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Related Experiment Videos

PATMAT: a searching and extraction program for sequence, pattern and block queries and databases.

J C Wallace1, S Henikoff

  • 1Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA 98104.

Computer Applications in the Biosciences : CABIOS
|June 1, 1992
PubMed
Summary
This summary is machine-generated.

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A new program, PATMAT, offers molecular biologists powerful database searching tools with a simple interface. It enables detection of distant biological relationships using protein and DNA sequence analysis.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Molecular Biology

Background:

  • Molecular biologists require efficient tools for searching vast sequence and pattern databases.
  • Existing tools may lack flexibility or user-friendliness for diverse query types.

Purpose of the Study:

  • To develop a versatile program, PATMAT, for comprehensive database searching.
  • To provide molecular biologists with an intuitive interface for sequence and pattern analysis.

Main Methods:

  • PATMAT utilizes protein or translated DNA sequences, patterns, or aligned protein blocks as queries.
  • It searches amino acid, nucleotide sequences, patterns, and block databases.
  • On-the-fly conversion to scoring matrices allows detection of distant relationships.

Related Experiment Videos

Main Results:

  • PATMAT offers a pull-down, menu-driven interface for searching, extraction, and viewing.
  • It recognizes various query and database types, reporting matches and alignments in real-time.
  • High-scoring matches can be exported, viewed, and re-queried easily.

Conclusions:

  • PATMAT provides a user-friendly yet powerful solution for molecular biology database searching.
  • The program enhances the detection and evaluation of distant evolutionary relationships.
  • It supports both DOS and UNIX operating systems for broad accessibility.