title: GeneFizz: A web tool to compare genetic (coding/non-coding) and physical (helix/coil) segmentations of DNA sequences. Gene discovery and evolutionary perspectives.
abstract: The GeneFizz (http://pbga.pasteur.fr/GeneFizz) web tool permits the direct comparison between two types of segmentations for DNA sequences (possibly annotated): the coding/non-coding segmentation associated with genomic annotations (simple genes or exons in split genes) and the physics-based structural segmentation between helix and coil domains (as provided by the classical helix-coil model). There appears to be a varying degree of coincidence for different genomes between the two types of segmentations, from almost perfect to non-relevant. Following these two extremes, GeneFizz can be used for two purposes: ab initio physics-based identification of new genes (as recently shown for Plasmodium falciparum) or the exploration of possible evolutionary signals revealed by the discrepancies observed between the two types of information.
authors.affiliation: Unité de Bio-Informatique Structurale, URA CNRS 2185, Institut Pasteur, 75724 Paris Cedex 15, France. yeramian@pasteur.fr
authors.forename: Edouard
authors.initials: E
authors.lastname: Yeramian
authors.forename: Louis
authors.initials: L
authors.lastname: Jones
mesh_terms: D000465:Algorithms; D000818:Animals; D004247:DNA / Q000737:chemistry; D004331:Drosophila melanogaster / Q000235:genetics; D019143:Evolution, Molecular; D005796:Genes; D005815:Genetic Code; D023281:Genomics / Q000379:methods; D020407:Internet; D008957:Models, Genetic; D009690:Nucleic Acid Conformation; D010963:Plasmodium falciparum / Q000235:genetics; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D014584:User-Computer Interface
chemical_list: D004247:DNA