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General topics in biochemical genetics
General topics in biochemical genetics
PlasmoDB is a genome database for the genus Plasmodium, a set of single-celled eukaryotic pathogens that cause human and animal diseases, including malaria. [Information of the supplier]
http://plasmodb.org/
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32.
SEQanswers
The SEQanswers wiki engaging with sequencing and sequencing technology is a Semantic MediWiki (SMW) site that is edited and updated by the members of the SEQanswers community. The wiki provides an extensive catalogue of manually categorized analysis tools, technologies and information about service providers. Within two years, the SEQanswers community has created pages for over 400 unique software tools and associated them with around 350 literature references and 500 web links. SEQwiki contains ... [Information of the supplier, modified]
http://seqanswers.com/wiki/SEQanswers
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33.
SEVENS Database
SEVENS summarizes GPCR (G-protein coupled receptor) genes that are identified with high accuracy from 56 eukaryote genomes, by a pipeline integrating such software as a gene finder, a sequence alignment tool, a motif and domain assignment tool, and a transmembrane helix predictor. This treats a larger data space (than that in currently available other databases), which should include not only the expressed sequences but also the newly identified sequences that cannot be detected by in vivo experiments, ... [Information of the supplier]
http://sevens.cbrc.jp/index.php
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A comprehensive knowledge of all the factors involved in splicing, both proteins and RNAs, and of their interaction network is crucial for reaching a better understanding of this process and its functions. A large part of relevant information is buried in the literature or collected in various different databases. By hand-curated screenings of literature and databases we retrieved experimentally assessed data on 71 human RNA-binding splicing regulatory proteins and organized them into a database ... [Information of the supplier]
http://srv00.ibbe.cnr.it/SpliceAidF/
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SUPERFAMILY is a database of structural and functional annotation for all proteins and genomes.
The SUPERFAMILY annotation is based on a collection of hidden Markov models, which represent structural protein domains at the SCOP superfamily level. A superfamily groups together domains which have an evolutionary relationship. The annotation is produced by scanning protein sequences from over 2,414 completely sequenced genomes against the hidden Markov models.
For each protein you can: a) Submit sequences ... [Information of the supplier]
http://supfam.org/SUPERFAMILY/
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UCNEbase provides information on the evolution and genomic organization of ultra-conserved non-coding elements (UCNEs) in multiple vertebrate species. It currently covers 4351 such elements in 18 different species. Around half of these elements are located within intergenic regions (2’139) and the rest are located within non-coding parts of genes: introns (1’713) and UTRs (499). The majority of UCNEs are supposed to be transcriptional regulators of key developmental genes. [Information of the supplier]
http://ccg.vital-it.ch/UCNEbase/
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The UCSD-Nature Signaling Gateway is a comprehensive and up-to-the-minute resource for anyone interested in signal transduction. This Gateway represents a unique collaboration between the University of California San Diego (UCSD) and Nature Publishing Group and is designed to facilitate navigation of the complex world of research into cellular signaling. Information and data presented here are freely available to all. It is powered by the San Diego Supercomputer Center (SDSC).
At the heart of this ... [Information of the supplier]
http://www.signaling-gateway.org/
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YeTFaSCo stands for Yeast Transcription Factor Specificity Compendium. It is a collection of all available TF specificities for the yeast Saccharomyces cerevisiae in Position Frequency Matrix (PFM) or Position Weight Matrix (PWM) formats. With it, you can scan sequences with the motifs to find where potential binding sites lie, inspect precomputed genome-wide binding sites, find which TFs have a motif similar to one you have found, and download the collection of motifs. [Information of the supplier]
http://yetfasco.ccbr.utoronto.ca/
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