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Analyse à grande échelle des textures des séquences protéiques via l'approche Hydrophobic Cluster Analysis (HCA).

Abstract : The accurate delineation of domains within protein sequences is of count most importance in biology, especially for optimizing the structural and functional genomics investigations. Various approaches based on the composition in amino acids, the complexity of the sequence or the construction of ab initio 3D models, were developed in the past to predict functional domains. We propose a new and original approach to automatically delineate within proteins sequences distinct structured regions by exploring their texture. This approach is based on the Hydrophobic Cluster Analysis (HCA) method. The distribution of the various categories of hydrophobic clusters, as defined by HCA, and the analysis of their secondary structures characteristics, discriminate different textures and is used as an efficient tool to distinguish structured regions, disordered regions, repeat regions and potential single or multiple transmembrane segments. The DomHCA approach, allows to delineate regions characterized by particular textures in a protein sequence. This segmentation, applied on the scale of genomes, authorizes a fast and original comparison of the whole sequences. As an example, we applied DomHCA on the Plasmodium falciparum genome sequences, for which standard tools of similarity searches are generally poorly efficient, due to their high content in N and K residues.
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https://tel.archives-ouvertes.fr/tel-00011139
Contributor : Karine Albeau <>
Submitted on : Thursday, December 1, 2005 - 2:29:35 PM
Last modification on : Monday, December 14, 2020 - 9:55:40 AM
Long-term archiving on: : Friday, April 2, 2010 - 11:18:16 PM

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  • HAL Id : tel-00011139, version 1

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Karine Albeau. Analyse à grande échelle des textures des séquences protéiques via l'approche Hydrophobic Cluster Analysis (HCA).. Autre [q-bio.OT]. Université de Versailles-Saint Quentin en Yvelines, 2005. Français. ⟨tel-00011139⟩

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