• Publications
  • Influence
Improved tools for biological sequence comparison.
  • W. Pearson, D. Lipman
  • Biology, Medicine
  • Proceedings of the National Academy of Sciences…
  • 1 April 1988
We have developed three computer programs for comparisons of protein and DNA sequences. They can be used to search sequence data bases, evaluate similarity scores, and identify periodic structuresExpand
  • 10,301
  • 619
  • PDF
Rapid and sensitive sequence comparison with FASTP and FASTA.
  • W. Pearson
  • Biology, Medicine
  • Methods in enzymology
  • 1990
The FASTA program can search the NBRF protein sequence library (2.5 million residues) in less than 20 min on an IBM-PC microcomputer and unambiguously detect proteins that shared a common ancestorExpand
  • 1,962
  • 110
  • PDF
Comparison of DNA sequences with protein sequences.
The FASTA package of sequence comparison programs has been expanded to include FASTX and FASTY, which compare a DNA sequence to a protein sequence database, translating the DNA sequence in threeExpand
  • 581
  • 58
  • PDF
Flexible sequence similarity searching with the FASTA3 program package.
  • W. Pearson
  • Computer Science, Medicine
  • Methods in molecular biology
  • 2000
TLDR
The FASTA and BLAST packages provide a flexible set of sequence-comparison programs that are particularly valuable because of their accurate statistical estimates and high-quality alignments. Expand
  • 621
  • 54
  • PDF
Searching protein sequence libraries: comparison of the sensitivity and selectivity of the Smith-Waterman and FASTA algorithms.
  • W. Pearson
  • Biology, Medicine
  • Genomics
  • 1 November 1991
The sensitivity and selectivity of the FASTA and the Smith-Waterman protein sequence comparison algorithms were evaluated using the superfamily classification provided in the National BiomedicalExpand
  • 545
  • 40
Empirical statistical estimates for sequence similarity searches.
  • W. Pearson
  • Mathematics, Medicine
  • Journal of molecular biology
  • 13 February 1998
The FASTA package of sequence comparison programs has been modified to provide accurate statistical estimates for local sequence similarity scores with gaps. These estimates are derived using theExpand
  • 341
  • 35
  • PDF
Using the FASTA program to search protein and DNA sequence databases.
  • W. Pearson
  • Biology, Medicine
  • Methods in molecular biology
  • 1994
  • 258
  • 30
Effective protein sequence comparison.
  • W. Pearson
  • Biology, Medicine
  • Methods in enzymology
  • 1996
Although there are several different comparison programs available (e.g., BLASTP, FASTA, SSEARCH, and BLITZ) that can be used with different scoring systems (e.g., PAM120, PAM250, BLOSUM50, BLOSUM62)Expand
  • 355
  • 28
Comparison of methods for searching protein sequence databases
  • W. Pearson
  • Mathematics, Medicine
  • Protein science : a publication of the Protein…
  • 1 June 1995
We have compared commonly used sequence comparison algorithms, scoring matrices, and gap penalties using a method that identifies statistically significant differences in performance. SearchExpand
  • 354
  • 27
  • PDF
The Catalytic Site Atlas 2.0: cataloging catalytic sites and residues identified in enzymes
TLDR
We present a new version of the CSA (CSA 2.0), which greatly expands the number of both curated (968) and automatically annotated catalytic sites in enzyme structures, utilizing a new method for annotation transfer. Expand
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  • 19
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