FlyBase is a database of genetic and molecular data for Drosophila. FlyBase includes data on all species from the family Drosophilidae. [Information of the supplier]
Mouse Genome Informatics (MGI) provides integrated access to data on the genetics, genomics, and biology of the laboratory mouse. The projects contributing to this resource are: (1) Mouse Genome Database (MGD) Project; (2) Gene Expression Database (GXD) Project; (3) Mouse Tumor Biology (MTB) Database Project; (4) Gene Ontology (GO) Project. ... [Information of the supplier]
ProDom is a comprehensive database of protein domain families generated from the global comparison of all available protein sequences. Recent improvements include the use of three-dimensional (3D) information from the SCOP database; a completely redesigned web interface; visualization of ProDom domains on 3D structures; coupling of ProDom analysis with the Geno3D homology modelling server; Bayesian inference of evolutionary scenarios for ProDom families. In addition, we have developed ProDom-SG, a ProDom-based server dedicated to the selection of candidate proteins for structural genomics. ... [Information of the supplier]
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. Data amount: 32,775 organisms, 2,298,913 complete protein coding genes (CDS's), as of January 2007. Usage: A query box to search a codon usage table for an organism, is presented. Search can be done with Latin name or its sub-string of organism. ... [Information of the supplier]
This page allows you to test an antibody sequence against the Kabat sequence database. Any unusual residues (occurring in < 1% of chains in the database) will be reported to you. This allows the identification of potential cloning artifacts and sequencing errors. The current Kabat database contains 6014 light chains and 7895 heavy chains. ... [Information of the supplier]
The HIV databases contain 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. This project is funded by the Division of AIDS of the National Institute of Allergy and Infectious Diseases (NIAID), a part of the National Institutes of Health (NIH). ... [Information of the supplier]
CATH is a hierarchical classification of protein domain structures, which clusters proteins at four major levels, Class(C), Architecture(A), Topology(T) and Homologous superfamily (H).Class, derived from secondary structure content, is assigned for more than 90% of protein structures automatically. Architecture, which describes the gross orientation of secondary structures, independent of connectivities, is currently assigned manually. The topology level clusters structures into fold groups according to their topological connections and numbers of secondary structures. The homologous superfamilies cluster proteins with highly similar structures and functions. The assignments of structures to fold groups and homologous superfamilies are made by sequence and structure comparisons. The boundaries and assignments for each protein domain are determined using a combination of automated and manual procedures. These include computational techniques, empirical and statistical evidence, literature review and expert analysis. ... [Information of the supplier]
The emap Atlas is a digital Atlas of mouse embryonic development. It is based on the definitive books of mouse embryonic development by Theiler (1989) and Kaufman (1992) yet extends these studies by creating a series of interactive three-dimensional computer models of mouse embryos at successive stages of development with defined anatomical domains linked to a stage-by-stage ontology of anatomical names. The three components of the spatial framework are the 3D models (3D grey-level voxel images) of the underlying histology, a standard mouse anatomical nomenclature (MAN) and a set of spatial regions or domains defined within the 3D models which link the geometric space of the 3D images with the textual description of the same space given by the nomenclature. These three parts form the Edinburgh Mouse Atlas and are maintained as an online database as well as a series of CD-ROMs. The atlas form the spatio-temporal framework for an image-mapped gene-expression database emage. The database is now ready for public access and submission. See the emage pages for more details. emage is complemetary to the text-based gene-expression database (GXD) at the Jackson Lab. The nomenclature is shared and the two database are interoperable. ... [Information of the supplier]
The Rat Genome Database RatMap is focused on presenting rat genes, DNA-markers, QTL:s etc that is localized to chromosome. The database is dedicated to rat gene nomenclature and should be consulted for queries in such. RatMap is formally sorting under the (RGNC) and is maintained at the Dept for Cell and Molecular Biology, Göteborg University, Sweden. Within RatMap you can find information on: rat gene nomenclature, chromosomal positions for genes, DNA-markers, QTL:s etc., predicted position for more than 6000 rat genes (see GAPP), gene function, literature references, DNA-sequences with links to DDBJ/EMBL/GenBank, unigene and Locus Link ID:s and links. ... [Information of the supplier]
The Eukaryotic Promoter Database is an annotated non-redundant collection of eukaryotic POL II promoters, for which the transcription start site has been determined experimentally. Access to promoter sequences is provided by pointers to positions in nucleotide sequence entries. The annotation part of an entry includes description of the initiation site mapping data, cross-references to other databases, and bibliographic references. EPD is structured in a way that facilitates dynamic extraction of biologically meaningful promoter subsets for comparative sequence analysis. (...) A eukaryotic promoter is defined as a DNA sequence around a transcription initiation site. The position reference to the initiation site is therefore the central part of a promoter entry. ... [Information of the supplier]