAssay (NCBI)
PubChem Compound (NCBI)
PubChem IDs (NCBI)
PubChem Substance (NCBI)
PubCrawler (Trinity College Dublin, Ireland)
PubMed (NCBI) 
PubMed Central (U.S. National Library of Medicine, NIH)
PubReMiner (AMC, Amsterdam, Netherlands)
    
Q

QuickGO (EBI)

R

Random Genes (RSAT)
Random Sequence (RSAT)
RandSeq (ExPASy)
RasMol (Massachusetts University)
Rattus (Rat) - genome resources
Reactome (CSHL, EBI, GO Consortium)
Reactome IDs (CSHL, EBI, GO Consortium)
READSEQ (BIMAS, NIH)
REBASE (NEB)
RefSeq (NCBI)
RefSeq IDs (NCBI)
REMAP (EMBOSS, Pasteur)
Repbase (GIRI, USA)
RepeatMasker (ISB, Seattle)
REPEATS (EMBOSS, Pasteur)
RESID Database (EBI and NCIFCRF)
RESID IDs (EBI and NCIFCRF)
RestrictionMapper (?)
Resourcerer (TIGR)
REVSEQ (EMBOSS, Pasteur)
Rfam (Sanger and Washington University)
Rfam IDs (Sanger and Washington University)
RGD - Rat Genome Database (Wisconsin Medical College)
RNAfold (TBI, University of Vienna)
RNAi on CGAP (CGAP, NCI)
RNAinverse (TBI, University of Vienna)
RNA World Website (IMB, Jena, Germany)
RSAT - Regulatory Sequence Analysis Tools (SCMBB, Brussels University)
RSAT-Retrieve Sequence (RSAT)
rVISTA (Dcode.org, Lawrence Livermore National Lab)
rVISTA (Lawrence Berkeley Laboratory)
S

Saccharomyces cerevisiae (Bakers Yeast) - genome resources
SAGE DGED (CGAP, NCI)
SAGEexpress (ECgene, Ewha Womans University, Seoul, Korea)
SAGE Genie (CGAP, NCI)
SAGEmap (NCBI) 
SANBI (South African National Bioinformatics Institute)
Sanger Institute (Cambridge, UK)
Sanger Databases (Sanger)
Sanger Site Map (Sanger)
SAPS (SIB) 
SAV (CGAP, NCI)
ScanPROSITE (ExPASy)
Scansite (MIT)
Science Primer (NCBI)
SCOP (MRC, Cambridge, UK)
SEQLOGO (EBI)
SEQMATCHALL (EMBOSS, Pasteur)
Sequence Logos Gallery (NCI)
Sequence Manipulation Suite (University of Alberta)
SequenceShaper (Genomatix Inc., Munich, Germany)
Sequin (GenBank)
SeWeR (Pasteur)
SHUFFLESEQ (EMBOSS, Pasteur)
SIB (Swiss Institute of Bioinformatics)
siDESIGN (Dharmacon, Inc., Chicago)
SignalP (CBS, Denmark)
Signal Scan (BIMAS, NIH)
siRNA selector (Wistar Inst., Philadelphia)
SIXPACK (EMBOSS, Pasteur)
SkyPainter (Reactome)
SMART (EMBL)
SMART IDs (EMBL)
SMARTest (Genomatix Inc., Munich, Germany)
SMD-Stanford Microarray Database (Stanford) 
SNP500Cancer (CGAP, NCI)
SNP Consortium (CSHL and many others)
SNPInspector (Genomatix Inc., Munich, Germany)
SOSUI (Tokyo University of Agriculture and Technology) 
SOURCE (Stanford) 
SPEXS (EBI)
SpliceNest (Max Planck Institute for Molecular Genetics)
SPRINT (PRINTS, Manchester University)
SRS - Sequence Retrieval System (LION)
SSAHA (Ensembl)
STACK (SANBI)
Stress response - microarray datasets
STRETCHER (EMBOSS, Pasteur)
STRING (EMBL)
SuperArray Bioscience Corporation (Frederick, MD, USA)
Superfamily (MRC, Cambridge, UK)
Sus scrofa (Pig) - genome resources
SWBIC (New Mexico State University) 
Swiss-Model (ExPASy) 
Swiss-Pdb Viewer - DeepView (ExPASy) 
Swiss-Prot / UniProt (SIB, EBI)
Swiss-Prot IDs (SIB)
SynoR (Dcode.org, Lawrence Livermore National Lab)
    
T

TACG - Restriction Enzyme analysis (EMBOSS, Pasteur)
Target Explorer (Columbia University)
TargetP (CBS, Denmark)
TargetScan (MIT)
Taxonomy Browser (NCBI)
TCoffee (EBI)
TCoffee (EMBnet.ch)
TELiS - Transcription Element Listening System (UCLA, Los Angeles)
TESS - Transcription Element Search Software (Pennsylvania University)
TFSEARCH (CBRC, Japan)
Three To One (University of Alberta)
TIGR CMR - Comprehensive Microbial Resource (TIGR)
TIGR Eukaryotic Projects (TIGR)
TIGR Fungal Databases (TIGR)
TIGR Gene Indices (TIGR)
TIGR Genome Projects (TIGR)
TIGR Parasites Databases (TIGR)
TIGR UFMG - Unfinished Microbial Genomes (TIGR)
TIGRFAMs (TIGR)
TMAP (Karolinska Institute, Sweden)
TMHMM (CBS, Denmark)
TMPred (EMBnet.ch)
TNFa / NF-kB pathway (Cellzome, Heidelberg, Germany)
TOPO Viewer (H-InvDB)
TopPred2 (EMBOSS, Pasteur)
TOUCAN (Leuven Katholieke Universiteit, Belgium)
TPA - Third Party Annotation dataset (EBI)
Trace Archive (NCBI)
TraceView (Ensembl)
TRANSCompel (BIOBASE, Germany)
TRANSEQ (EMBOSS, EBI)
TRANSFAC (BIOBASE, Germany)
TRANSFAC IDs (BIOBASE, Germany)
Translate Tool (ExPASy)
TRANSPATH (BIOBASE, Germany)
TRASER (Stanford)
Tree of Life (consortium)
TrEMBL / UniProt (EBI)
TrEMBL IDs (EBI)
TRES - Transcription Regulatory Element Search (Singapore University)
TRIMEST (EMBOSS, Pasteur)
TRIMSEQ (EMBOSS, Pasteur)
TRRD (ICG, Novosibirsk)
    
U

UCSC Gene Sorter (University of California, Santa Cruz, UCSC)
UCSC Genome Bioinformatics (UCSC)  
UCSC Genome Browser Gateway (UCSC)
UCSC In silico PCR (UCSC)
UCSC Proteome Browser Gateway (UCSC)
UCSC Table Browser (UCSC)
UCSC VisiGene (UCSC)
UniGene (NCBI)
UniGene IDs (NCBI)
UniProt (EBI + SIB +PIR)
UniProt IDs (EBI + SIB +PIR)
UniSTS (NCBI)
UTRdb (ITB, Bari, Italy)
UTResource (ITB, Bari, Italy)
UTRScan (ITB, Bari, Italy)
UTRSite (ITB, Bari, Italy)
         
V

Vascular Biology - proteomics datasets
Vascular proteomics (Department of Cardiovascular Medicine, St George's Hospital Medical School, London)
VAST - Vector Alignment Search Tool (NCBI) 
VecScreen (NCBI)
VEGA (Sanger)
VEGA IDs (Sanger)
VEGA Human Genome Browser (Sanger)
Vienna RNA Package (TBI, University of Vienna)
Vienna RNA secondary structure server (TBI, University of Vienna)
VISTA - Visualization Tools for Alignments (Lawrence Berkeley Laboratory)
VISTA Browser (Lawrence Berkeley Laboratory)
   
W

WATER (EMBOSS, Pasteur)
WebGene (ITB)
WebGestalt (Vanderbilt University, Tennessee)
WebLogo (Berkeley)
WebPHYLIP (Nebraska-Lincoln University)
WeederWeb (Pesole-Lab, Milan University, Italy)
Weizmann Institute of Science (Rehovot, Israel)
Whole Genome rVISTA (Lawrence Berkeley Laboratory)
Wise2 (EBI) 
WORDCOUNT (EMBOSS, Pasteur)
WORDMATCH (EMBOSS, Pasteur)
WormBase (consortium)
WormBase MartView (consortium)
WTCHG (Oxford, UK)
wwPDB (RCSB, EBI, PDBj)
  
X

Xenopus (Clawed Frog) - genome resources
    
Y

YMF (Washington University)

Z

Zeon (WTCHG)
Zlab (Boston University)
Zlab Gene Regulation Hub (Zlab, Boston University)
Zlab-Links (Zlab, Boston University)
zPicture (Dcode.org, Lawrence Livermore National Lab)
Zuker Group (RPI, Troy, New York)

























       








  Bioinformatics World was developed by Herbert Mayer, Medical University of Vienna, Austria (2001-2006)