Data analysis and visualization in genomics and proteomics by Francisco Azuaje, Joaquin Dopazo

By Francisco Azuaje, Joaquin Dopazo

Info research and Visualization in Genomics and Proteomics is the 1st e-book addressing integrative facts research and visualization during this box. It addresses very important recommendations for the translation of information originating from a number of assets, encoded in several codecs or protocols, and processed by means of a number of structures.

  • one of many first systematic overviews of the matter of organic info integration utilizing computational ways>
  • This booklet presents scientists and scholars with the foundation for the improvement and alertness of integrative computational tips on how to examine organic facts on a systemic scale>
  • locations emphasis at the processing of a number of facts and information assets, and the mix of other types and structures >

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Binkley, G. et al. (2003) The Stanford Microarray Database: data access and quality assessment tools. Nucleic Acids Res, 31, 94–96. Harris, M. , Ireland, A. et al. (2004) The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res, 32 (database issue), D258–D261. Hass, L. , Schwarz, P. , Kodali, P. et al. (2001) DiscoveryLink: A system for integrated access to life sciences data sources. IBM Systems J, 40, 489. , Bader, G. et al. (2004a) The HUPO PSI’s molecular interaction format – a community standard fot the representation of protein interaction data.

This framework allows, for instance, the combination of classification outcomes generated by several clustering techniques such as k-means, self-organizing maps and hierarchical clustering. The system estimates the probability that a pair of gene products is functionally interrelated. Such a relationship is defined by their involvement in the same biological process, as defined by the Gene Ontology. This approach clearly demonstrates how an integrative approach may outperform single-source prediction techniques, such as models based solely on microarray data.

Sugnet, C. , Furey, T. S. et al. (2002) The human genome browser at UCSC. Genome Res, 12, 996–1006. Kersey, P. , Williams, A. et al. (2004) The International Protein Index: an integrated database for proteomics experiments. Proteomics, 4, 1985–1988. Kriventseva, E. , Servant, F. and Apweiler, R. (2003) Improvements to CluSTr: the database of SWISS-PROT+TrEMBL protein clusters. Nucleic Acids Res, 31, 388–389. , Althorpe, N. et al. (2004) The EMBL Nucleotide Sequence Database. Nucleic Acids Res, 32 (database issue), D27–D30.

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