SUPERFAMILY [25], [27] is a library of profile Hidden Markov Models [78], designed to associate a protein sequence with the most probable 3D structural model.
Comparison against a library of profile models of protein families (e.g. Punta et al., 2012 ; Quevillon et al., 2005 ).
When scoring a profile HMM against a library of profile HMMs, PRC reports E-values, which give an estimate of how significant the matches are.
Next we determined the domain architectures of these proteins by searching their sequences with a library of sequence profiles derived from the PFAM database augmented with additional in-house collections of profiles for domains involved in nucleic acid metabolism, signaling, and organismal conflicts.
Biegert and Söding [ 24] developed Context-Specific BLAST (CS-BLAST), which computes an initial PSSM using a query sequence and a library of short profiles.
We additionally generated a full-length HMM profile from the RASCAL optimised alignment with the HMMER package [ 39] to provide a simple way to identify new members of the gene family in the future using a library of HMM profiles.
Johnson & Johnson's pharmaceutical research and development division has contributed a library of expression profiles for 100 paradigm compounds, primarily hepatotoxicants, to the Chemical Effects in Biological Systems (CEBS) knowledge base based at the National Center for Toxicogenomics, a part of the NIEHS.
Back in February, we introduced you to EvntLive, a new startup backed by Silicon Valley veterans that's on a mission to create a scalable platform for broadcasting live concerts, from arenas to small clubs, backed by a library of recorded shows, profiles and music info.
Although this study examined only a few tumors, it described a method that allows any human tumor to be matched against a library of gene expression profiles collected from normal tissues at different stages of development.
