MuSiC: a tool for multiple sequence alignment with constraints

  • Authors:

  • Yin Te Tsai;Yen Pin Huang;Ching Ta Yu;Chin Lung Lu

  • Affiliations:

  • Department of Computer Science and Information Management, Providence University, Taiwan, ROC;Department of Biological Science and Technology, National Chiao Tung University, Taiwan, ROC;Department of Computer Science and Information Management, Providence University, Taiwan, ROC;Department of Biological Science and Technology, National Chiao Tung University, Taiwan, ROC

  • Venue:
  • Bioinformatics
  • Year:
  • 2004

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Abstract

Summary: MuSiC is a web server to perform the constrained alignment of a set of sequences, such that the user-specified residues/nucleotides are aligned with each other. The input of the MuSiC system consists of a set of protein/DNA/RNA sequences and a set of user-specified constraints, each with a fragment of residue/nucleotide that (approximately) appears in all input sequences. The output of MuSiC is a constrained multiple sequence alignment in which the fragments of the input sequences whose residues/nucleotides exhibit a given degree of similarity to a constraint are aligned together. The current MuSiC system is implemented in Java language and can be accessed via a simple web interface. Availability: http://genome.life.nctu.edu.tw/MUSIC