Phylogenetic code in the cloud - Can it meet the expectations?

Studies in Health Technology and Informatics

Volumn 159, Issue , 2010, Pages 55-63

  Kraut, Adam ^a   Moretti, Sébastien ^b,c   Robinson Rechavi, Marc ^b   Stockinger, Heinz ^c   Flanders, Dean ^d  

^a BioTeam Inc   (United States)

^b UNIVERSITY OF LAUSANNE   (Switzerland)

^c SWISS INSTITUTE OF BIOINFORMATICS   (Switzerland)

^d FRIEDRICH MIESCHER INSTITUTE FOR BIOMEDICAL RESEARCH   (Switzerland)

Author keywords

bioinformatics; Cloud computing; cluster computing; phylogeny

Indexed keywords

BIOINFORMATICS; BIOLOGY; CLOUD COMPUTING; CLUSTER COMPUTING;

BIOINFORMATICS APPLICATIONS; CLOUD SYSTEMS; JOB SUBMISSION; PARALLEL APPLICATION; PHYLOGENY; USAGE MODELING; USER EXPECTATIONS; USER FRIENDLINESS;

BENCHMARKING;

BIOLOGY; COMPUTER ANALYSIS; COMPUTER PROGRAM; MEDICAL INFORMATICS; PHYLOGENY;

COMPUTATIONAL BIOLOGY; COMPUTING METHODOLOGIES; MEDICAL INFORMATICS APPLICATIONS; PHYLOGENY; SOFTWARE DESIGN;

EID: 77954509179     PISSN: 09269630     EISSN: 18798365     Source Type: Conference Proceeding    
DOI: 10.3233/978-1-60750-583-9-55     Document Type: Conference Paper

References (10)

1. Amazon Elastic Compute Cloud, http://aws.amazon.com/ec2/, Jan. 2010.
2. M. Feldman. Platform Launches Private and Hybrid Cloud Management Products for HPC. HPCwire, Nov. 2009. http://www.hpcwire.com/features/Platform- Launches-Private-and-Hybrid-Cloud-Management-Products-for-HPC-69295592.html
3. B. Halligan, J. Geiger, A. Vallejos, A. Greene, S. Twigger. Low Cost, Scalable Proteomics Data Analysis Using Amazon's Cloud Computing Services and Open Source Search Algorithms. Journal of Proteome Research, 8(6):3148-3153, 2009.
4. T. Hubbard, et al. Ensembl 2009. Nucleic Acids Res., 37(Database issue):D690-7, 2009.
5. P. Kersey, et al. Ensembl Genomes: extending Ensembl across the taxonomic space. Nucleic Acids Res., 38(Database issue):D563-9, 2010.
6. A. Kraut. Antibody Docking on the Amazon Cloud. BioIT - World, May 19, 2009. http://www.bio-itworld.com/issues/2009/may-jun/antibody-docking-EC2.html
7. B. Langmead, M. Schatz, J. Lin, M. Pop, S. Salzberg. Searching for SNPs with cloud computing. Genome Biology, 10:R134, 2009.
8. E. Proux, R. Studer, S. Moretti, M. Robinson-Rechavi. Selectome: a database of positive selection. Nucleic Acids Res., 37(Database issue):D404-D407, 2009.
9. H. Stockinger, M. Pagni, L. Cerutti, L. Falquet. Grid Approach to Embarrassingly Parallel CPUIntensive Bioinformatics Problems. 2nd IEEE International Conference on e-Science and Grid Computing (e-Science 2006), IEEE Computer Society Press, Amsterdam, The Netherlands, Dec. 4-6, 2006.
10. Z. Yang. PAML 4: Phylogenetic Analysis by Maximum Likelihood. Molecular Biology and Evolution, 24:1586-1591, 2007.