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Links:
- Codon Usage Database
Codon Usage Database is an extended WWW version of CUTG (Codon Usage Tabulated from GenBank). The frequency of codon use in each organism is made searchable through this World Wide Web site.
http://www.kazusa.or.jp/codon/
- Database of Plasmid Replicons
The DPR is seen as one of the initial components of a network of web-based databases which will provide a resource for biologists working on all classes of mobile genetic elements (MGEs).
http://www.essex.ac.uk/bs/staff/osborn/DPR_home.htm
- EcoGene
EcoGene is a collection of information about the genes, proteins, and intergenic regions of the E. coli K-12 genome and proteome accumulated during years of sequence analysis and literature surveys by Kenn Rudd and his collaborators.
http://bmb.med.miami.edu/EcoGene/EcoWeb/
- Fungal Genetics Stock Center
A resource available to the Fungal Genetics research community and to educational and research organizations in general.
http://www.fgsc.net/
- Genomes onLine Database
updated
GOLD: Genomes Online database, is a World Wide Web resource for comprehensive access to information regarding complete and ongoing genome projects around the world.
http://www.genomesonline.org/
- HIV Databases
Containing data on HIV genetic sequences, immunological epitopes, drug resistance-associated mutations, and vaccine trials. The website also gives access to a large number of tools that can be used to analyze these data.
http://hiv-web.lanl.gov/content/
- Insertion Sequence Database
This database provides a list of insertion sequences isolated from eubacteria and archae. It is organised into individual files containing their general features (name, size, origin, family.....) as well as their DNA and potential protein sequences.
http://www-is.biotoul.fr/
- Kyoto encyclopedia of Genes and Genomes
Kyoto Encyclopedia of Genes and Genomes (KEGG) is an effort to computerize current knowledge of molecular and cellular biology in terms of the information pathways that consist of interacting molecules or genes and to provide links from the gene catalogs produced by genome sequencing projects.
http://www.genome.ad.jp/kegg/
- Multi Locus Sequence Typing
MLST is a nucleotide sequence based approach for the unambiguous characterisation of isolates of bacteria and other organisms via the internet.
http://www.mlst.net/
- PatScan
PatScan is a pattern matcher which searches protein or nucleotide (DNA, RNA, tRNA etc.) sequence archives for instances of a pattern which you input.
http://www-unix.mcs.anl.gov/compbio/PatScan/
- probeBase.net
A comprehensive database containing published rRNA-targeted oligonucleotide probe sequences, DNA microarray layouts and associated information.
http://www.probebase.net
- RNase P Database
The RNase P Database is a compilation of RNase P sequences, sequence alignments, secondary structures, three-dimensional models, and accessory information.
http://www.mbio.ncsu.edu/RNaseP/
- Saccharomyces Genome Database
A database hosted at Stanford dealing with the molecular biology and genetics of Saccharomyces cerevisiae
http://www.yeastgenome.org/
- STD Sequence Database (LANL)
These specialized databases are an expansion of the human papillomavirus project funded by the National Institute of Allergy and Infectious Diseases (NIAID), within the National Institutes of Health, Bethesda Maryland.
http://www.stdgen.lanl.gov/
- The E.coli database collection
This collection offers you all information regarding the entire E.coli K12 chromosome and is searchable in different ways: by a gen/sequence map, scrolling different tables or just by search for a keyword.
http://www.uni-giessen.de/~gx1052/ECDC/ecdc.htm
- The Influenza Sequence Database
A curated database of nucleotide sequences. It is intended to provide the research community with easy sequence deposit and retrieval capabilities, together with tools tailored, in particular, to the analysis of hemagglutinin and neuraminidase sequences. By Los Alamos National Laboratory.
http://www.flu.lanl.gov/
- The Institute for Genomic Research (TIGR)
A not-for-profit research institute whose primary research interests are in structural, functional and comparative analysis of genomes and gene products from a wide variety of organisms including viruses, eubacteria (both pathogens and non-pathogens, archaea (the so-called third domain of life), and eukaryotes (plants, animals, fungi and protists such as the malarial parasite).
http://www.tigr.org/
- The Poxvirus Bioinformatics Resource Center
Established to provide resources to the scientific community for basic research and to facilitate the development of novel antiviral therapies and vaccines against human orthopoxvirus infections as well as approaches for environmental detection of virions and the rapid diagnosis of disease.
http://www.poxvirus.org/
- The Ribosomal Database Project (RDP)
RDP provides ribosome related data services to the scientific community, including online data analysis, rRNA derived phylogenetic trees, and aligned and annotated rRNA sequences.
http://rdp.cme.msu.edu/
- The Ribosomal RNA Operon Copy Number Database
The rrndb provides information pertaining to the number of rRNA operons contained on the genomes of prokaryotic microorganisms in a phylogenetic context.
http://rrndb.cme.msu.edu/
- The RNA World Website
Web resources, lists and Internet links on RNA related topics.
http://www.imb-jena.de/RNA.html
- The Sanger Centre - Computational Genomics Group
The studies in this research group are aimed at developing computational approaches for analysis of nucleotide and protein sequences and structures as well as understanding structural and functional organization of genetic signals encoded in genome sequences.
http://genomic.sanger.ac.uk/
- The VirOligo database
Collecting virus-specific oligonucleotides for virus detection from published literature.
http://viroligo.okstate.edu/
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