E. R. Mardis, The impact of next-generation sequencing technology on genetics, Trends Genet, vol.24, pp.133-141, 2008.

M. L. Metzker, Sequencing technologies -the next generation, Nature Rev. Genet, vol.11, pp.31-46, 2010.

L. Stein, Genome annotation: from sequence to biology, Nature Rev. Genet, vol.2, pp.493-503, 2001.

P. Karp, S. Paley, and M. Krummenacker, Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology, Brief. Bioinformatics, vol.11, p.40, 2010.

P. Karp, S. Paley, and P. Romero, The Pathway Tools software, Bioinformatics, vol.18, p.225, 2002.

P. D. Karp, M. Riley, and S. M. Paley, EcoCyc: an encyclopedia of Escherichia coli genes and metabolism, Nucleic Acids Res, vol.24, pp.32-39, 1996.

P. D. Karp, M. Riley, and M. Saier, The EcoCyc Database, Nucleic Acids Res, vol.30, pp.56-58, 2002.

P. D. Karp, M. Riley, and S. M. Paley, The MetaCyc Database, Nucleic Acids Res, vol.30, pp.59-61, 2002.

R. Caspi, H. Foerster, and C. A. Fulcher, The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases, Nucleic Acids Res, vol.36, pp.623-631, 2008.

P. D. Karp, C. A. Ouzounis, and C. Moore-kochlacs, Expansion of the BioCyc collection of pathway/genome databases to 160 genomes, Nucleic Acids Res, vol.33, pp.6083-6089, 2005.

. .. ,

, Article ID bar008, vol.2011

. .. ,

, Genome sequence of the pea aphid Acyrthosiphon pisum, The International Aphid Genomics Consortium, vol.8, p.1000313, 2010.

, The genome of the model beetle and pest Tribolium castaneum, Tribolium Genome Sequencing Consortium, vol.452, pp.949-955, 2008.

C. J. Mungall and D. B. Emmert, A Chado case study: an ontology-based modular schema for representing genomeassociated biological information, Bioinformatics, vol.23, pp.337-346, 2007.

P. Zhou, D. Emmert, and P. Zhang, Using Chado to store genome annotation data, Curr. Protoc. Bioinformatics, vol.9, p.6, 2006.

T. J. Lee, Y. Pouliot, and V. Wagner, BioWarehouse: a bioinformatics database warehouse toolkit, BMC Bioinformatics, vol.7, p.170, 2006.

S. P. Shah, Y. Huang, and T. Xu, Atlas -a data warehouse for integrative bioinformatics, BMC Bioinformatics, vol.6, p.34, 2005.

T. Topel, B. Kormeier, and A. Klassen, BioDWH: a data warehouse kit for life science data integration, J. Integr. Bioinform, vol.5, p.93, 2008.

J. Gauthier, F. Legeai, and A. Zasadzinski, AphidBase: a database for aphid genomic resources, Bioinformatics, vol.23, pp.783-784, 2007.
URL : https://hal.archives-ouvertes.fr/inria-00180141

H. Kim, T. Murphy, and J. Xia, BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum, Nucleic Acids Res, vol.38, p.437, 2010.

S. Tweedie, M. Ashburner, and K. Falls, FlyBase: enhancing Drosophila Gene Ontology annotations, Nucleic Acids Res, vol.37, pp.555-559, 2009.

Y. Moriya, M. Itoh, and S. Okuda, KAAS: an automatic genome annotation and pathway reconstruction server, Nucleic Acids Res, vol.35, pp.182-185, 2007.

A. Conesa, S. Gö-tz, and J. M. García-gó-mez, Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research, Bioinformatics, vol.21, pp.3674-3676, 2005.

C. Claudel-renard, C. Chevalet, and T. Faraut, Enzymespecific profiles for genome annotation: PRIAM, Nucleic Acids Res, vol.31, pp.6633-6639, 2003.
URL : https://hal.archives-ouvertes.fr/hal-00427393

J. Huerta-cepas, A. Bueno, and J. Dopazo, PhylomeDB: a database for genome-wide collections of gene phylogenies, Nucleic Acids Res, vol.36, pp.491-496, 2008.

J. Huerta-cepas, M. Marcet-houben, and M. Pignatelli, The pea aphid phylome: a complete catalogue of evolutionary histories and arthropod orthology and paralogy relationships for Acyrthosiphon pisum genes, Insect Mol. Biol, vol.19, pp.13-21, 2010.

J. Huerta-cepas, J. Dopazo, and T. Gabaldon, ETE: a python environment for tree exploration, BMC Bioinformatics, p.24, 2010.

T. Gabaldon, Large-scale assignment of orthology: back to phylogenetics?, Genome Biol, vol.9, p.235, 2008.

W. M. Fitch, Distinguishing homologous from analogous proteins, Syst. Zool, vol.19, pp.99-113, 1970.

A. C. Wilson, P. D. Ashton, and F. Calevro, Genomic insight into the amino acid relations of the pea aphid, Acyrthosiphon pisum, with its symbiotic bacterium Buchnera aphidicola, Insect Mol. Biol, vol.19, pp.249-258, 2010.
URL : https://hal.archives-ouvertes.fr/hal-00539196

. .. ,

. .. ,