UNIT 3.6 Constructing and Refining Multiple Sequence Alignments with PileUp, SeqLab, and the GCG Suite
Published Online: 1 FEB 2003
Copyright © 2003 by John Wiley and Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Thompson, S. M. 2003. Constructing and Refining Multiple Sequence Alignments with PileUp, SeqLab, and the GCG Suite. Current Protocols in Bioinformatics. 00:3.6:3.6.1–3.6.73.
- Published Online: 1 FEB 2003
- Published Print: JAN 2003
This unit discusses how the Accelrys GCG Wisconsin Package SeqLab graphical user interface can be used to align, annotate, analyze, and export into alternative formats, multiple biological sequence data. The emphasis is on discovering and recognizing common elements within the dataset. The GCG programs, or implementations of public domain programs thereof, investigated include: LookUp, PileUp, PlotSimilarity, FASTA, Motifs, MEME/MotifSearch, the Profile Package, the HMMER Package, PAUPSearch, and ToFastA. ReadSeq, a non-GCG, public domain program is also used.