16S and 23S Ribosomal RNA Mutation
Database Triman, K.L.
16S and 23S ribosomal RNA mutations
database
summary
2D-PAGE Pleissner,
K.-P., Eifert, T., Buettner, S., Knipper, J., Schmelzer, P., Stein, R.,
Schmidt, F., Mattow, J., Zimny-Arndt, U., Schmid, M., Jungblut, P.R.
Proteome database system for microbial research
database
summary
3D-Genomics
Structural annotations for complete proteomes
database
summary
3DID - 3D interacting domains
Domain-domain interactions in proteins with known 3D structures
database summary
5'SAGE
5'-end serial analysis of gene expression
database summary
5S Ribosomal RNA Database
5S rRNA sequences
database summary
AAindex Katayama, T., Kawashima, S., Kanehisa, M.
Physicochemical and biological properties of amino acids
database summary
AANT - Amino Acid - Nucleotide
interaction database
Amino acid-nucleotide interaction database
database summary
AARSDB Szymanski,
M., Barciszewski, J.
Aminoacyl-tRNA synthetase sequences
database
summary
ABA - Ascidian Body Atlas Hotta, K.1,2, Tahakashi, H.3, Ueno, N.3,
Ikeo, K.1, Gojobori, T.1
A digital 3D atlas of ascidian embryo development
database
summary
ABCdb Quentin
Y., Basse, M-J., Fichant, G.
Archaeal and bacterial ABC transporters
database summary
ABS Blanco
E.1,2, Farre D.1,2, Alba M.1, Messeguer X.2
and Guigo R.1
Experimentally verified orthologous transcription factor binding sites
database
summary
ACeDB
C. elegans, S. pombe, and human sequences and genomic information
database summary
ACLAME - A Classification of Mobile
genetic Elements
A classification of genetic mobile elements
database summary
ACTIVITY
Functional DNA/RNA site activity
database
summary
ADDA - Automatic Domain Decomposition
Algorithm Andreas Heger and Liisa Holm
A database of protein domain families
database
summary
AffinDB
Affinity data for protein-ligand complexes
database summary
AGD - Ashbya Genome Database
Ashbya gossypii genome database
database summary
AGNS - Arabidopsis GeneNet
supplementary Omelyanchuk N.1,
Mironova V.1, Poplavsky A.1, Podkoldny N.1,
Kolchanov N.1, Mjolsness E.2 and Meyerowitz E.3
Gene expression and phenotypes of mutants and transgens
database summary
AGRIS - Arabidopsis Gene
Regulatory Information Server Davuluri RV1,
Sun H1, Palaniswamy SK1, Matthews N2, Molina C2,
Grotewold E2
Arabidopsis promoters, transcription factors and their target genes
database
summary
ALFRED Rajeevan,
H.1, Cheung, K.-H.2, Osier, M.V.2,Deng, H.1,
Kidd, J.R.1, Stein, S.1, Pakstis, A.J.1,
Tosches, N.P. 2, Miller, P.L.2, Kidd, K.K.1
Allele frequencies and DNA polymorphisms
database summary
AllGenes Barkan, D., Belova, O., Brunk, B., Crabtree, J., Elisafenko, E.,
Fischer, S., Gan, Y., Gubina, M., Katokhin, A., Kolchanov, N., Mazzarelli, J.,
Nadezhda, L., Nizolenko, L., Pinney, D., Schug, J., Semjonova, E., Shilov, A.,
Skvortzova, T., Stoeckert, C., Trifonoff, V., Zykov, I.
Human and mouse gene index integrating gene, transcript, and protein annotation
database summary
ALPSbase
Autoimmune lymphoproliferative syndrome database
database
summary
AluGene
Complete Alu map in the human genome
database summary
AlzGene Bertram
L.1, Mullin K.1, McQueen M.1, Blacker D.1,
Tanzi R.E.1, Kinoshita J.2, Noyes P.2, Knep C.2
A database of all published Alzheimer’s disease genetic association studies
database summary
aMAZE
A system for the annotation, management, and analysis of biochemical and
signalling pathway networks
database summary
Androgen Receptor Gene Mutations
Database Gottlieb, B.
Mutations in the androgen receptor gene
database summary
AngioDB Tae-Kwon
Sohn1, Jaehyuk Cha2, Yong S. Choi3, Youjip Won4,
Seok-Ki Lee1, Sung-yong You1, Sangback Ma5,
Eun Bae Kong6, Hwangu Lee3, Seung-Hui Kang1
and Kyu-Won Kim1
Database of angiogenesis and angiogenesis-related molecules
database summary
AntiJen Toseland
C.P., Clayton D.J., McSparron H., Hemsley S.L., Blythe M.J., Paine K.,
Doytchinova I.A., Guan P., Hattotuwagama C.K. and Flower D.R.
Quantitative binding data for peptides and proteins of immunological interest
database summary
ANTIMIC
Database of natural antimicrobial peptides
database
summary
AOBase X.C.
Bo, S.K. Lou, D.C. Sun, J. Yang, S.Q. Wang
Antisense oligonucleotide selection and design
database summary
APD - Antimicrobial Peptide Database
Antimicrobial peptide database
database summary
ApiEST-DB - Apicomplexan EST Database
EST sequences from various apicomplexan parasites
database summary
AppaDB
A database on the nematode Pristionchus pacificus
database summary
Aptamer Database Lee J.1, Hesselberth J.2, Meyers L.3,
Ellington A.1
A database on aptamers, small RNA (or DNA) molecules capable of binding nucleic
acids, proteins, etc.
database summary
Arabidopsis MPSS
Arabidopsis gene expression detected by massively parallel signature
sequencing
database summary
Arabidopsis Nucleolar Protein Database
Comparative analysis of nucleolar proteomes of human and Arabidopsis
database
summary
ARAMEMNON Schwacke, R.1, Schneider, A.1, van der Graaff, E.1,
Desimone, M.2, Frommer, W.B.2,3, Flügge, U.I.1,
Kunze, R.1
Arabidopsis thaliana membrane proteins and transporters
database
summary
Archaeal Genome Browser Schneider K.L., Pollard K.S., Baertsch R., Pohl A., and Lowe T.M.
The UCSC Archaeal Genome Browser
database summary
ArchDB Espadaler,
J. 1,2, Fernandez-Fuentes, N.1,3, Hermoso, A.1,
Querol, E.1, Aviles, F.X. 1, Sternberg, M.J.E.3,
Oliva, B.2
Automated classification of protein loop structures
database summary
ARED Bakheet,
T.1, Williams, B.2, Khabar, K.2
AU-rich element-containing mRNAs
database summary
Argonaute Shahi P.1,2,3, Loukianiouk S.1, Bohne-Lang A.1,
Kenzelmann M.2, Küffer S.2, Maertens S.2, Eils
R.3, Gröne H.J.2, Gretz N.2 and Brors B.3
Gene regulation by mammalian microRNAs
database
summary
ArkDB
Genome databases for farm and other animals
database summary
ArrayExpress Brazma, A., Parkinson, H., Sarkans, U., Shojatalab, M., Vilo, J.,
Abeygunawardena, N., Holloway, E., Kapushesky, M., Kemmeren, P., Garcia Lara,
G., Oezcimen, A., Sansone, S., Rocca-Serra, P.
Public collection of microarray gene expression data
database summary
ARTADEdb Toyoda T. and Mochizuki Y.
Transcriptional structures elucidated based on tiling arrays in Arabidopsis
database summary
ASAP - Alternative spliced isoforms
Alternative spliced isoforms
database summary
ASAP - A Systematic Annotation Package
Community analysis of E. coli and related genomes
database
summary
ASC - Active Sequence Collection Angelo Facchiano1, Antonio Facchiano2, Francesco
Facchiano2
Biologically-active short amino acid sequences
database
summary
ASD - Alternative Splicing Database
EBI's alternative splicing database project includes three databases:
AltSplice, AltExtron and AEdb
database summary
ASDB - Alternative Splicing Database
Protein products and expression patterns of alternatively-spliced genes
database summary
ASHESdb
Alternatively spliced human genes by exon skipping database
database
summary
ASPD Valuev,
V.P., Afonnikov D.A., Ponomarenko M.P., Kolchanov N.A.
Artificial Selected Proteins/Peptides Database
database
summary
ASRP - Arabidopsis Small RNA Project
Arabidopsis thaliana small RNA project
database summary
ASTRAL Chandonia,
J. M.1, Walker, N.2, Lo Conte, L.3, Koehl, P.4,
Levitt, M.4, Brenner, S. E.5
Sequences of domains of known structure, selected subsets, and
sequence-structure correspondences
database summary
ATD Gautheret
D.1, Bork P.2, Nardone F.3, Whitfield E.3,
Hide W.4, Guigo R.5, Vilo J.6 von Knebel
Döberitz M.7 and Reich J.8
Alternative Transcript Diversity database
database summary
AtGDB Schlueter,
S.D.1, Wilkerson, M.D.1, Brendel, V.1,2
Arabidopsis thaliana genome database
database summary
AthaMap
Genome-wide map of putative transcription factor binding sites in Arabidopsis
thaliana
database summary
Atlas of Genetics and Cytogenetics in
Oncology and Haematology Huret JL1,
Dessen P2, Bernheim A2
Chromosomal abnormalities in cancer
database
summary
Axeldb
Gene expression in Xenopus laevis
database
summary
BacMap
Picture atlas of annotated bacterial genomes
database
summary
BacTregulators (formerly AraC/XylS
database) Tobes, R.1, Molina-Henares,
A.2, Martínez-Bueno, M.2, Pareja E.3, Ramos,
J.L.2
A database of the AraC/XylS protein family of positive regulators in bacteria.
database summary
BAliBASE
Benchmark database for comparison of multiple sequence alignments
database
summary
BarleyBase Shen L.1, Gong J.1,5, Xin J.1,5, Caldo
R.A.2, Nettleton D.3, Cook D.3, Wise R.P.2,4
and Dickerson J.A.1,5
Expression profiling of plant genomes
database summary
BayGenomics Stryke D.1, Kawamoto M.1, Huang C.1,
Johns S.1, King L.1, Harper C.1, Meng E.1,
Lee R.1, Yee A.4, L'Italien L.4,
Chuang P.3, Young S.5, Skarnes W.6, Babbitt P.2,1,
Ferrin T.1,2
Genes relevant to cardiovascular and pulmonary disease
database summary
BCIpep Saha
S., Bhasin M. and Raghava G.P.S.
A database of B-cell epitopes
database
summary
BeetleBase
Genome database of the beetle Tribolium castaneum
database
summary
BGED - Brain Gene Expression Database Kato K., Matoba R., Saito S., Matsubara K.
Brain gene expression database
database
summary
BGI-RISe - Beijing Genomics Institute
Rice Information System
Integrated rice database
database summary
BIND - Biomolecular Interaction
Network Database Bader, G.D.1,
Donaldson, I.2, Wolting, C.2, Ouellette, B.F.F.3,
Pawson, T.1, Hogue, C.W.V.1
Molecular interactions, complexes, and pathways
database summary
BioCarta
Online maps of metabolic and signaling pathways
database
summary
BioCyc
Pathway/genome databases for many bacteria
database summary
BioGRID Stark
C.1, Breitkreutz B.-J.2, Reguly T.2, Boucher
L.2,3, Breitkreutz A.2 and Tyers M.2,3
Genetic and physical interactions in yeast, worm, fly and human
database summary
BioImage
Searchable database of multidimensional biological images
database summary
BioMagResBank Markley, J., Ulrich, E.
NMR spectroscopic data from proteins, peptides, and nucleic acids
database summary
BioModels Le Novere N.1, Bornstein B.2, Broicher A.1,
Courtot M.1, Donizelli M.1, Dharuri H.3, Lu Li1,
Sauro H.3, Schilstra M.4, Shapiro B.2, Snoep
J.L.5 and Hucka M.6
Mathematical models of biochemical and cellular systems
database summary
BioSilico
Integrated access to various metabolic databases
database summary
BioThesaurus Liu H.1, Hu Z.Z.2 and Wu C.H.2
A collection of gene/protein names and associated sequences
database
summary
BIOZON Yona
G., Birkland A.
A system for unification and analysis of heterogeneous biological data
database summary
Blocks Henikoff,
J.G.1, Pietrokovski, S.3, Greene, E.A.1,
Taylor, N.1, Ng, P.C.1, Henikoff, S.2
Multiple alignments of conserved regions of protein families
database summary
BodyMap Okubo,
K.1, Kawamoto, S.1, Morishita, S.2
Human and mouse gene expression data
database summary
BodyMap-Xs Ogasawara O., Otsuji M., Watanabe K., Iizuka T., Hishiki T., Kawamoto
S., Tamura T. and Okubo K.
A database for cross-species comparison of vertebrate gene expression
database summary
Brassica ASTRA Love, C.G.1,2,
Robinson, A.J.1,2, Lim, G.1,2, Batley, J.1,
Barker, G.3, Spangenberg, G.C.1,2, Edwards, D.1,2
An Integrated Database for Brassica Genomic Research
database
summary
BRENDA
Enzyme names and properties: sequence, structure, specificity, stability,
reaction parameters, isolation data
database summary
BRITE - Biomolecular Relations in
Information Transmission and Expression
Molecular interactions and pathways database, part of the KEGG system
database summary
BSD - Biodegradative Strain Database
Microorganisms that can degrade aromatic and other organic compounds
database summary
BSORF - Bacillus subtilis Open
Reading Frames
Bacillus subtilis genome database at Kyoto U.
database summary
BTKbase Väliaho,
J1, Smith, C.I.E.2, Vihinen, M.3
Mutation registry for X-linked agammaglobulinemia
database summary
C. elegans Project
Genome sequencing data at the Sanger Institute
database
summary
CADB - Conformational Angles DataBase
of Proteins Sheik, S.S., Ananthalakshmi, P.,
Ramya Bhargavi, G., Sekar, K.
Conformation angles of protein structures, with associated crystallographic
data
database
summary
CADRE - Central Aspergillus Data
Repository
Central Aspergillus data repository
database summary
CAGE Kawaji
H.1, Kasukawa T.1,2, Fukuda S.2, Katayama S.2,
Kai C.2, Kawai J.2,3, Carninci P.2,3, and
Hayashizaki Y.2,3
CAGE tags for cap-analysis of gene expression
database
summary
CampyDB - Campylobacter
Database
Database for Campylobacter genome analysis
database summary
Cancer Chromosomes
Cytogenetic, clinical, and reference information on cancer-related aberrations
database
summary
Candida Genome Database
Candida albicans genome database
database
summary
CandidaDB C. d’Enfert1, S. Goyard1, S. Rodriguez-Arnaveilhe1,
L. Frangeul2, L. Jones3, F. Tekaia4, O. Bader5,
A. Albrecht5, L. Castillo6, A. Dominguez7, J.
Ernst8, C. Fradin5, C. Gaillardin9, S.
Garcia-Sanchez1, P. de Groot10, B. Hube5, F.M.
Klis10, S. Krishnamurthy8, D. Kunze5, M.-C.
Lopez7, A. Mavor11, N. Martin7, I. Moszer2,
D. Onésime9, J. Perez Martin12, R. Sentandreu6,
E. Valentin6 and A.J.P. Brown11
Candida albicans genome database
database summary
CarpeDB Locke,
C.J., Caldwell, K.A., Caldwell, G.A.
A database on the genetics of epilepsy
database summary
CASRDB Hendy,
G., Pidasheva, S.
CASR mutations causing hypercalcemia and/or hyperparathyroidism
database summary
CATH Pearl,
F.M.1, Bennett, C.F.1, Bray, J.E.1, Harrison,
A.P.1, Martin, N.2, Shepherd, A.1, Sillitoe,
I.1, Thornton, J.3, Orengo, C.A.1
Classification of protein domain structures
database
summary
CATMA - Complete Arabidopsis
Transcriptome MicroArray
Arabidopsis gene sequence tags
database summary
CCDB - The CyberCell Database
E. coli database at U. Alberta
database
summary
CCDS Pruitt
K.1, Ashurst J.3, Maglott D.1, Diekhans M.2,
Ostell J.1, Haussler D.2, Birney E.4, Searles
S.3, Hubbard T.3 and Durbin R.3
Consensus set of annotated full-length human protein-coding regions
database summary
CCSD - Complex Carbohydrate Structure
Database (CarbBank)
Complex carbohydrate structure database
database
summary
CDD Marchler-Bauer,
A., Panchenko, A.R., Shoemaker, B.A., Thiessen, P.A., Geer, L.Y., Bryant, S.H.
Curated alignments of protein domains from Pfam, SMART and COG databases
database
summary
CE
Combinatorial Extension method to compute and review 3D protein structure
alignments
database summary
CGED - Cancer Gene Expression Database
Kato K.1, Yamashita R.1,2,
Takagi T.3, Nakai K.2
Cancer gene expression database
database summary
ChEBI - Chemical Entities of
Biological Interest de Matos, P., Ennis, M.,
Darsow, M., Guedj, M., Degtyarenko, K., Apweiler, R.
Small molecules, atoms, ions and radicals of biological interest
database summary
ChickVD Wang
J.1, He X.2,3, Ruan J.2,3, Dai M.2,
Chen J.2, Zhang Y.1,2, Hu Y.2, Ye C.2,
Li S.2, Cong L.2, Fang L.2, Liu B.2,
Li S.1,2, Wang J.2, Burt D.W.4, Wong G.K.-S.2,5,
Yu J.2,6, Yang H.2,6 and Wang J.1,2,7,8
Sequence variation in the chicken genome
database summary
ChimerDB Kim N.1, Kim P.1, Nam S.1, Shin S.2
and Lee S.1
Chimeric (fusion) sequences in human, rat and mouse
database summary
ChloroplastDB Cui L., Veeraraghavan N., Richter A., Wall K., Jansen R.K.,
Leebens-Mack J., Makalowska I. and dePamphilis C.W.
Chloroplast genome database
database summary
CIDB - Chlamydia Interactive Database
Gene expression data for Chlamydia trachomatis and Chlamydia
pneumoniae
database summary
Ciliate IES-MDS database
Macro- and micronuclear genes in spirotrichous ciliates
database
summary
cisRED Robertson
A.G.1, Bilenky M.1, Lin K.1, He A.1,
Yuen, W.1, Dagpinar M.1, Varhol R.1, Teague K.1,
Griffith O.L.1, Zhang X.1, Pan, Y.1, Hassel M.1,
Sleumer M.C.1, Pan, W.1, Pleasance E.D.1,
Chuang, M.1, Hao H.1, Li Y.Y.1, Robertson N.1,
Fjell C.1, Li B.1, Montgomery S.B.1, Astakhova
T.1, Zhou J.2, Sander J.2, Siddiqui A.S.1
and Jones S.J.M.1
Phylogenetically conserved regulatory DNA sequence motifs
database summary
CKAAPs DB - Conserved Key Amino Acid
Positions Database
Structurally-similar proteins with dissimilar sequences
database summary
CleanEx
Expression reference database, linking heterogeneous expression data to
facilitate cross-dataset comparisons
database summary
ClostriDB - Clostridium
Database
Finished and unfinished genomes of Clostridium spp.
database summary
CluSTr - Clusters of Swiss-Prot and
TrEMBL proteins Petryszak, R., Binns, D.,
Fleischmann, W., Kersey, P., Apweiler, R.
Automatic classification of SWISS-PROT+TrEMBL proteins
database summary
CnidBase
Cnidarian evolution and gene expression database
database summary
CoC Donald
J.E.1, Hubner I.A.1, Rotemberg V.M.1,
Shakhnovich E.I.1 and Mirny L.A.2
Universally conserved residues in protein folds
database summary
COG - Clusters of Orthologous Groups
of proteins
Protein families from complete microbial genomes
database summary
COGEME Phytopathogenic Fungi and
Oomycete EST Database Soanes, D.M., Talbot, N.J.
Phytopathogenic fungi and oomycete EST database
database summary
CoGenT++
Complete Genome Tracking database
database summary
coliBase
A database for E. coli, Salmonella and Shigella
database summary
Colibri
E. coli genome database at Institut Pasteur
database
summary
Collagen Mutation Database Dalgleish, R.
Human type I and type III collagen gene mutations
database
summary
Columba Rother
K.1, Triß S.2, Müueller H.2, Preißner R.1,
Steinke T.3, Leser U.2, Frömmel C.1
Annotation of various protein structures
database summary
COMe - Co-Ordination of Metals etc. Degtyarenko, K., Contrino, S.
Classification of bioinorganic proteins (metalloproteins and some other complex
proteins)
database summary
Comparative Genometrics Roten C.-A.H.1, Gamba P.2, Barblan J.-L.1
and Karamata D.1
DNA walks, nucleotide skews and other biometric measures of prokaryotic genomes
database
summary
CoPS
Comprehensive peptide signature database
database
summary
CORG - A database for COmparative
Regulatory Genomics Dieterich, C., Wang, H.,
Rateitschak, K., Luz, H., Vingron, M.
Conserved non-coding sequence blocks
database summary
COSMIC - Catalogue Of Somatic
Mutations In Cancer
Sequence data, samples and publications
database
summary
CR-EST - Crop ESTs C. Künne, M. Lange, T. Funke, H. Miehe, T. Thiel, I. Grosse, and U.
Scholz
Barley, wheat, pea, and potato ESTs
database
summary
Cre Transgenic Database Nagy, A.
Cre transgenic mouse lines
database summary
CropNet
Genome mapping in crop plants
database summary
CroW 21 Peter,
Y., Chalifa-Caspi, V., Olender, T., Glusman, G., Peter, I., Safran, M., Lancet,
D., Groner, Y.
Human chromosome 21 database
database
summary
CryptoDB - Cryptosporidium
database
Cryptosporidium parvum genome database
database summary
CSA - Catalytic Site Atlas
Enzyme active sites and catalytic residues in enzymes of known 3D structure
database
summary
CSD - Cambridge Structural Database
Crystal structure information for organic and metal organic compounds.
database
summary
CSDBase - Cold Shock Domain database Weber, M.H.W., Doll, N., Marahiel, M.A.
Cold shock domain-containing proteins
database
summary
CSS - Carbohydrate Structure Suite
Carbohydrate 3D structures derived from the PDB
database summary
CTGA Tadmouri
G.O.
A database for genetic disorders in Arabs
database summary
CUTG - Codon Usage Tabulated from
GenBank
Codon usage tables
database summary
CuticleDB
Structural proteins of Arthropod cuticle
database
summary
CyanoBase
Genomes of cyanobacteria and other photosynthetic bacteria
database summary
Cybase Mulvenna
J.P., Wang C.K.L. and Craik D.J.
Proteins with cyclic backbones
database
summary
Cyclonet Kel A.1, Kolpakov F.2, Poroikov V.3,
Milanesi L.4
A database on cell cycle regulation
database summary
CYGD - Comprehensive Yeast Genome
Database
MIPS database of yeast genes and proteins
database
summary
Cypriot national mutation database
Disease mutations in the Cypriot population
database
summary
Cytokine Gene Polymorphism Database Bidwell, J.
Cytokine gene polymorphisms, in vitro expression and disease-association
studies
database
summary
Cytokine Gene Polymorphism in Human
Disease Bidwell, J.1, Keen, L.1,
Haukim, N.1, Smith, A.1, Gallagher, G.2,
Kimberley, R.3, Huizinga, T.4, McDermott, M.5,
Oksenberg, J.6, McNicholl, J.7, Pociot, F.8,
Hardt, C.9, D'Alfonso, S.10
Cytokine gene polymorphism literature database
database
summary
Dali database L. Holm
Fold classification based on structure-structure alignment of proteins
database
summary
DART - Drug Adverse Reaction Targets
Drug adverse reaction target database
database
summary
Database of Genomic Variants Feuk L., Zhang J., Khaja R., MacDonald J.R., Duggan G. and Scherer S.W.
Human genomic variants: frequency, segmental duplications and genome assembly
gaps
database summary
Database of Germline p53 Mutations
Mutations in human tumor and cell line p53 gene
database
summary
DATF
Database of Arabidopsis transcription factors
database summary
DBcat
Catalog of databases
database
summary
DBD Kummerfeld
S.K. and Teichmann S.A.
Transcription factor prediction database
database
summary
dbERGEII
Database of experimental results on gene expression
database
summary
dbMHC Helmberg
W., Feolo M.
Genetic and clinical database of the human MHC
database summary
dbPTM
Post-translational modifications of proteins
database summary
dbQSNP Tahira,
T., Higasa, K., Kukita, Y., Baba, S., Akiyama, J., Miura, K., Hayashi, K.
Quantification of SNP allele frequencies
database summary
dbRIP Song
L.1, Wang J.1, Liang P.1, Grover D.2,
Batzer M.A.2
Retrotransposon insertion polymorphisms in human
database
summary
dbSNP
Database of single nucleotide polymorphisms
database summary
DBSubLoc - Database of protein
Subcellular Localization
Database of protein subcellular localization
database
summary
DBTBS Makita
Y.1, De Hoon M.J.L.2 and Nakai, K.3
B. subtilis binding factors and promoters
database summary
DBTGR Sierro
N.1, Kusakabe T.2, Park K-J.1, Yamashita R.1,
Kinoshita K.1,3 and Nakai K.1
A database of tunicate (Ciona) gene regulation
database summary
DBTSS Yamashita
R.1, Suzuki, Y.2, Wakakguri, H.2, Nakai, K.1,
Sugano, S.2
Database of transcriptional start sites
database summary
DCCP - Database of Copper-Chelating
Proteins
Database of copper-chelating proteins
database
summary
DDBJ - DNA Data Bank of Japan Imanishi, T.1, Miyazaki, S.2, Fukami-Kobayashi,
K.2, Sugawara, H.2, Gojobori, T.2, Tateno, Y.2
An annotated collection of all publicly available nucleotide and protein
sequences
database summary
DDIB Yu,
X.J.1, Chen, M.2, Lin, J.C.1, Li, X.3,
Shi, T.L.1, He, W.Z.2 and Li, Y.X.1,2
Database of domain interactions and binding
database summary
Decoys 'R' Us
Computer-generated protein conformations based on sequence data
database summary
DED - Database of Evolutionary
Distances
Evolutionary distances between ortholologous vertebrate genes
database summary
DEG - Database of Essential Genes
Database of essential genes from bacteria and yeast
database summary
DENIZ Tadmouri
G.O.
Beta-thalassemia mutations in world populations
database
summary
DExH/D Family Database
DEAD-box, DEAH-box, and DExH-box proteins
database
summary
DG-CST
Disease gene conserved sequence tags
database summary
Diatom EST Database
ESTs from two diatom algae, Thalassiosira pseudonana and Phaeodactylum
tricornutum
database summary
DictyBase
Genome information, literature and experimental resources for Dictyostelium
discoideum
database summary
DIP - Database of Interacting Proteins
Xenarios, I., Salwinski, L., Xiaoqun, JD.,
Higney, P., Kim, SM., Eisenberg, D.
Experimentally-determined protein-protein interactions
database summary
DisProt - Database of Protein Disorder
Information about proteins that lack fixed 3D structure in their native states
database
summary
DMAPS Guda
C.1, Pal L.R.1 and Shindyalov I.N.2
Multiple Alignments for Protein Structures
database
summary
DomIns Aroul-Selvam
R.1 and Sasidharan R.2
Domain insertions in known protein structures
database summary
DoOP - Databases of Orthologous
Promoters Barta E.1, Sebestyén E.1,
Pálfy T.B.1, Tóth G.1, Ortutay C.P.1 and
Patthy L.2
Clusters of orthologous upstream sequences from chordates and plants
database summary
DPDB
Drosophila polymorphism database
database summary
DPInteract
Binding sites for E. coli DNA-binding proteins
database
summary
DPVweb Adams
M.J. and Antoniw J.F.
Viruses of plants, fungi and protozoa
database summary
DRASTIC
Database resource for analysis of signal transduction in plant cells
database summary
DRC - Database of Ribosomal Crosslinks
Baranov, P.V., Kubarenko, A.V, Gurvich, O.L.,
Shamolina, T.A., Brimacombe, R.
Ribosomal crosslinking data
database
summary
Drosophila microarray centre
Data and tools for Drosophila gene expression studies
database summary
DrugBank
Combined information on drugs and drug targets
database
summary
DSD Toseland
C.P., McSparron H.M. and Flower D.R.
Database of dehydrogenase enzyme stereospecificities
database summary
DSDBASE - Disulfide Database Vinayagam, A., Pugalenthi G., Rajesh R., Sowdhamini, R.
Native and modeled disulfide bonds in proteins
database
summary
DSMM - a Database of Simulated
Molecular Motions Finocchiaro, G.2,
Wang, T.1, Hoffmann, R.1, Gonzalez, A.1, Wade,
R.C.1
Database of Simulated Molecular Motions
database
summary
DynaProt 2D Drews, O. and Gorg, A.
Proteome database of Lactococcus lactis
database
summary
E-MSD - EBI-Macromolecular Structure
Database
EBI's collection of protein structures
database summary
EASED - Extended Alternatively Spliced
EST Database Pospisil H.1,2, Herrmann
A.2, Reich J.2
Alternatively spliced ESTs
database summary
EBI Genomes
EBI's collection of databases for the analysis of complete and
unfinished viral, pro- and eukaryotic genomes
database summary
eBLOCKS Su
Q., Lu L., Saxonov S. and Brutlag D.L.
Highly conserved protein sequence blocks
database
summary
ECgene
Genome annotation for alternative splicing
database summary
EchoBASE Misra R.V.1, Horler
R.S.P.1, Reindl W.1, Goryanin I.I.2 and Thomas
G.H.1
Post-genomic studies of Escherichia coli
database summary
EcoCyc Karp,
P.D.1, Collado-Vides, J.2, Paulsen, I.3,
Riley, M.1, Saier, M.4, Paley, S.1, Bonavides,
C.2, Gama-Castro, S.2
E. coli K-12 genome, metabolic pathways, transporters, and gene regulation
database summary
EcoGene
Sequence and literature data on E. coli genes and proteins
database
summary
EDAS - EST-Derived Alternative
Splicing Database R.N. Nurtdinov, A.D. Neverov,
I.A. Kosmodemiansky, D.B. Malko, A.A. Mironov and M.S. Gelfand
Alternative splicing deduced from EST data
database summary
eF-site - Electrostatic surface of
Functional site
Electrostatic potentials and hydrophobic properties of the active sites
database
summary
EGO - Eukaryotic Gene Orthologs
Orthologous DNA sequences in the TIGR gene indices
database summary
EHCO Tseng
H.-H.2, Yeh H.-H.2, Lee G.-C.3,4, Lin Y.-F.3,
Su L.-J.1,5, Lin C.-Y.6, Lai J.-M.6, Sung
T.-Y.3, Hsu W.-L.3, Huang C.-Y.F.2,4,5,7
Encyclopedia of Hepatocellular Carcinoma genes Online
database summary
EICO DB - Expression-based Imprint
Candidate Organiser
A database for discovery of novel imprinted genes
database
summary
EID: Exon-Intron Database Fedorov A.1, Shepelev V.2
B. subtilis binding factors and promoters
database
summary
EMAGE Christiansen,
J.H., Yang, Y., Venkataraman, S., Richardson. L., Stevenson, P., Burton, N.,
Baldock, R.A. and Davidson, D.R.
Edinburgh Mouse Atlas gene expression database
database
summary
emap Atlas - Edinburgh Mouse Atlas
A digital atlas of mouse embryo development and spatially-mapped gene
expression
database summary
EMBL Nucleotide Sequence Database Kulikova, T., Aldebert, P., Althorpe, N., Baker, W., Bates, K., Browne,
P., Van den Broek, A., Cochrane, G., Duggan, K., Eberhardt, R., Faruque, N.,
Harte, N., Kanz, C., Lin, Q., Lombard, V., Lopez, R., McHale, M., Nardone, F.,
Silventoinen, V., Stoehr, P., Tuli, M.A., Tzouvara, K., Vaughan, R., Wu, D.,
Zhu, W., Apweiler, R.
An annotated collection of all publicly available nucleotide and protein
sequences
database summary
EMGlib - Enhanced Microbial Genomes
Library
Completely-sequenced prokaryotic genomes
database
summary
eMOTIF
Protein sequence motif determination and searches
database summary
Endogenous GPCR List
G protein-coupled receptors; expression in cell lines
database
summary
EndoNet Potapov
A.1, Liebich I.1,2, Dönitz J.1, Schwarzer K.1,
Sasse N.1, Schoeps T.1, Crass T.1 and
Wingender E.1,2
Information about the components of endocrine networks
database
summary
Ensembl
Annotated information on eukaryotic genomes
database summary
Entrez Gene
Gene-centered information at NCBI
database
summary
Entrez Genomes
NCBI's collection of databases for the analysis of complete and
unfinished viral, pro- and eukaryotic genomes
database
summary
ENZYME
Enzyme nomenclature and sequences
database summary
Enzyme Nomenclature Gerard P. Moss
IUBMB Nomenclature Committee recommendations and updates
database
summary
EPConDB Pizarro,
A.1, Pinney, D.1, Crabtree, J.1, Mazzarelli,
J.1, Grant, G.1, Le, P.1, Manduchi, E.1,
McWeeney, S.1, Scearce, M.2, Brestelli, J.2,
Brownstein, B.3, Clifton, S.4, Inoue, H.5,
Pape, D.4, Melton, D.6, Permutt, A.5,
Kaestner, K.2, Stoeckert, C.2
Endocrine pancreas consortium database
database summary
EPD Cavin
Périer, R.1, Praz, V.2, Bucher, P.2
Eukaryotic POL II promoters with experimentally-determined transcription start
sites
database summary
Epitome Schlessinger
A.1,2,3, Ofran Y.1,2, Yachdav G.1,2,3 and Rost
B.1,2,3
Database of structure-inferred antigenic epitopes
database
summary
EpoDB - Erythropoiesis Database
Genes expressed during human erythropoiesis
database summary
ERGDB - Estrogen Responsive Genes
Database
Estrogen responsive genes database
database
summary
ERGO-Light
Integrated biochemical data on 7 bacterial genomes: Publicly-available portion
of the ERGO database
database summary
EROP-Moscow Zamyatnin A.A, Borchikov A.S., Vladimirov M.G. and Voronina O.L.
A database of Endogenous Regulatory OligoPeptides
database summary
Essential genes in E. coli
First results of an E. coli gene deletion project
database
summary
ESTHER Cousin,
X.1, Hotelier, T.2, Marton, P.1, Chatonnet, A.1
Esterases and related alpha/beta hydrolase superfamily enzymes
database
summary
euGenes Gilbert,
D.
Common summaries of gene and genomic information for eukaryotic organisms
database summary
European rRNA database
All complete or nearly complete rRNA sequences
database summary
ExInt Sakharkar
M.K.1, Passetti F.2, de Souza J.E.2, Long M.3
and de Souza S.J.2
Exon-intron structure of eukaryotic genes
database
summary
EXProt Ursing,
B.M., van Enckevort, F.H.J., Leunissen, J.A.M., Siezen, R.J.
Proteins with experimentally-verified function
database summary
ExtraTrain Tobes, R., Pareja, E., Pareja-Tobes, P., Manrique, M., Pareja-Tobes, E.
Bonal, J.
Extragenic and Transcriptional information in prokaryotic organisms
database summary
EyeSite
Families of proteins functioning in the eye
database summary
EzCatDB Nagano
N.1,2
Enzyme catalytic mechanism database
database summary
FANTOM
Functional annotation of mouse full-length cDNA clones
database summary
FESD - Functional Element SNPs
Database
SNPs located within promoters, UTRs, etc., of human genes
database
summary
FGDB Gueldener
U.1,3, Mannhaupt G.2, Muensterkoetter M.3,
Haase D.3, Oesterheld M. 3, Stuempflen V.3,
Mewes H.W.1,3 and Adam G.4
Plant pathogen Fusarium graminearum genome database
database
summary
FIMM
Functional molecular immunology data
database
summary
FLAGdb++ Samson F., Brunaud V., Duchêne S., De Oliveira Y., Caboche M., Lecharny
A., Aubourg S.
A database for the functional analysis of the Arabidopsis
genome
database
summary
FLIGHT
Drosophila phenotypes, gene expression and protein interaction data
database summary
FlyBase
Drosophila sequences and genomic information
database summary
FlyBrain
Database of the Drosophila nervous system
database
summary
FlyRNAi Flockhart
I.1, Booker M.1, Kiger A.3, Boutros M.4,
Armknecht S.1, Ramadan N.1, Richardson K.1, Xu
A.1, Perrimon N.1,2 and Mathey-Prevot B.1
The Drosophila RNAi Screening Center Database
database
summary
FlyTrap
Drosophila transgenic lines created using an intron protein trap
strategy
database summary
FlyView
Drosophila development and genetics
database summary
FREP
Functional repeats in mouse cDNAs
database summary
FSN Li
Z., Ye Y. and Godzik A.
Flexible structural neighborhood, structural neighbors of proteins identified
by FATCAT tool
database
summary
FSSP Holm,
L.
Currently maintained as Dali database
database
summary
FUGOID Li
F. and Herrin D.L.
Functional Genomics of Organelle Introns database
database
summary
Full-Malaria Watanabe, J.1, Xuan, X.1, Suzuki, Y.2,
Sasaki, M.2, Wakaguri H.2, Sugimoto C.3,
Sugano, S.1
Full-length cDNAs from Plasmodium and Toxoplasma
database summary
FUNPEP
Low-complexity peptides capable of forming amyloid plaque
database
summary
FunShift
Functional divergence between the subfamilies of a protein domain family
database summary
FusionDB Karsten Suhre
Database of bacterial and archaeal gene fusion events
database
summary
Génolevures
A comparison of S. cerevisiae and 14 other yeast species
database summary
GénoPlante-Info Samson, D., Legeai, F., Karsenty, E., Reboux, S., Veyrieras, J.-B.,
Just, J., Barillot, E.
Plant genomic data derived from the Génoplante consortium
database
summary
GabiPD Nagel
A., Basekow, R., Meyer S.
Central database of the German Plant Genome Project
database summary
GadFly
Genome annotation database of Drosophila
database summary
GALA
Genomic alignment, annotation and experimental results
database summary
GDB
Human genes and genomic maps
database summary
GELBANK Babnigg
G., Giometti C.S.
2D gel electrophoresis patterns from completed genomes
database summary
GenAtlas
Human genes, markers, and phenotypes
database summary
GenBank®
An annotated collection of all publicly available nucleotide and protein
sequences
database summary
GenDiS
Genomic distribution of protein structural superfamilies
database
summary
Gene Expression in Tooth Database Nieminen P.
Gene expression in dental tissue
database summary
Gene Resource Locator Kasai Y., Yamada T., Doi K., Morishita, S.
Alignment of ESTs with finished human sequence
database summary
Gene3D
Precalculated structural assignments for whole genomes
database
summary
GeneAnnot Chalifa-Caspi, V., Shmueli, O., Shmoish, M., Shklar, M.,Rosen, N.,
Benjamin-Rodrig, H., Yanai, I., Ophir, R., Iny Stein, T., Kats, P., Almashanu,
L., Safran, M., Lancet, D.
Revised and improved annotation of Affymetrix human gene probe sets
database
summary
GeneCards Safran, M., Shmueli, O., Rosen, N., Shmoish, M., Shklar, M.,
Benjamin-Rodrig, H., Almashanu, L., Chalifa-Caspi, V., Lancet, D.
Integrated database of human genes, maps, proteins, and diseases
database summary
GeneDB The
GeneDB Team
Curated database for protozoan and bacterial genomes sequenced at the Sanger
Centre
database summary
GeneFarm
Expert annotation of Arabidopsis gene and protein families
database
summary
GeneLoc Rosen,
N., Chalifa-Caspi, V., Shklar, M., Almashanu, L., Safran, M., Lancet, D.
Gene Location database, formerly known as Unified database for human genome
mapping (UDB)
database
summary
GeneNest
Gene indices of human, mouse, zebrafish, Arabidopsis, and Drosophila
database summary
GeneNet Ananko,
E.A., Podkolodny, N.L., Stepanenko, I.L., Podkolodnaya, O.A., Rasskazov, D.A.,
Miginsky, D.S., Likhoshvai, V.A., Ratushny, A.V., Podkolodnaya, N.N.,
Kolchanov, N.A.
Database on gene network components
database
summary
GeneNote Shmueli, O., Shmoish, M., Rosen, N., Benjamin-Rodrig, H., Yanai, I.,
Ophir, R., Shklar, M., Almashanu, L., Madi, A., Sirota, A., Kats, P., Chalifa-Caspi,
V., Safran, M., Lancet, D.
Human genes expression profiles in healthy tissues
database
summary
GenePaint
Gene expression patterns in the mouse
database
summary
Genetic Codes
Deviations from the standard genetic codes in various organisms and organelles
database
summary
Genetics Home Reference
A general guide on human hereditary diseases
database summary
GeneTide
A transcriptome-focused member of the GeneCards suite
database
summary
GeneTrap
Expression patterns in an embryonic stem library of gene trap insertions
database summary
Genew Wain,H.M.,
Lush,M., Ducluzeau,F., Povey,S.
Human gene nomenclature database: Approved symbols for all human genes
database
summary
GeniSys Ryu
T.1, Choi J.K.2, Shim W.1, Bae E.3,
Lee D.1
Enhancer- and promoter-inserted mutants of Drosophila
database summary
GenMapDB Morley, M1, Burdick, J1, Cheung, VG2
Mapped human BAC clones
database
summary
GenoBase
E. coli genome database at Nara Institute
database
summary
Genome information broker
DDBJ's database of completely sequenced genomes
database summary
Genome Project Database Klimke W., Kochergin A., Landrum M., Pruitt K., Resenchuk S., Sermrann
P. and Tatusova T.
NCBI's database of large-scale genome sequencing projects
database
summary
Genome Reviews Kersey P.1, Bower L.1, Morris L.1,
Horne A.1, Petryszak R.1, Kanz C.1, Kanapin A.1,
Das U.1, Mulder N.1, Pruess M.1, Duggan K.1,
Quevillon E.1, McLaren P.1, Kulikova T.1,
Faruque N.1, Whitfield E.1, Duret L.2, Penel
S.2, Reuter I.3, Zhu W.1 and Apweiler R.1
Integrated view of complete genomes
database
summary
GenomeAtlas Hallin, P.F., Jensen, L.J., Skovgaard, M., Stærfeldt, H.H., Worning, P.
and Ussery, D.W.
DNA structural properties of sequenced genomes
database
summary
Genomic Threading Database
Structural annotations of complete genomes
database summary
GenProtEC Riley, M., Serres, M.H., Liang, P., Sun, Y.
Escherichia coli K-12 genome, gene products, and homologs
database summary
GENSAT
Gene Expression Nervous System ATlas
database
summary
GEO - Gene Expression Omnibus
Public gene expression repository
database summary
GermOnline Primig, M.
Expression data for the mitotic and meiotic cell cycle and gametogenesis in
yeast and higher eukaryotes
database summary
GLIDA
GPCR-Ligand Database
database
summary
Glycan
Carbohydrate database, part of the KEGG system
database summary
GlycoSuiteDB Cooper, C., Joshi, H., Harrison, M., Wilkins, M., Packer, N.
N- and O-linked glycan structures and biological sources
database
summary
GO - Gene Ontology
Gene ontology consortium database
database summary
GOA - Gene Ontology Annotation Camon, E.B., Barrell, D. G., Binns, D., Dimmer, E., Lee V., Magrane,
M., Maslen, J., Mulder, N., Apweiler, R.
Assignment of gene products to the Gene Ontology (GO) resource
database summary
GOBASE O'Brien,
E.A., Zhang, Y., Wang, E., Yang, L., Marie, V., Lang, B.F., and Burger, G.
Organelle genome database
database summary
GOLD Kyrpides,
N.
Information regarding complete and ongoing genome projects
database summary
GOLD.db - Genomics Of Lipid-associated
Disorders Hackl, H., Trost, E., Maurer, M.,
Hartler, J., Mlecnik, B., Miranda-Saavedra, D., Stocker G., Trajanoski, Z.
Genes, proteins, and pathways implicated in lipid- associated disorders
database summary
GPCRDB
G protein-coupled receptors
database summary
gpDB - G-protein database
G-proteins and their interaction with GPCRs
database
summary
GPX-Macrophage Expression Atlas Grimes G., Moodie S., Beattie J.S., Craigon M., Dickinson P., Forster
T., Livingston A., Mewissen M., Robertson K.A., Ross A.J., Sing G. and Ghazal
P.
Gene expression in macrophages
database
summary
GrainGenes
Molecular and phenotypic information on wheat, barley, rye, triticale, and oats
database summary
Gramene Jaiswal
P.1, Ni J.1, Yap I.1, Ware D.2,4,
Spooner W.2, Youens-Clark K.2, Ren L.2, Liang
C.2, Zhao W.2, Ratnapu K.2, Faga B.2,
Canaran P.2, Fogleman M.1, Hebbard C.1,
Avraham S.2, Schmidt S.2, Casstevens T.M.3,
Buckler E.S.3,4, Stein L.2 and McCouch S.1
A resource for comparative grass genomics
database summary
GRAP Mutant Databases Ø. Edvardsen
Mutants of family A G-Protein Coupled Receptors (GRAP)
database summary
Greengenes DeSantis T.Z.1, Hugenholtz P.2, Larsen N.3,
Rojas M.4, Brodie E.L.1, Keller K.5, Huber T.6,
Dalevi D.7, Hu P.1 and Andersen G.L.1
A database of chimera-checked prokaryotic 16S rRNA genes
database summary
GRSDB Kostadinov
R., Malhotra N., Viotti M., Shine R., D’Antonio L. and Bagga P.
Quadruplex forming 'G'-rich sequences in mammalian
pre-mRNA
database
summary
GTOP - Genomes To Protein structures Fukuchi, S., Homma, K., Sakamoto, S., Nishikawa, K.
Protein fold predictions from genome sequences
database
summary
GtRDB - Genomic tRNA Database
tRNA sequences in complete genomes
database summary
Guide RNA Database
Guide RNA sequences
database
summary
GXD - Mouse Gene Expression Database Hill, D.P., Begley, D.A., Finger, J.H., Hayamizu, T.F., McCright, I.J.,
Smith, C.M., Beal, J.S., Corbani, L.E., Blake, J.A., Eppig, J.T., Kadin, J.A.,
Richardson, J.E., Ringwald, M.
Mouse gene expression and genomics
database
summary
H-InvDB
Full-length human cDNA clones
database summary
HaemB
Factor IX gene mutations, insertions and deletions
database
summary
HAGR - Human Ageing Genomic Resources de Magalhães J.P.1 , Joana Costa J.2, Toussaint
O.3
Genes related to ageing in humans and model organisms
database summary
HaptenDB Singh M.K., Srivastava S., Raghava G.P.S. and Varshney G.C
Curated database of hapten molecules
database
summary
HbVar
Human hemoglobin variants and thalassemias
database
summary
HCAD - Human Chromosome Aberration
Database
Chromosomal breakpoints and affected genes
database
summary
HCV Sequence Database Carla Kuiken
Variation in hepatitis C virus sequences
database summary
HCVDB - Hepatitis C Virus Database
The hepatitis C virus database
database summary
HDBase Nat
Goodman
A website for Huntington's disease research
database summary
HemBase
Genes transcribed in differentiating human erythroid cells
database summary
HemoPDB - Hematopoietic Promoter
Database Pohar, T.T., Sun, H. and Davuluri, R.V.
Transcriptional regulation in hematopoiesis
database
summary
HERVd - Human Endogenous Retrovirus
database
Human endogenous retrovirus database
database summary
Het-PDB Navi Yamaguchi, A.1, Tomoda, S.2, Yura, K.3,
Go, M.1
Protein-small molecule interactions
database
summary
HGMD® - Human Gene Mutation
Database
Known (published) gene lesions underlying human inherited disease
database summary
HGT-DB, Horizontal Gene
Transfer-DataBase Garcia-Vallve, S., Guzman, E,
Montero, MA., Romeu, A.
Putative horizontally-transferred genes in prokaryotic genomes
database summary
HGVbase Fredman,
D.1, Lehvaslaiho, H.2, Rios, D.1, Munns, G.1,
Siegfried, M.1, Yuan, Y.P.3, Bork, P.3,
Brookes, A.J.1
Curated human polymorphisms
database summary
HGVS Databases
A compilation of human mutation databases
database summary
HIC-Up Kleywegt,
G.J.
Structures of small molecules (³hetero-compounds²)
database summary
Histone Database Sullivan, S.1, Sink, D.W.2, Trout, K.L.2,
Makalowska, I.2, Taylor, P.M.1, Baxevanis, A.D.2,
Landsman, D.1
Histone and histone fold sequences and structures
database
summary
Hits Pagni,
M.1, Falquet, L.1, Iseli, C.2, Jongeneel, V.2,
Junier, T.3, Bucher, P.3
A database of protein domains and motifs
database summary
HIV Drug Resistance Database Urvi Parikh, Brendan A. Larder, John W. Mellors, Raymond F Schinazi,
Charles E. Calef
Mutations in HIV genes that confer resistance to anti-HIV drugs
database
summary
HIV Molecular Immunology Database
HIV epitopes
database
summary
HIV RT and Protease Sequence Database Rhee, S.-Y., Gonzales, M.J., Kantor, R., Betts, B.J., Ravela, J.,
Shafer, R.W.
HIV reverse transcriptase and protease sequences
database summary
HIV Sequence Database Leitner, T., Foley, B., Hahn, B., McCutchan, F., Marx, P., Wolinsky,
S., Mellors, J., Moore, J., Korber, B.
HIV RNA sequences
database summary
HLA Ligand/Motif database
A database and search tool for HLA sequences
database summary
HMPD
Human mitochondrial protein database
database
summary
Hollywood
Exon annotation database
database summary
Homeobox Page Bürglin T.R.
Information relevant to homeobox proteins, classification, and evolution
database
summary
Homeodomain Resource
Homeodomain sequences, structures, and related genetic and genomic information
database
summary
HomoloGene
Automatically detected homologous genes in complete eukaryotic genomes
database
summary
Homophila Gribskov, M.1,2, Bier, E.2, Reiter, L.T.2,
Chien, S.1,2
Drosophila homologs of human disease genes
database
summary
HOMSTRAD - Homologous Structure
Alignment Database
Curated structure-based alignments for protein families
database
summary
Hoppsigen
Human and mouse homologous processed pseudogenes
database
summary
HORDE - Human Olfactory Receptor Data
Exploratorium Olender, T., Glusman, G., Feldmesser,
E., Khen, M., Lancet, D.
Olfactory receptor genes and proteins
database
summary
HOWDY Koike,
T., Tsurumine, M., Inoue, A., Uchida, N., Iwashima, M., Suzuki, K., Kuroda, M.
Integrated human genomic information
database
summary
HOX-PRO
Clustering of homeobox genes
database
summary
hp-DPI
Database of protein interactions in Helicobacter pylori
database summary
HPID - Human Protein Interaction
database
Human protein interaction database
database summary
HPMR - Human Plasma Membrane Receptome
Plasma membrane protein sequences, literature, and expression database
database summary
HPRD - Human Protein Reference
Database
Domain architecture, post-translational modifications, interaction networks and
disease
database summary
HPTAA
Human potential tumor-associated antigens
database summary
HS3D - Homo Sapiens Splice
Sites Dataset Pollastro, P., Rampone, S.
Human exon, intron, and splice regions
database
summary
HSSP
Structural families and alignments; structurarlly-conserved regions and domain
architecture
database summary
HTPSELEX
Transcription factor binding site sequences obtained using high-throughput
SELEX method
database
summary
HUGE - Human Unidentified Gene-Encoded
large proteins
Large (>50 kDa) human proteins and cDNA sequences
database summary
HugeIndex - Human Gene Expression
Index Haverty, P.1, Weng, Z.2,
Best, N.3, Auerback, K.3, Hsiao, L.3, Jensen,
R.4, Gullans, S.3
mRNA expression levels of human genes in normal tissues
database summary
HuGeMap
Human genome genetic and physical map data
database
summary
Human BAC Ends Database
Non-redundant human BAC end sequences
database
summary
Human Genome Segmental Duplication
Database Cheung J., Estivill X., Khaja R.,
MacDonald J.R., Lau K., Tsui L.C. and Scherer S.W.
Segmental duplications in the human genome
database summary
Human MtDB Ingman M.
Human mitochondrial genome database
database summary
Human p53, human hprt, rodent lacI and
rodent lacZ databases
Mutations at the human p53 and hprt genes; rodent transgenic lacI and lacZ
mutations
database
summary
Human PAX2 Allelic Variant Database
Mutations in human PAX2 gene
database summary
Human PAX6 Allelic Variant Database
Mutations in human PAX6 gene
database summary
HumHot Nishant
K.T.1, Kumar C.2 and Rao M.R.S.1,2
Human meiotic recombination hot spots
database summary
HUNT Yudate,
HT.1, Suwa, M.2, Irie, R.1, Matsui, H.3,
Nishikawa, T.4, Nakamura, Y.1, Yamaguchi, D.5,
Zhang, Z.1, Yamamoto, T.1, Nagai, K.1,
Hayashi, K.1, Otsuki, T.1, Sugiyama, T.1, Ota,
T.1, Suzuki, Y.6, Sugano, S.6, Isogai, T.1,
Masuho, Y.1
Annotated human full-length cDNA sequences
database summary
HuSiDa - Human siRNA database
Human siRNA database
database
summary
HvrBase++ Kohl J.1, Paulsen I.1, Laubach T.1,
Radtke A.1, von Haeseler A.2,3,4,5
A phylogenetic database of sequence samples from all primates
database summary
HyPaLib Steger,
G.1, Gräf, S.1, Kurtz, S.2, Strothmann, D.2
Structural elements characteristic for classes of RNA
database
summary
IARC TP53 Database Olivier, M.1, Hollstein M.2, Harris C.C..3,
Hainaut P..1
Human TP53 somatic and germline mutations
database summary
ICB
gyrB database for identification and classification of bacteria
database
summary
ICDS
Interrupted coding sequences - frameshifts, stop codons, sequencing errors in
microbial genomes
database
summary
IGTC
International mouse Gene Trap Consortium data
database summary
IL2Rgbase
X-linked severe combined immunodeficiency mutations
database
summary
IMB Jena Image Library Reichert, J., Suehnel, J.
Visualization and analysis of 3D biopolymer structures
database summary
IMG
Intergrated microbial genome database at the DOE Joint Genome Institute
database summary
IMGT Lefranc,
M.-P.
Immunoglobulin, T cell receptor, and MHC sequences from human and other
vertebrates
database summary
IMGT-GENE-DB Giudicelli, V., Lefranc, M.-P.
Immunoglobulin, T cell receptor, and MHC sequences from
human and other vertebrates
database
summary
IMGT/3Dstructure-DB Kaas, Q., Ruiz, M., Lefranc, M.-P.
Immunoglobulin, T cell receptor, and MHC sequences from
human and other vertebrates
database summary
IMGT/HLA Robinson J., Waller M.J., Marsh S.G.E.
Polymorphic sequences of human MHC and related genes
database summary
IMGT/LIGM-DB Chaume, D., Giudicelli, V., Lefranc, M.-P.
Immunoglobulin, T cell receptor, and MHC sequences from
human and other vertebrates
database
summary
IMGT/PRIMER-DB Folch G.1,2, Bertrand J.1, Lemaitre M.2
and Lefranc M.-P.1
Immunoglobulin, T cell receptor, and MHC sequences from human and other
vertebrates
database
summary
IMOTdb Pugalenthi
G., Bhaduri A. and Sowdhamini R.
Spatially interacting motifs in proteins
database summary
Imprinted Gene Catalogue Morison, I.M.1, Glaser, R.2
Imprinted genes and parent-of-origin effects database
database summary
InBase Perler,
F.B.
All known inteins (protein splicing elements): properties, sequences,
bibliography
database
summary
INE Matsumoto,
T.1, Mukai, Y.1, Namiki, N.1, Sakai, Y.2,
Makino, K.2, Sakata, K.2, Antonio, B.1,
Sasaki, T.1
Integrated database for rice genome analysis and sequencing
database
summary
INFEVERS
Hereditary inflammatory disorder and familial mediterranean fever mutation data
database summary
Influenza Virus Resource Bao Y., Bolotov P., Zaslavsky L. and Tatusova T.
NCBI Influenza Virus Sequence Database
database
summary
Inparanoid
A database of eukaryotic orthologs
database summary
IntAct Hermjakob,
H. 1, Montecchi-Palazzi, L. 2, Lewington, C. 1,
Mudali, S. 1, Kerrien, S. 1, Orchard, S. 1,
Khadake, J. 1, Harwood, J. 1, Roechert, B. 3,
Fierro-Monti, I. 4, Matthiesen, R. 4, Dimmer, E. 1,
Lee, V. 1, Robbe, K. 1, Vingron, M. 5,
Roepstorff, P. 4, Valencia, A. 6, Margalit, H. 7,
Armstrong, J. 8, Bairoch, A. 3, Cesareni, G. 2,
Sherman, D. 9, Apweiler, R. 1
Protein-protein interaction data
database summary
Integr8 (formerly Proteome Analysis
Database) Kersey P.J., Bower L., Horne A.D. and
Apweiler R.
Functional classification of proteins in whole genomes
database summary
IntEnz Fleischmann,
A. 1, Darsow, M. 1, Degtyarenko, K. 1,
Fleischmann, W. 1, Hermjakob, H. 1, Boyce, S.2,
Axelsen, K.B.1, Bairoch, A.3, Schomburg, D.4,
Tipton, K.F.2, Apweiler, R. 1
Integrated enzyme database and enzyme nomenclature
database summary
Inter-Chain Beta-Sheets
Protein-protein interactions mediated by interchain beta-sheet formation
database
summary
InterActive Fly
Drosophila genes and their roles in development
database
summary
InterDom
Putative protein domain interactions
database summary
Interferon Stimulated Gene Database
Genes induced by treatment with interferons
database
summary
InterPro Apweiler R.1, Attwood T.K.4, Bairoch A.2,
Bateman A.5, Binns D.1, Bradley P.1,4, Bork P.8,
Bucher P.3, Cerutti L.3, Copley R.13,
Courcelle E.6, Das U.1, Durbin R.5,
Fleischmann W.1, Gough J.11, Gouzy J.6,
Griffiths-Jones S.5, Haft D.9, Harte N.1, Hulo
N.2, Kahn D.6, Kanapin A.1, Krestyaninova M.1,
Lonsdale D.1, Lopez R.1, Letunic I.8, Madera
M.12, Maslen J.1, McDowall J.1, Mulder N.1,
Nikolskaya A.N.10, Orchard S.1, Pagni M.3,
Peyruc D.6, Ponting, C.7, Quevillon E.1, Servant
F.1, Sigrist C.2, Studholme D.J.5, Vaughan R.1
and Wu C.H.10
Protein families and domains
database summary
Intronerator
RNA splicing and gene structure in C. elegans; alignments of C. briggsae and C.
elegans genomic sequences
database
summary
INVHOGEN Ingo Paulsen1 and Arndt von Haeseler2,3,4,5
Homologous genes in invertebrate genomes
database
summary
IPD - Immuno Polymorphism Database Robinson, J., Waller, M.J., Marsh, S.G.E.
Major histocompatibility complex sequences
database summary
IPD-ESTDAB Robinson J., Waller M.J., Marsh S.G.E.
Immunologically characterised melanoma cell lines
database summary
IPD-HPA - Human Platelet Antigens Robinson J., Waller M.J., Marsh S.G.E.
Immuno polymorphism of human platelet antigens
database summary
IPD-KIR - Killer-cell Immunoglobulin-like
Receptors Robinson J., Waller M.J., Marsh S.G.E.
Immuno polymorphism of killer-cell Ig-like receptors
database summary
IPD-MHC Robinson
J., Waller M.J., Marsh S.G.E.
Sequences of the major histocompatibility complex
database summary
IPI - International Protein Index Kersey, P.J., Duarte, J., Apweiler, R.
Non-redundant sets of human, mouse and rat proteins
database summary
iProClass Wu, C.H.1, Huang, H.1, Chen, Y.2,
Barker, W.C.2
Annotated protein database with family, function, and structure information
database
summary
iProLINK Hu Z.Z. and Wu C.H.
Annotated literature sources for protein features and names
database summary
IRESdb - the Internal Ribosome Entry
Site database Bonnal, S., Boutonnet, C.,
Prado-Lourenco, L., Vagner, S.
The Internal Ribosome Entry Site database
database
summary
IRESite Mokrejs
M.1,2, Vopalensky V.1, Kolenaty O.1, Masek T.1,
Feketova Z.1, Sekyrova P.3, Skaloudova B.1,
Kriz V.4 and Pospisek M.1,5
Experimentally studied internal ribosome entry sites
database summary
IRIS - International Rice Information
System McLaren, CG, Bruskiewich, RM
Rice germplasm geneology and field data; rice structural and functional
genomics and proteomics
database summary
Isfinder Siguier P.1, Perochon J.1, Lestrade L.1,
Mahillon J.2 and Chandler M.1
A database of bacterial Insertion Sequences
database summary
Islander
Pathogenicity islands and prophages in bacterial genomes
database summary
ISSD
Integrated sequence and structural information
database
summary
ITTACA Elfilali
A.1,2, Lair S.1,2, Verbeke C.1,2, La Rosa P.1,
Radvanyi F.2 and Barillot E.1,2
Microarray gene expression and clinical data on tumors
database summary
IUBMB Nomenclature database Gerard P. Moss
Nomenclature of enzymes, membrane transporters, electron transport proteins and
other proteins
database summary
IUPAC Nomenclature database Gerard P. Moss
Nomenclature of biochemical and organic compounds approved by the IUBMB-IUPAC
Joint Commission
database summary
IUPHAR-RD
The International Union of Pharmacology recommendations on receptor
nomenclature and drug classification
database
summary
IXDB
Physical maps of human chromosome X
database
summary
JASPAR
Collection of PSSMs for transcription factor DNA-binding sites
database summary
JenPep McSparron,
H, Blythe, MJ, Zygouri, C, Doytchinova, IA, Flower, DR
Functional and quantitative thermodynamic data on peptide binding to
immunological biomacromolecules
database summary
JSNP Kuroda
M.1, Uchida N.1, Kawaguchi T.1, Yasuda E.1,
Tanaka T.2, Takagi T.2 and Nakamura Y.2
Japanese SNP database
database summary
KaryotypeDB Nenno M.
Karyotype and chromosome data for animal and plant species
database summary
KDBI Ji
ZL1, Han BC1, Wang YP1, Zhang YT1,
Liang L1, Han LY2, Zheng CJ2, Chen YZ2
Kinetic Data of Bio-molecular Interaction
database
summary
KEGG - Kyoto Encyclopedia of Genes and
Genomes
Metabolic and regulatory pathways
database summary
Kidney Development Database Davies J.A.
Kidney development and gene expression
database
summary
KinG - Kinases in Genomes Anamika, Krupa, A. and Srinivasan, N.
Ser/Thr/Tyr-specific protein kinases encoded in complete genomes
database
summary
KinMutBase
Disease-causing protein kinase mutations
database
summary
Klotho
Collection and categorization of biological compounds
database summary
Knottins
Database of knottins - small proteins with an unusual "disulfide through
disulfide" knot
database summary
KOG - Eukaryotic Orthologous Groups of
proteins Tatusov, R.L., Natale, D.A., Fedorova,
N.D., Jackson, J., Jacobs, A., Krylov, D.M., Mekhedov, S.L., Nikolskaya, A.N.,
Rao, B.S., Wolf, Y.I., Aravind, L., Lanczycki, C., Masumder, R., Sreekumar, K.,
Vasudevan, S., Walker, D.R., Tatusova, T.A., Yao, K., Yin, J., Koonin, E.V.
Protein families from complete eukaryotic genomes
database
summary
L1Base
Functional annotation and prediction of LINE-1 elements
database summary
LEGER Dieterich
G., Kärst U., Fischer E., Wehland J. and Jänsch L.
Comparative genomics of pathogenic and non-pathogenic Listeria spp.
database
summary
Legume Information System Waugh M.1, Anderson W.1, Bell C.2,
Inman J.1, Schilkey F.1, Sullivan J.1, May G.3
Model legume Medicago ESTs, gene expression and proteomic data
database
summary
LeptoList Cédric Cabau1, Virginie Cubas1, Gang Fang1,3,
Christine Ho1, Zhou Yu1, Ivan Moszer2,3,
Antoine Danchin1,3
Leptospira interrogans genome database
database
summary
LGICdb Le
Novere, N.
Ligand-gated ion channel subunit sequences
database
summary
LIFEdb Mehrle
A.1, Rosenfelder H.1, Schupp I.1, del Val C.2,
Arlt D.1, Hahne F. 1, Bechtel S. 1, Simpson J.3,
Hofman O.4, Winston Hide W.1, Glatting K.-H.2,
Huber W.5, Pepperkok R.4, Poustka A.1 and
Wiemann S.1
A database on localization, interaction, functional assays and expression of
human proteins
database summary
LIGAND Goto,
S.1, Okuno, Y.1, Hattori, M.1, Nishioka, T.2,
Kanehisa, M.1
Chemical compounds and reactions in biological pathways
database summary
Lipase Engineering Database Fischer, M., Pleiss, J.
Integrated information on sequence, structure, and function of lipases and
esterases
database summary
Lipid MAPS Cotter D.1, Maer A.1, Guda C.2, Saunders B.1,
and Subramaniam S.1,3
Lipid-associated proteins
database
summary
LOCATE Fink
J.L.1,2, Aturaliya R.N.1,2, Davis M.J.2, Zhang
F. 2, Hanson K.1,2, Teasdale M.S. 2, Kai C. 3,
Kawai, J.3,4, Carninci P.3,4, Hayashizaki Y.3,4
and Teasdale R.D.1,2
Subcellular localization of mouse proteins
database summary
LOLA
List of lists annotated: a comparison of gene sets identified in different
microarray experiments
database summary
Lowe Syndrome Mutation Database
Mutations in the OCRL1 gene encoding phosphatidylinositol-4,5-bisphosphate
5-phosphatase
database
summary
LOX-DB Lütteke,
T.1, Krieg, P.2, Fürstenberger, G.2, von der
Lieth, C.-W.1
Mammalian, invertebrate, plant and fungal lipoxygenases
database
summary
LPFC
Library of protein family core structures
database
summary
LumbriBASE
ESTs of the earthworm Lumbricus rubellus
database summary
MACiE Almonacid
D.E.1, Holliday G.L.1, O'Boyle N.M.1,
Murray-Rust P.1, Mitchell J.B.1, Bartlett G.J.2
and Thornton J.M.2
Mechanism, Annotation and Classification in Enzymes
database
summary
MAGEST
Ascidian (Halocynthia roretzi) gene expression patterns
database summary
MagnaportheDB
Magnaporthe grisea integrated physical/genetic map
database
summary
MaizeGDB Lawrence, C.J.1, Dong, Q.1, Polacco, M.L.3,
Seigfried, T.E.1, Brendel, V.1,2
Maize genetics and genomics database
database summary
MAMEP - Molecular Anatomy of the Mouse
Embryo Project
Gene expression data on mouse embryos
database summary
MamMiBase de Vasconcelos A.T.R.1, Guimarães A.C.R.1,
Castelletti C.H.M.1, Caruso C.S.1, Ribeiro C.1,
Yokaichiya F.1, Armôa G.R.G.3, Pereira G.S.P.1,
da Silva I.T.1, Schrago C.G.2, Fernandes A.L.V.1,
da Silveira A.R.1, Carneiro A.G.1, Carvalho B.M.1,
Viana C.J.M.1, Gramkow D.1, Lima F.J.1, Corrêa
L.G.G.1, Mudado M.A.1, Nehab-Hess P.2, de
Souza R.1, Corrêa R.L.1 and Russo C.A.M.2
Mammalian Mitochondrial genome database
database
summary
MAPPER
Putative transcription factor binding sites in various genomes
database summary
MapViewer
Display of genomic information by chromosomal position
database
summary
MAtDB
MIPS Arabidopsis thaliana database
database summary
MBGD Uchiyama
I.
Microbial genome database for comparative analysis
database summary
MeGX Lombardot
T.1, Kottman R.1, Pfeffer H.1, Richter M.1,
Teeling H.1, Quast C.1 and Glöckner F.O.1,2
Database portal for marine ecological genomics
database summary
MEPD: A Medaka gene expression pattern
database Henrich, T.1, Ramialison, M.1,
Quiring, R.2, Wittbrodt, B.2, Furutani-Seiki, M.1,
Wittbrodt, J.2, Kondoh, H.1
Gene expression data from the small freshwater fish Medaka (Oryzias latipes)
database summary
MeRNA Stefan
L.R.1, Zhang R.1, Levitan A.G.1, Hendrix D.K.1,2,
Brenner S.E.1,2 and Holbrook S.R.1
Metal ion binding sites in RNA structures
database summary
MEROPS Rawlings,
N.D., Tolle, D.P., Barrett, A.J.
Proteolytic enzymes (proteases/peptidases)
database summary
MetaCyc Karp,
P.D., Riley, M.
Metabolic pathways and enzymes from various organisms
database summary
MetaGrowth Ogata, H. and Claverie, J.-M.
Growth requirements of bacterial pathogens
database summary
Metalloprotein Site Database Castagnetto, J.M., Hennessy, S.W., Roberts, V.A., Getzoff, E.D.,
Tainer, J.A., Pique, M.E.
Metal-binding sites in metalloproteins
database summary
MetaRouter
Compounds and pathways related to bioremediation
database summary
MethDB Grunau,
C.1, Renault, E.1, Hindermann, W.2, Roizes, G.1
DNA methylation data, patterns, and profiles
database summary
MFunGD
MIPS mouse functional genomics database
database
summary
MGC - Mammalian Genome Collection
Full-length open reading frame clones for human, mouse, and rat genes
database summary
MGD - Mouse Genome Database Blake J.A., Eppig J.T., Richardson J.E., Bult C.J., Kadin J.A., Mouse
Genome Database Group
Mouse genetics, genomics, alleles & phenotypes
database summary
MHC-Peptide Interaction Database Ranganathan, S.1, Govindarajan, K.R.1, Kangueane,
P.2, Tan, T.W.1
Class I and Class II MHC-peptide complexes
database summary
MHCBN Bhasin
M. and Raghava G.P.S.
A database of MHC binding and non-binding peptides
database
summary
MHCPEP
MHC-binding peptides
database summary
MICdb - Database of Prokaryotic
Microsatellites Sreenu, V.B.1,
Ranjitkumar, G.1, Swaminathan, S.1, Priya, S.1,
Bose, B.1, Narendra Pavan, M.1, Nagaraju, J.2,
Nagarajaram, H.A.1
Prokaryotic microsatellites
database
summary
microRNA Registry
Database of microRNAs (small noncoding RNAs)
database
summary
MIPS
Databases at Munich Information Center for Protein Sequences
database summary
miRNAMap
microRNA precursors and their mapping to targets in vertebrate genomes
database summary
Mitochondriome Lanave C.1, Licciulli F.2, Incampo L.2,
Marolla A.2, Attimonelli M.2
Metazoan mitochondrial genes
database
summary
MitoDat
Mitochondrial proteins (predominantly human)
database
summary
MitoDrome D’Elia D.1, Catalano D.1, Licciulli F.1,
Turi A.1, Tripoli G.2, Porcelli D.2, Saccone
C.2,3 and Caggese C.2
Drosophila nuclear-encoded proteins targeted to the mitochondrion
database
summary
MITOMAP
Human mitochondrial genome
database summary
MitoNuc Catalano
D.1, Licciulli F.1, Grillo G.1, Turi A.1,
Saccone C.1,2 and D'Elia D.1
Nuclear genes coding for mitochondrial proteins
database summary
MITOP2
Mitochondrial proteins, genes, and diseases
database summary
MitoPD
Yeast mitochondrial protein database
database
summary
MitoProteome
Mitochondrial protein sequences encoded by mitochondrial and nuclear genes
database summary
MMDB
All experimentally-determined 3D structures, linked to NCBI Entrez
database
summary
MNCDB
MIPS Neurospora crassa database
database
summary
Mobile group II introns database Dai, L., Toor, N., Olson, R., Keeping, A., Zimmerly, S.
Database for mobile group II introns
database
summary
ModBase Pieper,
U., Eswar, N., Stuart, A.C., Braberg, H., Madhusudhan, M.S., Davis, F., Rossi,
A., Marti-Renom, M.A., Sali, A.
Annotated comparative protein structure models
database summary
MODOMICS Dunin-Horkawicz S.1, Czerwoniec A.2, Gajda M.J.1,
Feder M.1, Grosjean H.3, and Bujnicki J.M.1,2
A database of RNA modification pathways
database summary
MolliGen
Genomic data on mollicutes
database
summary
MolMovDB - Database of Macromolecular
Movements
Descriptions of protein and macromolecular motions, including movies
database
summary
Monosaccharide Browser
Space filling Fischer projections of monosaccharides
database
summary
MOsDB Karlowski
W.1, Schoof H.2,3, Spannagl M.2,3, Yang L.3
and Mayer K.F.X.3
MIPS Oryza sativa database
database
summary
Mouse Atlas and Gene Expression
Database
Spatially-mapped gene expression data
database summary
Mouse SAGE
SAGE libraries from various mouse tissues and cell lines
database summary
Mpact Gueldener
U.1, Muensterkoetter M.1, Oesterheld M.1,
Pagel P.1, Ruepp A.1, Mewes H.W.1,2 and
Stuempflen V.1
Yeast protein-protein interaction data
database
summary
MPDB - Molecular Probe Database Marra, D., Romano, P.
Information on synthetic oligonucleotides proven useful as primers or probes
database
summary
MPIMP - Mitochondrial Protein Import
Machinery of Plants
Mitochondrial protein import machinery of plants
database
summary
MPromDB
Mammalian promoter database
database
summary
MTB - Mouse Tumor Biology Database Bult, C.J., Krupke, D.M, Naf, D., Sundberg, J.P., Eppig, J.T.
Mouse tumor names, classification, incidence, pathology, genetic factors
database summary
MtbRegList Jacques P.E.1,2, Gervais A.L.1,2, Cantin M.2,
Lucier J.F.3, Dallaire G.2, Drouin G.1,
Gaudreau L.1, Goulet J.2 and Brzezinski R.1
Gene expression in Mycobacterium tuberculosis
database
summary
MtDB - Medicago trunculata
Database
Medicago trunculata genome
database summary
MTID - Mouse Transposon Insertion
Database
Mouse transposon insertion database
database
summary
MulPSSM Gowri
V.S.1, Krishnadev O.1, Swamy C.S.1,2 and
Srinivasan, N.1
Position-specific scoring matrices of protein domain families
database
summary
NASCarrays
Nottingham Arabidopsis Stock Centre microarray database
database summary
NCBI Protein database
All protein sequences: translated from GenBank and imported from other protein
databases
database summary
NCBI Taxonomy Browser
Names of all organisms that are represented in GenBank
database
summary
NCBI Viral genomes
Viral genome resource at NCBI
database
summary
NCIR - Non-Canonical Interactions in
RNA Nagaswamy, U., Huang, H-C., Larios-Sanz, M.,
Wang, J., Zhao, Q., Fox, G.E.
Non-standard base-base interactions in known RNA structures
database summary
NCL Mutation Database Mole, S.E.
Mutations and polymorphisms in neuronal ceroid lipofuscinoses (NCL) genes
database summary
ncRNAs database Szymanski, M.1, Erdmann, V.A.2, Barciszewski, J.1
Noncoding RNAs with regulatory functions
database
summary
NDB
Nucleic acid-containing structures
database summary
NegProt - Negative Proteome database
A tool for comparison of complete proteomes
database summary
Nematode.net
Parasitic nematode sequencing project
database summary
NEMBASE
Nematode sequence and functional data database
database summary
NESbase la
Cour, T.2, Gupta, R.1, Rapacki, K.1, Skriver,
K.2, Poulsen, F. M.2, Brunak, S.1
Nuclear export signals
database
summary
NetAffx
Public Affymetrix probesets and annotations
database summary
NLSdb Nair,
Rajesh2, Carter, Phil1, Rost, Burkhard3
Nuclear localization signals
database
summary
NMPdb - Nuclear matrix associated
proteins database
Nuclear matrix associated proteins database
database summary
Non-Human Genome Segmental Duplication
Database Cheung J., Zhang J., Khaja R., MacDonald
J.R. and Scherer S.W.
Segmental duplications in mouse, dog and chicken genomes
database summary
NONCODE
A database of noncoding RNAs
database
summary
NOPdb - Nucleolar Proteome Database Leung A.K.1, Trinkle-Mulcahy L2. and Lamond, A.I.2
Nucleolar proteome database
database summary
NPD - Nuclear Protein Database Dellaire, G.1, Farrall, R.2, Bickmore, W.A.2
Proteins localized in the nucleus
database summary
NPInter Wu
T.1,3, Wang J.1,3, Liu C.2,3, Zhang Y.1,3,
Shi B.1,3, Zhu X.1,3, Zhang Z.1,3, Skogerbø G.1,
Chen L.2,3, Lu H.2,3, Zhao Y.2 and Chen R.1,2
Noncoding RNA-protein interactions
database summary
NPRD - Nucleosome Positioning Region
Database
Nucleosome positioning region database
database summary
NRSub
Bacillus subtilis genome
database
summary
NTDB Chiu,
W. L. A. K., Sze, C. N., Ma, N. T., Chiu, L. F., Leung, C. W., Au-Yeung, S. C.
F.
Thermodynamic data for nucleic acids
database summary
Nuclear Receptor Resource Danielsen, M., Martinez, E.
Nuclear receptor superfamily
database
summary
NucleaRDB
Nuclear receptor superfamily
database summary
NUREBASE Ruau, D.1, Duarte, J.1, Ourjdal, T.1,
Perrière, G.2, Laudet, V.1, Robinson-Rechavi, M.1
Nuclear hormone receptors
database
summary
NURSA Neil
McKenna
Nuclear Receptor Signaling Atlas
database summary
O-GLYCBASE Julenius, K., Rapacki, K., Brunak, S., Gupta, R.
O- and C-linked glycosylation sites in proteins
database
summary
ODB - Operon database Okuda S.1, Katayama T.2, Kawashima S.2,
Goto S.1 and Kanehisa M.1
Operon database
database summary
OGD - Oomycete Genomics Database
Oomycete ESTs and annotation
database summary
OGRe - Organellar Genome Retrieval Tang B., Xu W., Jameson D., Higgs P.
Mitochondrial genome sequences, gene orders and codon usage tables
database summary
Olfactory Receptor Database
Sequences for lfactory receptor-like molecules
database
summary
OMIA - Online Mendelian Inheritance in
Animals Nicholas F.W.
Catalog of animal genetic and genomic disorders
database summary
OMIM - Online Mendelian Inheritance in
Man
Catalog of human genetic and genomic disorders
database summary
OncoMine
Cancer microarray data by gene or cancer type
database summary
ooTFD Ghosh
D.
Transcription factors and gene expression
database summary
OPD - Open Proteomics Database
Mass-spectrometry-based proteomics data for human, yeast, E.coli and Mycobacterium
database
summary
OPD - Osteo-Promoter Database
Genes involved in osteogenic proliferation and differentiation
database summary
openSputnik Rudd S.
Plant EST clustering and functional annotation
database summary
OPHID Brown
K.R.1,2 and Jurisica I.1,2,3
Online Predicted Human Interaction Database
database summary
Oral Cancer Gene Database
Cellular, molecular, and biological data for genes involved in oral cancer
database
summary
ORFanage
Database of orphan ORFs (ORFs with no homologs) in complete microbial genomes
database
summary
ORFDB
Collection of ORFs that are sold by Invitrogen
database summary
Organelle DB
Organelle proteins and subcellular structures
database summary
Organelle genomes
Organelle genome resource at NCBI
database
summary
OrthoMCL Chen F., Mackey A.J., Stoeckert C.J.,Jr. and Roos D.S.
Orthologous protein clusters from multiple genomes
database summary
OryGenesDB
Rice genes, T-DNA and Ds flanking sequence tags
database summary
Oryza Tag Line P. Larmande1, C. Gay1,
C. Sallaud1, C. Périn1, P. Perez2, M. Lorieux3,
J.B. Morel4, A.A.T. Johnson1, M. Ruiz1, B.
Courtois1 and E. Guiderdoni1
T-DNA insertion mutants of rice
database
summary
Oryzabase Yamazaki, Y.1, Yoshimura, A.3, Nagato, Y.2,
Yamakawa, T.1, Kurata, N.4
Rice genetics and genomics
database
summary
PA-GOSUB
Protein sequences from model organisms, GO assignment and subcellular
localization
database
summary
PACRAT
Archaeal and bacterial intergenic sequence features
database
summary
PAHdb Scriver,
C.R.1, Hurtubise, M.1, Konecki, D.2,
Phommarinh, M.1, Prevost, L.1, Erlandsen, H.3,
Stevens, R.3, Waters, P.J.4, Ryan, S.1,
McDonald, D.5, Sarkissian, C.1
Mutations at the phenylalanine hydroxylase locus
database summary
PALI Swamy
C.S.1,2, Krishnadev O.1, Srinivasan N.1, Gowri
V.S.1
Phylogeny and alignment of homologous protein structures
database
summary
PANDIT
Protein and associated nucleotide domains with inferred trees
database
summary
PANTHER
Gene products organized by biological function
database summary
PANZEA Zhao
W.1, Canaran P.1, Jurkuta R.2, Fulton T.3,
Glaubitz J.2, Buckler E.3,4, Doebley J.2, Gaut
B.5, Goodman M.6, Holland J.6,7, Kresovich S.3,
McMullen M.8,9, Stein L.1 and Ware D.1,4
Maize genome project data
database summary
ParaDB
Paralogy mapping in human genomes
database
summary
ParameciumDB Arnaiz 0. and Sperling L.
Paramecium genome sequencing project
database
summary
PartiGeneDB
Assembled partial genomes for ~250 eukaryotic organisms
database summary
PASS2 Bhaduri,
A., Pugalenthi, G., Sowdhamini, R.
Structural motifs of protein superfamilies
database
summary
PathBase
European mutant mice pathology database: histopathology photomicrographs and
macroscopic images
database summary
PathDB Kuffner,
R.M., Gonzales, M., Steadman, P., Wlodek, D.K., Jankowitz, R.J., Boinoff, J.R.,
MontoyA, L., Peterson, T.F., Bulmore, D.L., Blanchad, J.B.
Biochemical pathways, compounds, and metabolism
database summary
Pathguide Bader G.D., Cary M.P. and Sander C.
A listing of pathway, signal transduction and protein-protein interaction
databases
database summary
PDB
Protein structure databank: all publicly available 3D structures of proteins
and nucleic acids
database summary
PDB-Ligand Jae-Min Shin and Doo-Ho Cho
3D structures of small molecules bound to proteins and nucleic acids
database summary
PDB-REPRDB Noguchi, T., Akiyama, Y.
Representative protein chains, based on PDB entries
database
summary
PDBrtf
Representation of target families of enzymes in PDB
database summary
PDBSite
3D structure of protein functional sites
database
summary
PDBsum Laskowski,
R.A.
Summary of key information on structures in PDB
database
summary
PDB_TM Gábor
E. Tusnády, Zsuzsanna Dosztányi and István Simon
Transmembrane proteins with known 3D structure
database summary
PDZBase
Protein-protein interactions involving PDZ domains
database
summary
PEC - Profiling of E. coli
Chromosome
Comprehensive database on E. coli genome
database
summary
PEDANT Frishman,
D.1, Mokrejs, M.1, Kosykh, D.1, Kastenmüller,
G.1, Kolesov, G.1, Zubrzycki, I.1, Gruber, C.2,
Geier, B.2, Kaps, A.2, Albermann, K.2, Volz,
A.2, Wagner, C.2, Fellenberg, M.2, Heumann, K.2,
Mewes, H.-W.3
Automated analysis of genomic sequences
database summary
PEDB
Sequences from prostate tissue and cell type-specific cDNA libraries
database summary
PEDE - Pig EST Data Explorer
Full-length pig cDNA libraries and ESTs
database summary
PEP: Predictions for Entire Proteomes Carter, P.1, Liu, J.2, Rost, B.1
Summarized analyses of protein sequences
database
summary
PepConfDB
A database of peptide conformations
database
summary
PEPR - Public Expression Profiling
Resource
Expression profiles in a variety of diseases and conditions
database summary
PepSeeker
Peptide identification and ion information from proteome experiments
database
summary
Peptaibol Whitmore, L., Wallace, B.A.
Peptaibol (antibiotic peptide) sequences
database
summary
PeptideAtlas Desiere F., Deutsch E.W., King N.L., Nesvizhskii A.I, Mallick P., Eng
J., Chen S., Eddes J., Loevenich S.N., and Aebersold R.
Peptides identified in LC-MS/MS proteomics experiments
database summary
Pfam
Multiple sequence alignments and hidden Markov models of common protein domains
database
summary
PFD - Protein Folding Database Buckle A.M.
Experimental data on protein folding
database summary
PGDB
Prostate and prostatic diseases gene database
database summary
PGTdb - Prokaryotic Growth Temperature
database
Prokaryotic growth temperature database
database summary
PharmGKB Altman R.B., Carrillo M.W., Gong M, Gor W., Hernandez-Boussard T.,
Holbert D., Kiuchi M., MacBride A., Murray T., Liu F., Thorn C.F., Woon M.,
Truong T., Zhou T. and Klein T.E.
Variation in drug response based on human variation
database summary
PhenomicDB
Phenotypes of orthologous genes in human and model organisms
database summary
PHEXdb Sabbagh,
Y., Tenenhouse, H.S.
Mutations in PHEX gene causing X-linked hypophosphatemia
database summary
PHI-base Winnenburg R.1, Baldwin T.K.2, Urban M.2,
Rawlings C.1, Köhler J.1 and Hammond-Kosack K.E.2
Fungal Pathogen Host Interactions
database
summary
PhosphoELM Base
Protein phosphorylation sites
database summary
Phytome Hartmann
S., Lu D., Phillips J. and Vision T.J.
Plant protein families
database summary
PHYTOPROT
Clusters of predicted plant proteins
database
summary
PINdb
Proteins interacting in nucleus (human and yeast)
database summary
PINT Shaji
Kumar M.D.1 and Gromiha M.M.2
Protein-protein interactions thermodynamic database
database
summary
PIR-NREF Huang, H., Suzek, B.E., Wu, C.H.
Non-redundant reference protein sequence database
database
summary
PIR-PSD Wu
C.H.1, Yeh L.S.2, Huang H.1 and Barker W.C.2
PIR protein sequence database, has been merged into UniProt Knowledgebase and
UniParc
database summary
PIRSF Natale,
D.A.1, Arighi, C.1, Barker, W.C.2, Hu, Z. Z. 1,
Huang, H.1, Mazumder, R. 1, Nikolskaya, A. N. 1,
Vasudevan. S.2, Vinayaka, C. R.2, Yeh, L.S.2,
Wu, C. H.1
PIR's family/superfamily classification of whole proteins
database summary
PLACE Higo,
K.
Plant cis-acting regulatory elements
database
summary
Plant Genome Central
NCBI's portal for various large-scale plant genome and EST sequencing
projects
database
summary
Plant MPSS Nakano M.1, Nobuta K.1, Vemaraju K.2,
Singh Tej S.2, Skogen J.W.2, and Meyers B.C.1,2
Massively parallel signature sequencing of plant genes
database summary
Plant snoRNA DB
snoRNA genes in plant species
database
summary
PLANT-PIs De Leo F.1, Volpicella M.1, Licciulli F.2,
Liuni S.3, Gallerani R.1, Ceci L.R.3
Plant protease inhibitors
database
summary
PlantCARE Rombauts, S.1, Bonnet, E.1, Thijs, G.3,
Marchal, K.3, Moreau, Y.3, Van de Peer, Y.1,
Rouze, P.2
Plant cis-acting regulatory elements
database
summary
PlantGDB Dong, Q.1, Schlueter, S.D.1, Brendel, V.1,2
Actively-transcribed plant genomic sequences
database summary
PlantMarkers
A database of predicted molecular markers from plants
database summary
PLANTncRNAs MacIntosh G.C.1, Macalincag M-C.P.1, Green P.J.2
Plant non-protein coding RNAs with relevant gene expression information
database
summary
PlantProm
Plant promoter sequences
database summary
PlantsP/PlantsT Tchieu, J.2, Fana, F.1, Fink, J.L.1,
Harper, J.3, Nair, M.2, Niedner, R.H.1, Smith,
D.W.2, Steube, K.1, Tam, T.1, Veretnik, S.1,
Wang, D.1, Gribskov, M.1
Functional genomics databases focusing on proteins involved in plant
phosphorylation and membrane transport, respectively
database summary
PlasmoDB Bahl, A.1, Brunk, B.2, Coppel, R. L.3,
Crabtree, J.2, Diskin, S. J.2, Fraunholz, M. J.1,
Grant, G. R.2, Gupta, D.1, Huestis, R. L.3,
Kissinger, J. C.1, Labo, P.1, Li, L.1,
McWeeney, S. K.2, Milgram, A. J.1, Roos, D. S.1,
Schug, J.2, Stoeckert, C. J. Jr.2
Plasmodium genome
database summary
PLMItRNA Guglielmo Rainaldi1, Mariateresa Volpicella1,
Flavio Licciulli2, Sabino Liuni2, Raffaele Gallerani1,
Luigi Ruggiero Ceci2
Mitochondrial tRNA genes and molecules in photosynthetic eukaryotes
database
summary
PLPMDB
Pyridoxal-5'-phosphate dependent enzymes mutations
database summary
PLprot
Arabidopsis thaliana chloroplast protein database
database
summary
PMD Nishikawa,
K.
Compilation of protein mutant data
database summary
PMDB - Protein Model Database Castrignanò T.1, D'Onorio De Meo P.1, Cozzetto D.2,
Talamo I. G.2 and Tramontano, A.2,3
3D protein models obtained from structure predictions
database summary
POINT Huang
T.W.1,2, Tien A.C.1, Huang W.C.2, Lee Y.C.G.1,3,
Peng C.L.2, Tseng H.H.1,2, Kao C.Y.2 and Huang
C.Y. F.1,2,4
Prediction of human protein-protein interactome
database summary
PolyA_DB
A database of mammalian mRNA polyadenylation
database summary
Polymorphix Bazin E.1, Duret L.2, Penel S.2, and
Galtier N.1
A database of sequence polymorphisms
database
summary
PoMaMo - Potato Maps and More Meyer S.1, Nagel A.1, Basekow, R.1,
Gebhardt C.2
A comprehensive database for potato genome data
database summary
Poxvirus.org
Poxvirus genomic sequences and gene annotation
database summary
PPD Rajeevan
H.
Experimentally-determined protein pKa values
database summary
PPNEMA - Plant-Parasitic Nematode
rRNAs
Plant-parasitic nematode rRNAs
database summary
PRECISE: A Database of Predicted and
Consensus Interaction Sites in Enzymes
Predicted and consensus interaction sites in enzymes
database summary
PRF
Protein research foundation database of peptides: sequences, literature and
unnatural amino acids
database summary
PRIDE Jones
P.1, Côté R.G.1, Martens L.2, Quinn A.F.1,
Taylor C.F.1, Derache W.1, Hermjakob H.1 and
Apweiler R.1
Proteomics peptide identification database
database summary
PrimerPCR
PCR primers for eukaryotic and prokaryotic genes
database
summary
PRINTS Attwood,
T.K.1, Bradley, P.1,2, Gaulton, A.1, Maudling,
N. 1, Mitchell, A.1,2, Moulton, G.1
Hierarchical gene family fingerprints
database
summary
probeBase Horn M., Loy A. and Wagner M.
rRNA-targeted oligonucleotide probe sequences, DNA microarray layouts, and
associated information
database
summary
ProDom Courcelle
E., Beausse Y., Carrère S., Bru C., Dalmar S., Kahn D.
Protein domain families
database
summary
PRODORIC
Prokaryotic database of gene regulation and regulatory networks
database summary
ProLysED - Prokaryotic Lysis Enzymes
Database Firdaus Raih, M.1, Ahmad,
H.A.2, Sharum, M.Y.2, Mohamed, R.1,2
A database of bacterial protease systems
database summary
Prolysis
Proteases and natural and synthetic protease inhibitors
database
summary
PromEC
E. coli mRNA promoters with experimentally identified transcriptional
start sites
database summary
PROMISE Degtyarenko,
K.N., North, A.C.T., Findlay, J.B.C.
Prosthetic centers and metal ions in protein active sites
database
summary
ProNIT - Protein-nucleic acid
interactions
Thermodynamic data on protein-nucleic acid interactions
database
summary
PROPHECY
Profiling of phenotypic characteristics in yeast
database summary
ProRule Sigrist
C.J.A.1, Bairoch A.1,2, Bulliard V.1, De
Castro E.1, Langendijk-Genevaux P.S.1 and Hulo N.1
Functional and structural information on PROSITE profiles
database
summary
PROSITE Hulo,
N., Sigrist, C.J.A., Langendijk-Genevaux, P., Le Saux, V., Bairoch, A.
Biologically-significant protein patterns and profiles
database summary
Protein kinase resource
Protein kinase sequences, enzymology, genetics, and molecular and structural
properties.
database
summary
Protein-protein interfaces
Interacting residues in protein-protein interfaces in PDB
database
summary
ProTeus
Signature sequences at the protein N- and C-termini
database summary
ProTherm
Thermodynamic data for wild-type and mutant proteins
database
summary
ProtoMap
Automated hierarchical classification of SWISS-PROT proteins
database summary
ProtoNet
Hierarchical clustering of SWISS-PROT proteins
database summary
PseudoBase Batenburg,F.H.D.van1, Gultyaev,A.P.1,
Pleij,C.W.A.2
Structural, functional and sequence data related to RNA pseudoknots
database
summary
PseudoCAP
Pseudomonas aeruginosa genome database and community annotation project
database summary
PSIbase Gong,
S.1, Yoon, G. 2, Jang, I. 3, Bolser, D. 4,
Dafas, P. 5, Schroeder, M. 6, Choi, S. 1, Lee,
S. 1, Cho, Y. 2, Han, K. 7, Lee, S. 3,
Lappe, M. 8, Holm, L. 9, Kim, S. 3, Oh, D. 2,
Bhak, J. 1,2,3,10
Interaction of proteins with known 3D structures
database summary
PSORTdb
Protein subcellular localization in bacteria
database summary
pSTIING Ng
A., Bursteinas B., Gao Q., Mollison E. and Zvelebil M.
Protein-protein, protein-lipid and protein-small molecule interactions
database summary
PTCH1 Mutation Database
Mutations and SNPs found in PTCH1
database
summary
PubChem
Structures and biological activities of small organic molecules
database summary
PubMed
Citations and abstracts of biomedical literature
database summary
QPPD - Quantitative PCR Primer
Database
Primers for quantitative PCR of human and mouse genes
database
summary
QTL Matchmaker Star K.V.1,2, Song Q.2, Zhu A.2 and
Böttinger E.P.2
Quantitative trait loci information for human, mouse and rat
database
summary
RAD - Rice Annotation Database
Contig data for manual annotation of rice genome
database
summary
RAP-DB Ohyanagi
H.1,2, Tanaka T.3, Sakai H.3, Shigemoto Y.1,4,
Yamaguchi K.5, Habara T.5,6, Fujii Y.5,6,
Antonio B.A.3, Nagamura Y.3, Imanishi T.6,
Ikeo K.1, Itoh T.3,6, Gojobori T.1,6 and
Sasaki T.3
The Rice Annotation Project database
database summary
RARGE - RIKEN Arabidopsis Genome
Encyclopedia
Arabidopsis cDNAs, mutants and microarray data
database summary
Rat Genome Database Twigger, S.N.1, Shimoyama, M.1, Lu, J.1,
Pasko, D.1, Bromberg, S.1, Chen, C.F.1, Chen,
J.1, Gopinathrao, G.1, Nigam, R.1,
Ramachandran, H.1, Mathis, J.1, Nie, J.1,
Maltais, L.2, Eppig, J.T.2, Maglott, D.3,
Schuler, G.3, Jacob, H.J4, Tonellato, P.J.1
Rat genetic and genomic data
database summary
RatMap Ståhl
F.1,2, Levan G.1, Ilenius N.1, Johnson P.1,
Petersen G.1, Andersson L.1, Klinga-Levan K.3
and Gómez-Fabre P.M.1
Rat genome tools and data
database summary
RB1 Gene Mutation Database
Mutations in the human retinoblastoma (RB1) gene
database summary
Reactome Joshi-Tope G.1, Vastrik I.2, Gopinathrao G.1,
Wu G.1, Matthews L.1, Gillespie M.1,5, Arva A.1,
D'Eustachio P.1,3, Schmidt E.2, Jassal B.2,
de Bono B.2, Lewis S.4, Birney E.2 and Stein
L.D1
A database of metabolic and signaling pathways
database summary
REBASE Roberts
R.J., Macelis D.
Restriction enzymes and associated methylases
database
summary
RECODE Hammer
A.H.1, Atkins J.F.1, Fayet O.2, Gesteland R.F.1,
Giddings M.C.1,6, Gladyshev V.N.3, Gurvich O.L.1,
W. Allen Miller W.A.4, Namy O.5, Prère M.F.2,
Zhang Y.3 and Baranov P.V.1
Genes using programmed translational recoding in their expression
database summary
RefExA
Reference database for human gene expression analysis
database
summary
REFOLD Buckle
A.M.
Experimental data on protein refolding and purification
database summary
RefSeq Pruitt
K.D and Maglott D.R.
Reference sequence standards for genomes, genes, transcripts, and proteins
database
summary
RegulonDB Salgado, H, Gama-Castro, S., Martínez-Antonio, A., Díaz-Peredo, E.,
Sánchez-Solano, F., García-Alonso, D., Peralta-Gil, M., Santos-Zavaleta, A.,
Jiménez-Jacinto, V., Collado-Vides, J.
E. coli transcriptional
regulation and operon organization
database
summary
RESID
Protein structure modifications
database summary
Rfam Griffiths-Jones,
S.1, Bateman, A.1, Marshall, M.1, Khanna, A.2,
Eddy, S.R.2
Non-coding RNA families
database
summary
RHdb
Radiation hybrid map data
database summary
Ribonuclease P Database
RNase P sequences, alignments, and structures
database
summary
Ribosomal Database Project (RDP-II) Cole, J.R.1, Chai, B.1, Wang, Q.1,
Chandra, S.1, Farris, R.J.1, Kulam, S.A.1,
McGarrel, D.M.1, Schmidt, T.M.2, Garrity, G.M.2,
Tiedje, J.M.2
rRNA sequence data, analysis tools, alignments, and phylogenies
database summary
Rice Pipeline
Unification tool for rice databases
database summary
RIDOM - Ribosomal Differentiation of
Medical Microorganisms Harmsen, D.1,
Rothgänger, J.2, Sammeth, M.3, Albert, J.4
rRNA (16S and ITS) sequence-based identification of medical microorganisms
database summary
RISSC - Ribosomal Internal Spacer
Sequence Collection Casado, J.C.A.,
García-Martínez, J., Rodríguez-Sala, J.J., Rodríguez-Valera, F.
Ribosomal 16S-23S RNA gene spacer regions
database summary
RMD
Rice mutant database
database summary
RNA Modification Database
Naturally modified nucleosides in RNA
database
summary
RNA SSTRAND
RNA secondary structure data and structural motifs
database summary
RNABase Murthy,
V.L., Rose, G.D.
RNA-containing structures from PDB and NDB
database summary
RNAdb Pang
K.C.1,2, Stephen S.1, Engström P.G.3,
Tajul-Arifin K.1, Chen W.2, Wahlestedt C.3,
Lenhard B.3, Hayashizaki Y.4, and Mattick J.S.1
Mammalian noncoding RNA database
database
summary
RNAi codex Olson A., Sheth N., Lee J.S., Hannon G. and Sachidanandam R.
Available clones from mouse, human and rat shRNA libraries
database summary
RNAiDB
RNAi phenotypic analysis of C. elegans genes
database summary
RNRdb Lundin
D., Torrents E., Furrer E., Larsson Birgander P., Sahlin M., Poole A.M. and
Sjöberg B.-M.
Ribonucleotide reductase database
database summary
rOGED Gieske,
M.C., Payne, C.E., Gieske, J.B., and CheMyong Ko
Rat ovarian gene expression database
database
summary
ROSPath
Reactive oxygen species (ROS) signaling pathway proteins
database summary
RPD - Rice Proteome Database
Rice proteome database
database summary
RPG - Ribosomal Protein Gene database
Ribosomal protein gene database
database summary
RRNDB
Variation in prokaryotic ribosomal RNA operons
database summary
RsGDB
Rhodobacter sphaeroides genome
database
summary
rSNP Guide
Single nucleotide polymorphisms in regulatory gene regions
database
summary
RTCGD - Retroviral Tagged Cancer Gene
Database
Mouse retroviral tagged cancer gene database
database summary
RTKdb - Receptor Tyrosine Kinase
database
Receptor tyrosine kinase sequences
database summary
RTPrimerDB Pattyn, F., Speleman, F., De Paepe, A., Vandesompele, J.
Real-time PCR primer and probe sequences
database summary
S/MARt DB Liebich, I.1, Wingender, E.1,2
Nuclear scaffold/matrix attached regions
database
summary
S4: Structure-based Sequence
Alignments of SCOP Superfamilies
Structure-based sequence alignments of SCOP superfamilies
database
summary
SAGEmap
NCBI's resource for SAGE data from various organisms
database summary
SARS-CoV RNA SSS Wei-Bo Liu
Predicted secondary structures of SARS coronavirus RNA
database summary
SBASE Vlahovicek,
K1, Kajan, L1, Murvai, J2, Pongor, S1
Protein domain sequences and tools
database summary
SCAdb
Candidate genes for spinocerebellar ataxias
database
summary
SCMD - Saccharomyces cerevisiae
Morphological Database Saito T.L.1,3,
Nakatani Y.1,3, Sese J.1, Sano F.2,3, Yukawa
M.2,3, Ohya Y.2,3 and Morishita S.1,3
Micrographs of budding yeast mutants
database summary
SCOP - Structural Classification Of
Proteins Murzin, A.G., Lo Conte, L., Andreeva,
A., Howorth, D., Ailey, B.G., Brenner, S.E., Hubbard, T.J.P., and Chothia, C.
Structural classification of proteins
database summary
SCOPEC
Mapping of catalytic function to domain structure
database
summary
SCOPPI Winter,
C., Henschel, A., Kim W.K., Schroeder, M.
Structural classification of protein-protein interfaces
database summary
SCOR - Structural Classification Of
RNA Tamura, M.1, Hendrix, D.K.2,
Klosterman, P.S.1, Schimmelman, N.R.B.2, Brenner, S.E.1,2,
Holbrook, S.R.1
RNA structural relationships
database summary
Scorpion
Database of scorpion toxins
database
summary
SCPD - Saccharomyces cerevisiae
promoter database
A database of yeast promoters
database summary
SDAP Ivanciuc,
O., Schein, C.H., Braun, W.
Sequences, structures, and IgE epitopes of allergenic proteins
database summary
Secreted Protein Database
Secreted proteins from human, mouse and rat
database summary
SeedGenes
Genes essential for Arabidopsis development
database summary
SELEXdb
Selected DNA/RNA functional site sequences
database
summary
SENTRA
Sensory signal transduction proteins
database summary
SEVENS Suwa,
M.1, Sato, T.2, Okouchi, I.2, Arita, M.1,
Matsumoto, S.3, Tsutsumi, S.3, Aburatani, H.3,
Asai, K.1, Akiya, Y.1
7-transmembrane helix receptors
database summary
SGCEdb Johnson
D.H., Tsao J., Luo M. and Carson M.
Results of the Structural Genomics of Caenorhabditis Elegans project
database summary
SGD - Saccharomyces Genome Database Balakrishnan, R.1, Christie, K.R.1, Costanzo,
M.C.1, Dwight, S.S.1, Engel, S.R.1, Fisk, D.G.1,
Hirschman, J.E.1, Hong, E.L.1, Livstone, M.S.2,
Nash, R.1, Oughtred, R.2, Park, J.1, Skrzypek,
M.1, Theesfeld, C.L.1, Williams, J.1, Andrada,
R.1, Binkley, G.1, Dong, Q.1, Hitz, B.C.1,
Lane, C.1, Miyasato, S.1, Sethuraman, A.1,
Schroeder, M.2, Weng, S.1, Dolinski, K.2,
Botstein, D.2 and Cherry, J.M.1
Saccharomyces cerevisiae genes, gene products and their annotations.
database summary
SGMD
Soybean genomics and microarray database
database
summary
ShiBase Yang J.1, Chen L.H.1,
Yu J.2, Sun L.L.1, Jin Q.1
Comparative genomics of Shigella
database summary
SIDDBase Wang H., Kaloper M. and Benham C.J.
Stress-induced DNA duplex destabilization profiles of complete microbial
genomes
database
summary
SIEGE Shah,
V.1, Sridhar, S. 1, Beane, J. 1, Brody, J. 2 and Spira, A. 1,2
Smoking-induced epithelial gene expression
database summary
SilkDB Wang
J.1, Xia Q.2, He X.3,4, Dai M.3,
Ruan J.3,4, Chen J.3, Yu G.3, Yuan H.3,
Hu Y.3, Li R.3, Feng T.3, Ye C.3,
Lu C.2, Wang J.1,3,5, Li S.1, Wong G.K.-S.3,6,
Yang H.3,5, Wang J.3,5, Xiang Z.2, Zhou Z.2
and Yu J.3,5
Silkworm Bombyx mori genetic and genomic data
database summary
SilkSatDb Prasad, M.D.1, Muthulakshmi, M.1, Arunkumar, K.P.1,
Madhu, M.1, Sreenu, V.B.2, Pavithra, V.2, Bose, B.2,
Nagarajaram, H.A.2, Mita, K.3, Shimada, T.4
and Nagaraju, J.1
A microsatellite database of the silkworm Bombyx mori
database summary
SIMAP
The Similarity Matrix of Proteins
database
summary
siRNAdb Warfinge
R.E., Chalk A.M. and Sonnhammer E.L.L.
Functional human siRNA sequences
database summary
SitesBase
Known ligand binding sites in the PDB
database
summary
SKY/M-FISH and CGH
Fluorescent images of chromosomes and cytogenetic data
database summary
SLoop
Classification of protein loops
database
summary
Small RNA Database
Direct sequencing of small RNA sequences from prokaryotes and eukaryotes
database
summary
SMART Letunic,
I.1, Goodstadt, L.2, Dickens, NJ.2, Doerks, T.1,
Schultz, J.3, Ciccarelli, F.1, Copley, RR.1,
Ponting, CP.2, Bork, P.1
Simple Modular Architecture Research Tool
database summary
snoRNA-LBME-db Lestrade L.1 and Weber M.J.2
Human snoRNAs and Cajal body-specific RNAs (scaRNAs)
database summary
SNP500Cancer
Re-sequenced SNPs from 102 reference samples
database summary
SNPeffect J. Reumers1, J. Schymkowitz1, L. Serrano2,
J. Borg3, F. Stricher2 and F. Rousseau1
Phenotypic effects of human coding SNPs
database
summary
SOURCE Diehn,
M.1, Sherlock, G.2, Binkley, G.2, Jin, H.2,
Hernandez-Boussard, T.2, Cherry, J.M.2, Brown, P.O.3,
Alizadeh, A.A.4
Functional genomic resource for annotations, ontologies, and expression data
database summary
SoyBase Grant
D., Nelson R.T., Schooler N. and Shoemaker R.C.
Soybean genetics and genomics
database summary
SoyGD Shultz
J.L.1,10, Jayaraman D.1, Shopinski K.1,7,
Iqbal M.J.1, Kazi S.1, Zobrist K.1,5, Bashir
R.1, Yaegashi S.1,6, Lavu N.1, Afzal A.J.1,
Yesudas C.R.1, Kassem M.A.1,8, Wu C.2,4, Zhang
H.B.2, Town C.D.3, Meksem K.9 and Lightfoot
D.A.1
Soybean genome database
database summary
SpliceDB
Canonical and non-canonical mammalian splice sites
database
summary
SpliceInfo
Modes of alternative splicing in human genome
database summary
SpliceNest
A tool for visualizing splicing of genes from EST data
database summary
SpodoBase
Genomics of the butterfly Spodoptera frugiperda
database
summary
SRPDB Alm
Rosenblad, M.1, Zwieb, C.2, Samuelsson, T.1
Signal recognition particle RNA, SRP protein, and SRP receptor sequences and
alignments
database
summary
SSToSS - Sequence-Structural Templates
of Single-member Superfamilies Chakrabarti, S.1,
Manohari, G.2 and R. Sowdhamini1
Signal recognition particle RNA, SRP protein, and SRP receptor sequences and
alignments
database
summary
STACK
Non-redundant, gene-oriented clusters
database summary
Stanford Microarray Database Ball, C.A.1, Demeter, J.1, Gollub, G.1,
Hebert, J.M.2, Hernandez-Boussard, T.1, Jin, H.1,
Nitzberg, M.1, Wymore, F.1, Brown, P.O.1,3,
Sherlock, G.4
Raw and normalized data from microarray experiments
database
summary
STCDB - Signal Transduction
Classification Database Ming Chen, Susana Lin,
Ralf Hofestaedt
Signal transductions classification
database
summary
StellaBase
Nematostella vectensis genomics database
database summary
STINGreport
Amino acid properties in proteinns of known structure
database
summary
STRBase
Short tandem DNA repeats
database
summary
STRING
Predicted functional associations between proteins
database summary
Structure-Superposition Database
Pairwise superposition of TIM-barrel structures
database summary
SubtiList Moszer, I.1, Jones, L.M.2, Moreira, S.1,
Fabry, C.1, Danchin, A.3
Bacillus subtilis 168 genome
database
summary
Subviral RNA Database
Database of viroids and viroid-like RNAs
database summary
SuperDrug Goede, A.1, Dunkel, M.1, Mester, N.1,
Preissner, R.1
A conformational drug database
database summary
SUPERFAMILY Gough, J., Chothia, C.
Assignments of proteins to structural superfamilies
database summary
SuperNatural Dunkel, M.1, Fullbeck, M.1, Neumann, S.1,
Preissner, R.1
A database of available natural compounds
database
summary
SUPFAM Krishnadev
O.1, Gowri V.S.1, Swamy C.S.1,2, Srinivasan,
N.1
Grouping of sequence families into superfamilies
database
summary
SURFACE
A database of protein surface patches
database summary
SV40 Large T-Antigen Mutant Database
Mutations in SV40 large tumor antigen gene
database
summary
SWEET-DB Loß, Alex1, Bunsmann. P.1, Bohne, A.4,
Loß, Annika1, Schwarzer, E.1, Lang, E.3, von
der Lieth, C.-W.4
Annotated carbohydrate structure and substance information
database
summary
SWISS-2DPAGE Hoogland C.
Annotated two-dimensional polyacrylamide gel electrophoresis database
database summary
SWISS-MODEL Repository
Database of annotated 3D protein structure models
database
summary
Swiss-Prot Apweiler R.1, Bairoch A.2 and Wu C.H.3,4
Now UniProt/Swiss-Prot: Expertly curated protein sequence database, part of the
UniProt knowledgebase
database summary
SynDB Zhang
Yong
Proteins involved in synaptic activity
database summary
SYSTERS Krause,
A.1, Haas, S.A.1, Coward, E.2, Vingron, M.1
Integrated database of protein families, EST clusters and their genomic
positions
database summary
T1DBase - Type 1 Diabetes Database L.J. Smink1, E.M. Helton2, B.C. Healy1,
C.C. Cavnor2, A.C. Lam1, D. Flamez3, O.S.
Burren1, Y. Wang2, G.E. Dolman1, D.B. Burdick2,
V.H. Everett1, G. Glusman2, D. Laneri1, L.
Rowen2, H. Schuilenburg1, N.M. Walker1, J.
Mychaleckyj4, L.S. Wicker1, D.L. Eizirik3,
J.A. Todd1 and N. Goodman2
A community resource for type 1 diabetes research
database summary
T4-like genome database Nolan J.M.
Sequences of T4-like bacteriophages from various sources
database summary
TAED - The Adaptive Evolution Database
A phylogeny-based tool for comparative genomics
database summary
TargetDB
Target data from worldwide structural genomics projects
database summary
TBestDB O'Brien,
E.A.1, Koski, L.1, Zhang, Y.1, Yang, L.1,
Wang, E., Gray, M.W.2, Burger, G.1 and Lang, B.F.1
EST sequences and genes from unicellular eukaryotes
database
summary
TCDB Milton
H. Saier, Jr.
Transporter Classification Database
database summary
TcruziDB
Trypanosoma cruzi genome database
database summary
TECRdb
Thermodynamics of enzyme-catalyzed reactions
database
summary
TED - Tomato Expression Database
Tomato gene expression database
database summary
TESS
Transcription element search system
database summary
TGD - Tetrahymena Genome Database Stover, N.A., Krieger, C.J. and Cherry, J.M.
Tetrahymena thermophila genes, gene products and their annotations.
database summary
The Arabidopsis Information
Resource (TAIR)
Arabidopsis thaliana genome
database summary
The Autism Chromosome Rearrangement
Database Zhang J., Kanematsu E., Duggan G., Khaja
R., MacDonald J.R. and Scherer S.W.
Curated collection of genomic features related to autism
database summary
The Chromosome 7 Annotation Project MacDonald J.R., Cheung J., Zhang J., Khaja R., Duggan G., Kanematsu E.
and Scherer S.W.
Human chromosome 7 sequence and annotation
database summary
The Lafora Database Zhang J., MacDonald J.R., Khaja R., Duggan G., Ianzano L., Chan E.M.,
Lohi H., Minassian B.A. and Scherer SW.
Mutations and polymorphisms associated with Lafora progressive myoclonus
epilepsy
database summary
The Phytophthora Genome Consortium
Database Waugh, M.E.1, Tyler, B.M.2,
Mitchell, T.3, Houfek, T.D.3, Dean, R.A.3,
Anderson, W.T.1, Inman, J.T.1, Schilkey, F.D.1,
Sullivan, J.P.1, Bell, C.J.4
ESTs from Phytophthora infestans and Phytophthora sojae
database summary
The Small Subunit rRNA Modification
Database
Modified nucleosides in small subunit rRNA
database
summary
The SNP Consortium database Thorisson, G.A., Stein, L.D.
SNP Consortium data
database summary
The tmRNA website
tmRNA sequences, foldings, and alignments
database summary
THGS - Transmembrane Helices in Genome
Sequences
Predicted transmembrane proteins
database
summary
TIGR Comprehensive Microbial Resource Peterson, J.D., Davidsen, T.M., Zafar N., White O.
Completed microbial genomes
database
summary
TIGR Gene Indices Lee, Y., Antonescu, V., Cheung, F., Karamycheva, S., Parvizi, B.,
Pertea, G., Sultana, R., Sunkara, S., Tsai, J., White, J., Quackenbush, J.
Non-redundant, gene-oriented clusters
database summary
TIGR Maize database Chan A.P.1, Pertea G.1, Cheung F.1,
Lee D.1, Zheng L.1, Whitelaw C.1, Pontaroli
A.C.2, SanMiguel P.3, Yuan Y.4, Bennetzen J.2,
Barbazuk B.5, Quackenbush J.1,6,7 and Rabinowicz P.D.1
Maize genome sequencing consortium site
database summary
TIGR Microbial Database
Microbual genomes and chromosomes
database
summary
TIGR plant repeat database
Classification of repetitive sequences in plant genomes
database
summary
TIGRFAMs
Functional identification of proteins
database summary
TiProD Chen
X.1, Wu J.-M.1, Hornischer K.2, Kel A.2
and Wingender E.2,3
Human promoter sequences
database
summary
TmaDB Sharma-Oates
A.1,2, Quirke P.1 and Westhead D.R.2
Tissue microarray database
database
summary
tmRDB Burks,
J1, Zwieb, C2, Gorodkin, J3, Knudsen, B4
and Wower, J4
tmRNA (10Sa RNA) sequences and alignments
database
summary
TopoSNP
Topographic database of non-synonymous SNPs
database
summary
TOPS - Topology Of Protein Structures
Topology of protein structures database
database summary
ToxoDB - The Toxoplasma gondii
Genome Database Kissinger, J.C.1, Gajria,
B.2, Li, L.2, Paulsen, I.T.3, Roos, D.S.2
Apicomplexan parasite Toxoplasma gondii genome
database summary
TPMD - Taiwan polymorphic microsatellite
marker database
Microsatellite markers genotyped in Taiwanese populations
database summary
TRACTOR db abelito@bioinfo.cu
Transcription factors in gamma-proteobacteria database
database summary
TRANSCompel® Kel-Margoulis, O.1, Kel, A.1, Reuter, I.1,
Deineko, I.2, Wingender, E.1
Transcriptional regulation, composite regulatory elements
database
summary
TRANSFAC® Matys, V., Kel-Margoulis, O.V., Fricke, E., Liebich, I., Land, S.,
Barre-Dirrie, A., Reuter, I., Chekmenev, D., Krull, M., Hornischer, K., Voss,
N., Stegmaier, P., Lewicki-Potapov, B., Saxel, H., Kel, A.E., and Wingender, E.
Transcription factors, gene regulation, positional weight matrices
database summary
TRANSPATH® Krull, M.1, Pistor, S.1, Voss, N.1,
Kel, A.1, Reuter, I.1, Potapov, A.1,2, Choi, C.1,
Kel-Margoulis, O.1, Wingender, E.1,2
Signal transduction pathways, vizualization and expression data analysis
database
summary
TransportDB
Sequences and classification of predicted membrane transporters encoded in
complete genomes
database summary
Transterm Jacobs, G.2, Rackham, O.1, Stockwell, P. A.1,
Brown, C. M.1
Codon usage, start and stop signals
database
summary
TRBase
Tandem repeats in the human genome
database summary
TRED - Transcriptional Regulatory
Element Database
Transcriptional regulatory element database
database summary
Tree of Life
Information on phylogeny and biodiversity
database
summary
TreeBase Piel W.H.1 and Miller M.A.2
Phylogenetic trees and the data matrices used to generate them
database summary
TreeFam
Tree families database: phylogenetic trees of animal genes
database summary
TRIPLES Kumar,
A.1, Cheung, K.-H.2, Tosches, N.2, Masiar, P.2,
Liu, Y.2, Miller, P.2, Snyder, M.1
TRansposon-Insertion Phenotypes, Localization, and Expression in Saccharomyces
database summary
tRNA Sequences
tRNA and tRNA gene sequences
database
summary
trome, trEST and trGEN
Databases of predicted human protein sequences
database
summary
TropGENE DB Ruiz, M.
Genetics and genomics of tropical crops: sugarcane, banana, cocoa
database summary
TRRD Kolchanov
N.A.1,2, Ananko E.A.1,2, Podkolodnaya O.A.1,2,
Ignatieva E.V.1,2, Stepanenko I.L.1,2, Khlebodarova T.M.1,2,
Merkulova T.I.1,2, Podkolodny N.L.1,2, Grigorovich D.A.1,2,
Poplavsky A.S.1,2, Romashchenko A.G.1,2
Transcription regulatory regions of eukaryotic genes
database summary
TrSDB
Transcription factor database
database
summary
TTD - Therapeutic Target Database
Therapeutic Target Database
database
summary
Tumor Gene Family Databases (TGDBs)
Cellular, molecular, and biological data about genes involved in various
cancers
database
summary
U-genome Sakharkar K.R., Chaturvedi I., Chow V.T.K., Kwoh C.K., Kangueane P. and
Sakharkar M.K.
Genome organization in unicellular eukaryotes
database
summary
UCSC Genome Browser
Genome assemblies and annotation
database summary
UM-BBD Ellis,
L.B.M., Wackett, L.P.
Microbial biocatalytic reactions and biodegradation pathways
database summary
UMLS - Unified Medical Language System
Unified medical language system
database summary
UniGene
Non-redundant, gene-oriented clusters
database
summary
UniParc Apweiler
R.1, Bairoch A.2 and Wu C.H.3,4
UniProt archive: a repository of all protein sequences
database
summary
UniProt Apweiler
R.1, Bairoch A.2 and Wu C.H.3,4
Universal Protein knowledgebase, combined information from Swiss-Prot, TrEMBL,
and PIR
database summary
UniProtKB/TrEMBL Apweiler R.1, Bairoch A.2 and Wu C.H.3,4
Formerly TrEMBL: Computer-annotated translations of EMBL nucleotide sequences
database
summary
UniRef Apweiler
R.1, Bairoch A.2 and Wu C.H.3,4
UniProt non-redundant reference databases: clustered sets of related sequences.
database
summary
UniSTS
Unified non-redundant view of sequence tagged sites with marker and mapping
data from a variety of resources
database
summary
UniVec
Vector sequences, adapters, linkers and primers used in DNA cloning, can be
used to check for vector contamination
database
summary
UTRdb/UTRsite Pesole, G.1, Liuni, S.2, Grillo, G.2,
Licciulli, F.3, Mignone, F.1, Gissi, C.1,
Saccone, C.3
5' and 3' UTRs of eukaryotic mRNAs and relevant functional
patterns
database
summary
VBASE2 Retter,
I.1, Althaus, H.H.2,3, Münch, R.4 and Müller,
W.1
Variable genes from the Ig loci of human and mouse
database summary
VectorDB
Characterization and classification of nucleic acid vectors
database
summary
VEGA
Vertebrate genome annotation database
database summary
VFDB - Virulence Factors Database Chen L.H.1, Yang J.1, Yu J.2, Yao Z.J.3,
Sun L.L.1, Shen Y.3, Jin Q.1
Reference database for microbial virulence factors
database summary
VIDA
Virus genome open reading frames
database
summary
VIPERdb Shepherd,
C.M., Borelli, I.A., Lander, G., Natarajan, P., Siddavanahalli, V.1,
Bajaj, C.1, Johnson, J.E., Brooks III, C.L., Reddy, V.S.
Icosahedral virus capsid structures
database summary
Viral Bioinformatics Resource Upton C.1 and Lefkowitz E.J.2
Viral genomes, orthologous genes and gene families
database summary
VirFact
Bacterial virulence factors and pathogenicity islands
database summary
VirGen
Annotated and curated database for complete viral genome sequences
database
summary
VirOligo Onodera K., Song Y. and Melcher U.
Virus-specific oligonucleotides for PCR and hybridization
database summary
VKCDB - Voltage-gated K+
Channel Database
Voltage-gated potassium channel database
database summary
VMD
Virginia Bioinformatics Institute Phytophtora database
database summary
WAtDB - Wageningen Arabidopsis
thaliana Database Adamse, P.1,
Aharoni, A.2,3, Pereira, A.2 and Nap, J.P.1
Arabidopsis mutants, transgenic lines and natural variants
database summary
WILMA Prlic,
A., Domingues, F.S., Lackner, P., Sippl, M.J.
C. elegans annotation
database summary
WIT3 - What is there?
Metabolic reconstruction for complete microbial genomes
database summary
Wnt Database Nusse R.
Wnt proteins and phenotypes
database
summary
WorfDB - Worm ORF Database
Predicted proteins from C. elegans
database summary
WormBase
Guide to C. elegans biology
database summary
Xpro
Eukaryotic protein-encoding DNA sequences, both intron-containing and
intron-less genes
database summary
YDPM - Yeast Deletion Project
Yeast deletion project and mitochondria database
database
summary
Yeast Intron Database Telerski, A.1, Centers, R. J.2, Ares, M.2
Splicesomal introns in Saccharomyces cerevisiae
database
summary
Yeast Resource Center
Yeast resource center public data repository
database summary
Yeast snoRNA Database
Yeast small nucleolar RNAs
database
summary
YEASTRACT Teixeira M.C.1,3, Monteiro2, Jain P.2,
Tenreiro S.1,3, Fernandes A.R.1,3, Mira N.1,3,
Alenquer M.1,3, Freitas A.T.2,3, Oliveira A.L.2,3
and Sá-Correia I.1,3
Yeast transcriptional regulation
database
summary
YGOB Byrne
K.P. and Wolfe K.H.
Yeast Gene Order Browser
database summary
yMGV - Yeast microarray global viewer
Yeast expression data
database
summary
ZFIN Sprague,
J., Bayraktaroglu, L., Conlin, T., Fashena, D., Frazer, K., Haendel, M., Howe,
D., Mani, P., Ramachandran, S., Schaper, K., Segerdell, E., Song, P., Sprunger,
B., Taylor, S., Van Slyke, C., Westerfield, M.
Genetic, genomic, and developmental data from zebrafish
database summary