Visualization of multiple alignments, phylogenies and gene family evolution

TY - JOUR

T1 - Visualization of multiple alignments, phylogenies and gene family evolution

AU - Procter, James B.

AU - Thompson, Julie

AU - Letunic, Ivica

AU - Creevey, Chris

AU - Jossinet, Fabrice

AU - Barton, Geoffrey J.

PY - 2010/3/1

Y1 - 2010/3/1

N2 - Software for visualizing sequence alignments and trees are essential tools for life scientists. In this review, we describe the major features and capabilities of a selection of stand-alone and web-based applications useful when investigating the function and evolution of a gene family. These range from simple viewers, to systems that provide sophisticated editing and analysis functions. We conclude with a discussion of the challenges that these tools now face due to the flood of next generation sequence data and the increasingly complex network of bioinformatics information sources.

AB - Software for visualizing sequence alignments and trees are essential tools for life scientists. In this review, we describe the major features and capabilities of a selection of stand-alone and web-based applications useful when investigating the function and evolution of a gene family. These range from simple viewers, to systems that provide sophisticated editing and analysis functions. We conclude with a discussion of the challenges that these tools now face due to the flood of next generation sequence data and the increasingly complex network of bioinformatics information sources.

KW - SEQUENCE ALIGNMENT

KW - RESIDUE CONSERVATION

KW - HYPERBOLIC SPACE

KW - TREES

KW - DATABASE

KW - INFORMATION

KW - ONTOLOGY

KW - DISPLAY

KW - TOOL

KW - PREDICTION

U2 - 10.1038/NMETH.1434

DO - 10.1038/NMETH.1434

M3 - Review article

SN - 1548-7091

VL - 7

SP - S16-S25

JO - Nature Methods

JF - Nature Methods

IS - 3

ER -