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Related Experiment Videos

Align: a C++ class library and web server for rapid sequence alignment prototyping.

Silvio C E Tosatto1, Alessandro Albiero, Alessandra Mantovan

  • 1Department of Biology, CRIBI Biotechnology Centre, University of Padova, Padova, Italy. silvio@cribi.unipd.it

Current Drug Discovery Technologies
|February 22, 2007
PubMed
Summary
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A new C++ library accelerates protein sequence alignment, enabling advanced techniques like profile-to-profile alignment. This tool aids in predicting protein sequence and structure, with a web interface for education and research.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Structural Biology

Background:

  • Sequence alignment is crucial for protein sequence and structure prediction.
  • Existing methods require efficient and flexible implementation tools.

Purpose of the Study:

  • To develop a C++ class library for rapid implementation of advanced pairwise sequence alignment techniques.
  • To provide a user-friendly web interface for broader accessibility and educational use.

Main Methods:

  • Developed a C++ class library supporting various alignment methods (sequence-to-sequence, profile-to-profile).
  • Incorporated optional secondary structure information and suboptimal alignment generation.
  • Created a web interface for the alignment tools.

Related Experiment Videos

Main Results:

  • The library facilitates rapid implementation, testing, and extension of sequence alignment functionality.
  • The tool supports advanced alignment types, including profile-to-profile with secondary structure.
  • A case study on human Cytochrome P450 modeling demonstrates the library's utility.

Conclusions:

  • The C++ library offers a flexible and efficient platform for diverse sequence alignment tasks.
  • The provided web interface enhances accessibility for research and bioinformatics education.
  • This resource aids in advancing protein sequence and structure prediction methodologies.