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In submission to Nucleic
Acids Research. Tjaden, B., Saxena, R. M., Stolyar, S., Haynor, D.
R., Kolker, E. and Rosenow, C. |
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Supplementary
Material |
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Table
3 (txt, 17 KB) |
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Table
4 (txt, 29 KB) |
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Table
5 (txt, 10 KB) |
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Table
6 (txt, 26 KB) |
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Table
7 (txt, 10 KB) |
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Table
Captions (txt, 3 KB) |
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In submission to Bioinformatics. Shigeta, R., Cline, M., Liu, G., and Siani-Rose, M.
GPCR-GRAPA-LIB is a collection of hidden Markov models describing G protein coupled receptor families. These families are initially
defined by class of receptor ligand. Divergent families were refined by division into subfamilies, according to phylogenic analysis
and knowledge of GPCR function. Protein sequences are scored against the models with the GRAPA annotation method to assign individual
proteins to the most likely GPCR family, if any. RefSeq sequences on Affymetrix genome microarrays for Homo sapiens, Drosophila
melanogaster, Caenorhabditis elegans, and Saccharomyces cerevisiae have been annotated using this approach.
The battery of HMMs is in three .zip files, described below. Annotation results are available in the
NetAffx Analysis Center. |
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GPCR-db-summary-121001.pdf
is a white paper describing the building and use of models for GPCRs for NetAffx. |
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fasta.zip contains protein sequences grouped together via methods discussed
in the GPCR white paper. These unaligned, protein sequences in FASTA format represent the family/sub-family for which the file is named
(e.g. angiotension.fasta). |
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mod.zip contains the output from hidden Markov Model generation, in the
form of ".a2m" files which are aligned FASTA sequences, and ".mod" files which contain the binary hidden Markov models against which users may score
sequences. |
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.
In submission to Bioinformatics. W.M. Liu, R. Mei, X. Di, T.B. Ryder, E. Hubbell, S. Dee, T.A. Webster, C.A. Harrington,
M.-h. Ho, J. Baid, and S. Smeekens.
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Supplemental Data (pdf, 49 KB) |
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