Search Results - "Risler, Jl"

Identification of genomic features using microsyntenies of domains: domain teams by Pasek, Sophie, Bergeron, Anne, Risler, Jean-Loup, Louis, Alexandra, Ollivier, Emmanuelle, Raffinot, Mathieu

“…The detection, across several genomes, of local conservation of gene content and proximity considerably helps the prediction of features of interest, such as…”
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How methionyl-tRNA synthetase creates its amino acid recognition pocket upon l-methionine binding by Serre, Laurence, Verdon, Grégory, Choinowski, Thomas, Hervouet, Nadège, Risler, Jean-Loup, Zelwer, Charles

“…Amino acid selection by aminoacyl-tRNA synthetases requires efficient mechanisms to avoid incorrect charging of the cognate tRNAs. A proofreading mechanism…”
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Phylogeny of related functions: the case of polyamine biosynthetic enzymes by Sekowska, Agnieszka, Danchin, Antoine, Risler, Jean-Loup

“…Regulation of Gene Expression, Institut Pasteur, 28 rue du Docteur Roux, 75724 Paris Cedex 15, France 1 Hong Kong University Pasteur Research Centre, Dexter HC…”
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Gene teams: a new formalization of gene clusters for comparative genomics by Luc, Nicolas, Risler, Jean-Loup, Bergeron, Anne, Raffinot, Mathieu

“…This paper describes an efficient algorithm based on a new concept called gene team for detecting conserved gene clusters among an arbitrary number of…”
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Cluster-C, an algorithm for the large-scale clustering of protein sequences based on the extraction of maximal cliques by Mohseni-Zadeh, S., Brézellec, P., Risler, J.-L.

“…Although the characterization of proteins cannot solely rely upon sequence similarity, it has been widely proved that all-vs-all massive sequence comparisons…”
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PHYTOPROT: a database of clusters of plant proteins by Mohseni‐Zadeh, S., Louis, A., Brézellec, P., Risler, J.‐L.

“…All the protein sequences from plants (including Arabidopsis thaliana) available from SwissProt/TrEMBL have been the subject of an all‐by‐all systematic…”
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Amino acid substitutions in structurally related proteins. A pattern recognition approach. Determination of a new and efficient scoring matrix by Risler, J L, Delorme, M O, Delacroix, H, Henaut, A

“…Amino acid substitutions in evolutionarily related proteins have been studied from a structural point of view. We consider here that an amino acid al in a…”
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GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts by Aubourg, S, Brunaud, V, Bruyere, C, Cock, M, Cooke, R, Cottet, A, Couloux, A, Dehais, P, Deleage, G, Duclert, A

“…Genomic projects heavily depend on genome annotations and are limited by the current deficiencies in the published predictions of gene structure and function…”
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Evolution of genes, evolution of species: the case of aminoacyl-tRNA synthetases by Diaz-Lazcoz, Y, Aude, J C, Nitschké, P, Chiapello, H, Landès-Devauchelle, C, Risler, J L

“…All of the aminoacyl-tRNA synthetase (aaRS) sequences currently available in the data banks have been subjected to a systematic analysis aimed at finding gene…”
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Codon usage as a tool to predict the cellular location of eukaryotic ribosomal proteins and aminoacyl-tRNA synthetases by Chiapello, Hélène, Ollivier, Emmanuelle, Landès-Devauchelle, Claudine, Nitschké, Patrick, Risler, Jean-Loup

“…In spite of many efforts, the prediction of the location of proteins in eukaryotic cells (cytoplasm, mitochondrion or chloroplast) is still far from…”
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GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts by Aubourg, S., Brunaud, V., Bruyere, C., Cock, M., Cooke, R., Cottet, A., Couloux, A., Dehais, Patrice, Deleage, G., Duclert, A., Echeverria, M., Eschbach, A., Falconet, D., Filippi, G., Gaspin, C., Geourjon, C., Grienenberger, Jm, Houlne, G., Jamet, E., Lechauve, F., Leleu, O., Leroy, P., Mache, R., Meyer, C., Nedjari, H., Negrutiu, I., Orsini, V., Peyretaillade, E., Pommier, C., Raes, J., Risler, Jl, Riviere, S., Rombauts, S., Rouze, P., Schneider, M., Schwob, P., Small, I., Soumayet-Kampetenga, G., Stankovski, D., Toffano, C., Tognolli, M., Caboche, M., Lecharny, A.

“…Genomic projects heavily depend on genome annotations and are limited by the current deficiencies in the published predictions of gene structure and function…”
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The nuclear protein PH5P of the inter-α-inhibitor superfamily: a missing link between poly(ADP-ribose)polymerase and the inter-α-inhibitor family and a novel actor of DNA repair? by Jean, L., Risler, J.L., Nagase, T., Coulouarn, C., Nomura, N., Salier, J.P.

“…Poly(ADP-ribose)polymerase is a nuclear NAD-dependent enzyme and an essential nick sensor involved in cellular processes where nicking and rejoining of DNA…”
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A Novel Set of Hepatic mRNAs Preferentially Expressed during an Acute Inflammation in Rat Represents Mostly Intracellular Proteins by Olivier, Emmanuel, Soury, Emmanuelle, Risler, Jean-Loup, Smih, Fatima, Schneider, Kurt, Lochner, Klaus, Jouzeau, Jean-Yves, Fey, Georg H., Salier, Jean-Philippe

“…A cloning of hepatic cDNAs associated with the early phase of an acute, systemic inflammation was carried out by differential screening of arrayed cDNA clones…”
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Rate matrices for analyzing large families of protein sequences by Devauchelle, C, Grossmann, A, Hénaut, A, Holschneider, M, Monnerot, M, Risler, J L, Torrésani, B

“…We propose and study a new approach for the analysis of families of protein sequences. This method is related to the LogDet distances used in phylogenetic…”
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The membrane proteins encoded by yeast chromosome III genes by Goffeau, A., Nakai, Kenta, Slominski, Piotr, Risler, Jean-Loup

“…Examples are given for the analysis of the 68 putative membrane proteins encoded among the 170 predicted genes identified by the systematic sequencing of yeast…”
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How many yeast genes code for membrane-spanning proteins? by Goffeau, A, Slonimski, P, Nakai, K, Risler, J L

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Differential Codon Usage for Conserved Amino Acids: Evidence that the Serine Codons TCN were Primordial by Diaz-Lazcoz, Y., Hénaut, A., Vigier, Ph, Risler, J.-L.

“…The availability of specialized sequence databanks for Escherichia coli, Saccharomyces cerevisiaeand Bacillus subtilismade it possible to build a set of 105…”
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Searching for a family of orphan sequences with SAMBA, a parallel hardware dedicated to biological applications by Guerdoux-Jamet, P., Risler, J.L.

“…A significant proportion of coding sequences or open reading frames discovered in the course of sequencing projects do not show any similarity with other…”
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Dot-plot comparisons by multivariate analysis (DOCMA): a tool for classifying protein sequences by Landés, Claudine, Hénaut, Alain, Risler, Jean-Loup

“…A method aimed at classifying protein sequences without resorting to pairwise alignment is presented. Called DOCMA (DOt-plot Comparisons by Multivariate…”
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Crystal structure study of Opsanus tau parvalbumin by multiwavelength anomalous diffraction by Kahn, R., Fourme, R., Bosshard, R., Chiadmi, M., Risler, J.L., Dideberg, O., Wery, J.P.

“…The crystal structure of a small calcium-binding protein, the parvalbumin III f from Opsanus tau in which Tb was substituted for Ca, has been analysed by…”
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