CASA: A server for the critical assessment of protein sequen ce alignment accuracy

Robel Y. Kahsay, Guoli Wang, Nataraj Dongre, Guang Gao, Roland L. Dunbrack

Research output: Contribution to journalArticlepeer-review

5 Scopus citations

Abstract

A public server for evaluating the accuracy of protein sequence alignment methods is presented. CASA is an implementation of the alignment accuracy benchmark presented by Sauder et al. (Proteins, 40, 6-22, 2000). The benchmark currently contains 39 321 pairwise protein structure alignments produced with the CE program from SCOP domain definitions. The server produces graphical and tabular comparisons of the accuracy of a user's input sequence alignments with other commonly used programs, such as BLAST, PSI-BLAST, Clustal W, and SAM-T99.

Original languageEnglish
Pages (from-to)496-497
Number of pages2
JournalBioinformatics
Volume18
Issue number3
DOIs
StatePublished - 2002

Keywords

  • Algorithms
  • Calibration
  • Computing Methodologies
  • Databases, Protein
  • Evaluation Studies as Topic
  • Internet
  • National Library of Medicine (U.S.)
  • Proteins/chemistry
  • Sequence Alignment/methods
  • Sequence Analysis, Protein/methods
  • Software
  • United States

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