Mark Ragan wrote:
> Colleagues,
>> Can anyone point me to sets (matrices) of aligned protein sequences
> for use in benchmarking software for phylogenetic inference?
>> I'm hoping to find something similar to the Green Plant phylogeny
> group's 232-sequence rRNA "challenge" data set -- only with protein
> sequences.
>> Something on the order of 12 to 40 protein sequences, of 100-400 aa's
> in length each and without too many alignment gaps, would be ideal.
> The data might be either real, or generated according to a specified
> model.
>> As I'm not a subscriber to this list, please email me directly at:
>>m.ragan at imb.uq.edu.au>> Many thanks,
>> Mark Ragan
> Institute for Molecular Bioscience
> The University of Queensland
> Brisbane, Qld 4072 Australia
>>http://www.imb.uq.edu.au/Ragan.html>>> ---
You can find a reference database with 142 protein alignments (Thompson
et al. NAR 27:2682 , 1999) at http://www-igbmc.u-strasbg.fr/BioInfo/BAliBASE
Good luck!
--
Fernando Gonzalez
--
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Dr. Fernando Gonzalez Candelas
Instituto Cavanilles de Biodiversidad y Biologia Evolutiva
Dept. de Genetica / Serv. Bioinformatica
Universitat de Valencia Phone: (+34) 963 983 653
Apartado de Correos 22085 FAX (+34) 963 983 670
E-46071 Valencia SPAIN e-mail: Fernando.Gonzalez at uv.es
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