Accurate statistical model of comparison between multiple sequence alignments
نویسندگان
چکیده
منابع مشابه
Accurate statistical model of comparison between multiple sequence alignments
Comparison of multiple protein sequence alignments (MSA) reveals unexpected evolutionary relations between protein families and leads to exciting predictions of spatial structure and function. The power of MSA comparison critically depends on the quality of statistical model used to rank the similarities found in a database search, so that biologically relevant relationships are discriminated f...
متن کاملPROMALS: towards accurate multiple sequence alignments of distantly related proteins
MOTIVATION Accurate multiple sequence alignments are essential in protein structure modeling, functional prediction and efficient planning of experiments. Although the alignment problem has attracted considerable attention, preparation of high-quality alignments for distantly related sequences remains a difficult task. RESULTS We developed PROMALS, a multiple alignment method that shows promi...
متن کاملPROMALS web server for accurate multiple protein sequence alignments
Multiple sequence alignments are essential in homology inference, structure modeling, functional prediction and phylogenetic analysis. We developed a web server that constructs multiple protein sequence alignments using PROMALS, a progressive method that improves alignment quality by using additional homologs from PSI-BLAST searches and secondary structure predictions from PSIPRED. PROMALS show...
متن کاملMultiple Sequence Alignments in Linguistics
In this study we apply and evaluate an iterative pairwise alignment program for producing multiple sequence alignments, ALPHAMALIG (Alonso et al., 2004), using as material the phonetic transcriptions of words used in Bulgarian dialectological research. To evaluate the quality of the multiple alignment, we propose two new methods based on comparing each column in the obtained alignments with the...
متن کاملStatistical significance of ungapped sequence alignments.
Statistical significance of a local sequence alignment depends not only on the similarity score and on the sequence lengths, but also on a length of the alignment. Dependence of the alignment significance on the length of the sequences has been analyzed earlier, and is based on the idea that the longer sequences have more chances to share a local similarity with a bigger score. To the best of o...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2008
ISSN: 1362-4962,0305-1048
DOI: 10.1093/nar/gkn065