Science, Biology, Bioinformatics, Online Services, Homology Detection
- This is a server for structural superfamily assignments to protein sequences using Hidden Markov Models. The services included are: -homology searching -alignments -genome assignments
- Sequence comparision and search programs, including the rigorous Smith-Waterman algorithm (in FastA and Ssearch) - from the IGH, Montpellier FR.
- Implementation of hidden Markov models for sequence analysis. Free UNIX software for nonprofit groups, and sequences can be submitted online.
- Sensitive, selective, and rapid sequence database searching with gapped alignments - from Washington Univ.-St.Louis.
- NCBI's sequence similarity search tool designed to support analysis of nucleotide and protein databases.
- Utility for online manipulation of Blast results. Results organized in a table format.
- Formating of multiple sequence alignments to a color postscript file. Can include graphical features by using PDB entry.
- Software toolkit for building and using motif-based hidden Markov models of DNA and proteins - from the Univ. of California-San Diego.
- Access to Smith-Waterman-based FDF sequence comparison program, with excellent explanation of when to use it vs. BLAST - from the Univ. of Lausanne, FR.
- Genome-Wide BLAST search for similarity searching against genes or proteins. Integrated with multiple alignments and phylogenetic tree capabilities.
- Detection and assessment of similarity between distantly related sequences by means of a variety of remotely-executable software - from the Swiss Inst. for Experimental Cancer Research.
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