ArticleNucleic acids research2009
COMPASS server for homology detection: improved statistical accuracy, speed and functionality.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 27 citations in OpenAlex.
- Proteomic Tools for the Analysis of Cytoskeleton Proteins.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Protein remote homology detection by combining Chou's distance-pair pseudo amino acid composition and principal component analysis.Molecular genetics and genomics : MGG · 2015Article
- From local structure to a global framework: recognition of protein folds.Journal of the Royal Society, Interface · 2014Review
- Combining evolutionary information extracted from frequency profiles with sequence-based kernels for protein remote homology detection.Bioinformatics (Oxford, England) · 2014Article
- Using distances between Top-n-gram and residue pairs for protein remote homology detection.BMC bioinformatics · 2014Article
- Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions.Nucleic acids research · 2013Article
- Using amino acid physicochemical distance transformation for fast protein remote homology detection.PloS one · 2012Article
- FFAS server: novel features and applications.Nucleic acids research · 2011Article
- The Vein Patterning 1 (VEP1) gene family laterally spread through an ecological network.PloS one · 2011Article
- Article
- Considering scores between unrelated proteins in the search database improves profile comparison.BMC bioinformatics · 2009Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
Abstract
COMPASS is a profile-based method for the detection of remote sequence similarity and the prediction of protein structure. Here we describe a recently improved public web server of COMPASS, http://prodata.swmed.edu/compass. The server features three major developments: (i) improved statistical accuracy; (ii) increased speed from parallel implementation; and (iii) new functional features facilitating structure prediction. These features include visualization tools that allow the user to quickly and effectively analyze specific local structural region predictions suggested by COMPASS alignments. As an application example, we describe the structural, evolutionary and functional analysis of a protein with unknown function that served as a target in the recent CASP8 (Critical Assessment of Techniques for Protein Structure Prediction round 8). URL: http://prodata.swmed.edu/compass.
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Registered trials
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