Putative Gene Promoter Sequences in the Chlorella Viruses (2008)
Fitzgerald, Lisa, Boucher, Philip, Yanai-Balser, Giane, Suhre, Karsten, Graves, Michael, Van Etten, James L.
Three short (7 to 9 nucleotides) highly conserved nucleotide sequences were identified in the putative promoter regions (150 bp upstream and 50 bp downstream of the ATG translation start site) of...
Jean-baptiste Claude, Karsten Suhre, Cédric Notredame, Jean-michel Claverie
a web-server for automated molecular replacement using homology modelling
Analysis of Phylogenetic Profiles Using Bayesian Decomposition (2008)
Ghislain Bidaut, Karsten Suhre, Jean-michel Claverie, Michael F. Ochs
Antibiotic resistance together with the side effects of broad spectrum antibacterials make development of targeted antibiotics of great interest. To meet the problem of identifying potential targets...
devant le jury composé de (2008)
Diriger Des Recherches, Karsten Suhre, Prof Pedro, Maldonado Coutinho, Dr. Jorge Navaza
Nouvelles approches en génomique comparative et bio-informatique structurale: à la recherche de relations séquence-structure-fonction. présentée et soutenue publiquement le 26/10/2004 à...
MassTRIX: mass translator into pathways (2008)
Suhre, Karsten, Schmitt-Kopplin, Philippe
Recent technical advances in mass spectrometry (MS) have brought the field of metabolomics to a point where large numbers of metabolites from numerous prokaryotic and eukaryotic organisms can now be...
Reductive Genome Evolution from the Mother of Rickettsia (2007)
Guillaume Blanc, Hiroyuki Ogata, Catherine Robert, Stéphane Audic, Karsten Suhre, Guy Vestris, ...
The Rickettsia genus is a group of obligate intracellular α-proteobacteria representing a paradigm of reductive evolution. Here, we investigate the evolutionary processes that shaped the genomes of...
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Determination of strongly overlapping signaling activity from microarray data (2006)
Bidaut, Ghislain, Suhre, Karsten, Claverie, Jean-Michel, Ochs, Michael F
Abstract Background As numerous diseases involve errors in signal transduction, modern therapeutics often target proteins involved in cellular signaling. Interpretation of the activity of signaling...
Phydbac "Gene Function Predictor" : a gene annotation tool based on genomic context analysis (2005)
Enault, François, Suhre, Karsten, Claverie, Jean-Michel
Abstract Background The large amount of completely sequenced genomes allows genomic context analysis to predict reliable functional associations between prokaryotic proteins. Major methods rely on...
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Mimivirus and the emerging concept of "giant" virus (2005)
Claverie, Jean-Michel, Ogata, Hiroyuki, Audic, Stéphane, Abergel, Chantal, Fournier, Pierre-Edouard, Suhre, Karsten
The recently discovered Acanthamoeba polyphaga Mimivirus is the largest known DNA virus. Its particle size (>400 nm), genome length (1.2 million bp) and large gene repertoire (911 protein coding...
Mimivirus and the emerging concept of "giant" virus (2005)
Claverie, Jean-Michel, Ogata, Hiroyuki, Audic, Stéphane, Abergel, Chantal, Fournier, Pierre-Edouard, Suhre, Karsten
The recently discovered Acanthamoeba polyphaga Mimivirus is the largest known DNA virus. Its particle size (>400 nm), genome length (1.2 million bp) and large gene repertoire (911 protein coding...
Mimivirus and the emerging concept of "giant" virus (2005)
Claverie, Jean-Michel, Ogata, Hiroyuki, Audic, Stéphane, Abergel, Chantal, Fournier, Pierre-Edouard, Suhre, Karsten
The recently discovered Acanthamoeba polyphaga Mimivirus is the largest known DNA virus. Its particle size (>400 nm), genome length (1.2 million bp) and large gene repertoire (911 protein coding...
Gene & Genome Duplication in Acanthamoeba Polyphaga Mimivirus (2005)
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well recognized feature in large DNA viruses, but...
Gene & Genome Duplication in Acanthamoeba Polyphaga Mimivirus (2005)
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well recognized feature in large DNA viruses, but...
Gene & Genome Duplication in Acanthamoeba Polyphaga Mimivirus (2005)
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well recognized feature in large DNA viruses, but...
Mimivirus Gene Promoters Exhibit an Unprecedented Conservation among all Eukaryotes (2005)
Suhre, Karsten, Audic, Stéphane, Claverie, Jean-Michel
The initial analysis of the recently sequenced genome of Acanthamoeba polyphaga Mimivirus, the largest known double-stranded DNA virus, predicted a proteome of size and complexity more akin to small...
Mimivirus Gene Promoters Exhibit an Unprecedented Conservation among all Eukaryotes (2005)
Suhre, Karsten, Audic, Stéphane, Claverie, Jean-Michel
The initial analysis of the recently sequenced genome of Acanthamoeba polyphaga Mimivirus, the largest known double-stranded DNA virus, predicted a proteome of size and complexity more akin to small...
Mimivirus Gene Promoters Exhibit an Unprecedented Conservation among all Eukaryotes (2005)
Suhre, Karsten, Audic, Stéphane, Claverie, Jean-Michel
The initial analysis of the recently sequenced genome of Acanthamoeba polyphaga Mimivirus, the largest known double-stranded DNA virus, predicted a proteome of size and complexity more akin to small...
Mimivirus and the emerging concept of "giant" virus (2005)
Claverie, Jean-Michel, Ogata, Hiroyuki, Audic, Stéphane, Abergel, Chantal, Fournier, Pierre-Edouard, Suhre, Karsten
The recently discovered Acanthamoeba polyphaga Mimivirus is the largest known DNA virus. Its particle size (>400 nm), genome length (1.2 million bp) and large gene repertoire (911 protein coding...
Gene & Genome Duplication in Acanthamoeba Polyphaga Mimivirus (2005)
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well recognized feature in large DNA viruses, but...
Mimivirus Gene Promoters Exhibit an Unprecedented Conservation among all Eukaryotes (2005)
Suhre, Karsten, Audic, Stéphane, Claverie, Jean-Michel
The initial analysis of the recently sequenced genome of Acanthamoeba polyphaga Mimivirus, the largest known double-stranded DNA virus, predicted a proteome of size and complexity more akin to small...
Mimivirus Gene Promoters Exhibit an Unprecedented Conservation among all Eukaryotes (2005)
Suhre, Karsten, Audic, Stéphane, Claverie, Jean-Michel
The initial analysis of the recently sequenced genome of Acanthamoeba polyphaga Mimivirus, the largest known double-stranded DNA virus, predicted a proteome of size and complexity more akin to small...
Gene & Genome Duplication in Acanthamoeba Polyphaga Mimivirus (2005)
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well recognized feature in large DNA viruses, but...
Mimivirus and the emerging concept of "giant" virus (2005)
Claverie, Jean-Michel, Ogata, Hiroyuki, Audic, Stéphane, Abergel, Chantal, Fournier, Pierre-Edouard, Suhre, Karsten
The recently discovered Acanthamoeba polyphaga Mimivirus is the largest known DNA virus. Its particle size (>400 nm), genome length (1.2 million bp) and large gene repertoire (911 protein coding...
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well-recognized feature in large DNA viruses but...
Bmc Bioinformatics, François Enault, Karsten Suhre, Jean-michel Claverie
Software Phydbac "Gene Function Predictor " : a gene annotation tool based on genomic context analysis
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CaspR: a web server for automated molecular replacement using homology modelling (2004)
Jean-baptiste Claude, Karsten Suhre, Cédric Notredame, Jean-michel Claverie, Chantal Abergel
Molecular replacement (MR) is the method of choice for X-ray crystallography structure determination when structural homologues are available in the Protein Data Bank (PDB). Although the success rate...
Olivier Poirot, Karsten Suhre, Chantal Abergel, Cedric Notredame
This paper presents 3DCoffee@igs, a web-based tool dedicated to the computation of high-quality multiple sequence alignments (MSAs). 3D-Coffee makes it possible to mix protein sequences and...
3DCoffee: Combining protein sequences and structures within multiple sequence alignments (2004)
Karsten Suhre, Chantal Abergel, Desmond G. Higgins, Cédric Notredame, Information Génomique Et, Chemin Joseph Aiguier
It has long been assumed that using structural information can increase the accuracy of multiple protein sequence alignments (MSA). 1 Recent results 2,3 suggest that accurate MSAs obtained this
FusionDB: a database for in-depth analysis of prokaryotic gene fusion events (2004)
Karsten Suhre, Jean-michel Claverie
FusionDB
Enault, François, Suhre, Karsten, Poirot, Olivier, Abergel, Chantal, Claverie, Jean-Michel
Phydbac (phylogenomic display of bacterial genes) implemented a method of phylogenomic profiling using a distance measure based on normalized BLAST scores. This method was able to increase the...
Poirot, Olivier, Suhre, Karsten, Abergel, Chantal, O'Toole, Eamonn, Notredame, Cedric
This paper presents 3DCoffee@igs, a web-based tool dedicated to the computation of high-quality multiple sequence alignments (MSAs). 3D-Coffee makes it possible to mix protein sequences and...
CaspR: a web server for automated molecular replacement using homology modelling (2004)
Claude, Jean-Baptiste, Suhre, Karsten, Notredame, Cédric, Claverie, Jean-Michel, Abergel, Chantal
Molecular replacement (MR) is the method of choice for X-ray crystallography structure determination when structural homologues are available in the Protein Data Bank (PDB). Although the success rate...
Suhre, Karsten, Sanejouand, Yves-Henri
Normal mode analysis (NMA) is a powerful tool for predicting the possible movements of a given macromolecule. It has been shown recently that half of the known protein movements can be modelled by...
FusionDB: a database for in-depth analysis of prokaryotic gene fusion events (2004)
Suhre, Karsten, Claverie, Jean-Michel
FusionDB (http://igs‐server.cnrs‐mrs.fr/FusionDB/) constitutes a resource dedicated to in‐depth analysis of bacterial and archaeal gene fusion events. Such events can provide the...
Enault, François, Suhre, Karsten, Poirot, Olivier, Abergel, Chantal, Claverie, Jean-Michel
Phydbac is a web interactive resource based on phylogenomic profiling, designed to help microbiologists to annotate bacterial proteins. Phylogenomic annotation is based on the assumption that...
Tropheryma whipplei Twist: A Human Pathogenic Actinobacteria With a Reduced Genome (2003)
Raoult, Didier, Ogata, Hiroyuki, Audic, Stéphane, Robert, Catherine, Suhre, Karsten, Drancourt, Michel, ...
The human pathogen Tropheryma whipplei is the only known reduced genome species (
Das Feld am Punkt im ¨außeren elektromagnetischen Feld (1991)
The Fermifield in an external electro-magnetic field will be defined as a sesquilinear form at one point without using test functions. It will be shown to satisfy the Dirac-equation and to be local...
Enault, François, Suhre, Karsten, Poirot, Olivier, Abergel, Chantal, Claverie, Jean-Michel
Phydbac is a web interactive resource based on phylogenomic profiling, designed to help microbiologists to annotate bacterial proteins. Phylogenomic annotation is based on the assumption that...
FusionDB: a database for in-depth analysis of prokaryotic gene fusion events
Suhre, Karsten, Claverie, Jean-Michel
FusionDB (http://igs-server.cnrs-mrs.fr/FusionDB/) constitutes a resource dedicated to in-depth analysis of bacterial and archaeal gene fusion events. Such events can provide the ‘Rosetta stone’...
Tropheryma whipplei Twist: A Human Pathogenic Actinobacteria With a Reduced Genome
Raoult, Didier, Ogata, Hiroyuki, Audic, Stéphane, Robert, Catherine, Suhre, Karsten, Drancourt, Michel, ...
The human pathogen Tropheryma whipplei is the only known reduced genome species (
Set1 is required for meiotic S-phase onset, double-strand break formation and middle gene expression
Sollier, Julie, Lin, Waka, Soustelle, Christine, Suhre, Karsten, Nicolas, Alain, Géli, Vincent, ...
The Set1 protein of Saccharomyces cerevisiae is a histone methyltransferase (HMTase) acting on lysine 4 of histone H3. Inactivation of the SET1 gene in a diploid leads to a sporulation defect. We...
Enault, François, Suhre, Karsten, Poirot, Olivier, Abergel, Chantal, Claverie, Jean-Michel
Phydbac (phylogenomic display of bacterial genes) implemented a method of phylogenomic profiling using a distance measure based on normalized BLAST scores. This method was able to increase the...
Suhre, Karsten, Sanejouand, Yves-Henri
Normal mode analysis (NMA) is a powerful tool for predicting the possible movements of a given macromolecule. It has been shown recently that half of the known protein movements can be modelled by...
3DCoffee@igs: a web server for combining sequences and structures into a multiple sequence alignment
Poirot, Olivier, Suhre, Karsten, Abergel, Chantal, O'Toole, Eamonn, Notredame, Cedric
This paper presents 3DCoffee@igs, a web-based tool dedicated to the computation of high-quality multiple sequence alignments (MSAs). 3D-Coffee makes it possible to mix protein sequences and...
CaspR: a web server for automated molecular replacement using homology modelling
Claude, Jean-Baptiste, Suhre, Karsten, Notredame, Cédric, Claverie, Jean-Michel, Abergel, Chantal
Molecular replacement (MR) is the method of choice for X-ray crystallography structure determination when structural homologues are available in the Protein Data Bank (PDB). Although the success rate...
Gene and Genome Duplication in Acanthamoeba polyphaga Mimivirus
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well-recognized feature in large DNA viruses but...
Mimivirus gene promoters exhibit an unprecedented conservation among all eukaryotes
Suhre, Karsten, Audic, Stéphane, Claverie, Jean-Michel
The initial analysis of the recently sequenced genome of Acanthamoeba polyphaga Mimivirus, the largest known double-stranded DNA virus, predicted a proteome of size and complexity more akin to small...
Determination of strongly overlapping signaling activity from microarray data
Bidaut, Ghislain, Suhre, Karsten, Claverie, Jean-Michel, Ochs, Michael F
Enault, François, Suhre, Karsten, Poirot, Olivier, Abergel, Chantal, Claverie, Jean-Michel
Phydbac is a web interactive resource based on phylogenomic profiling, designed to help microbiologists to annotate bacterial proteins. Phylogenomic annotation is based on the assumption that...
FusionDB: a database for in-depth analysis of prokaryotic gene fusion events
Suhre, Karsten, Claverie, Jean-Michel
FusionDB (http://igs-server.cnrs-mrs.fr/FusionDB/) constitutes a resource dedicated to in-depth analysis of bacterial and archaeal gene fusion events. Such events can provide the ‘Rosetta stone’...
Tropheryma whipplei Twist: A Human Pathogenic Actinobacteria With a Reduced Genome
Raoult, Didier, Ogata, Hiroyuki, Audic, Stéphane, Robert, Catherine, Suhre, Karsten, Drancourt, Michel, ...
The human pathogen Tropheryma whipplei is the only known reduced genome species (
Set1 is required for meiotic S-phase onset, double-strand break formation and middle gene expression
Sollier, Julie, Lin, Waka, Soustelle, Christine, Suhre, Karsten, Nicolas, Alain, Géli, Vincent, ...
The Set1 protein of Saccharomyces cerevisiae is a histone methyltransferase (HMTase) acting on lysine 4 of histone H3. Inactivation of the SET1 gene in a diploid leads to a sporulation defect. We...
Enault, François, Suhre, Karsten, Poirot, Olivier, Abergel, Chantal, Claverie, Jean-Michel
Phydbac (phylogenomic display of bacterial genes) implemented a method of phylogenomic profiling using a distance measure based on normalized BLAST scores. This method was able to increase the...
Suhre, Karsten, Sanejouand, Yves-Henri
Normal mode analysis (NMA) is a powerful tool for predicting the possible movements of a given macromolecule. It has been shown recently that half of the known protein movements can be modelled by...
3DCoffee@igs: a web server for combining sequences and structures into a multiple sequence alignment
Poirot, Olivier, Suhre, Karsten, Abergel, Chantal, O'Toole, Eamonn, Notredame, Cedric
This paper presents 3DCoffee@igs, a web-based tool dedicated to the computation of high-quality multiple sequence alignments (MSAs). 3D-Coffee makes it possible to mix protein sequences and...
CaspR: a web server for automated molecular replacement using homology modelling
Claude, Jean-Baptiste, Suhre, Karsten, Notredame, Cédric, Claverie, Jean-Michel, Abergel, Chantal
Molecular replacement (MR) is the method of choice for X-ray crystallography structure determination when structural homologues are available in the Protein Data Bank (PDB). Although the success rate...
Mimivirus gene promoters exhibit an unprecedented conservation among all eukaryotes
Suhre, Karsten, Audic, Stéphane, Claverie, Jean-Michel
The initial analysis of the recently sequenced genome of Acanthamoeba polyphaga Mimivirus, the largest known double-stranded DNA virus, predicted a proteome of size and complexity more akin to small...
Gene and Genome Duplication in Acanthamoeba polyphaga Mimivirus
Gene duplication is key to molecular evolution in all three domains of life and may be the first step in the emergence of new gene function. It is a well-recognized feature in large DNA viruses but...
Determination of strongly overlapping signaling activity from microarray data
Bidaut, Ghislain, Suhre, Karsten, Claverie, Jean-Michel, Ochs, Michael F
Reductive Genome Evolution from the Mother of Rickettsia
Blanc, Guillaume, Ogata, Hiroyuki, Robert, Catherine, Audic, Stéphane, Suhre, Karsten, Vestris, Guy, ...
The Rickettsia genus is a group of obligate intracellular α-proteobacteria representing a paradigm of reductive evolution. Here, we investigate the evolutionary processes that shaped the genomes of...
Abergel, Chantal, Chenivesse, Sabine, Byrne, Deborah, Suhre, Karsten, Arondel, Vincent, Claverie, Jean-Michel
Mimivirus, the largest known double-stranded DNA virus, unexpectedly exhibits components of the protein-translation apparatus. The crystallization and functional assay of the viral tyrosyl tRNA...
MassTRIX: mass translator into pathways
Suhre, Karsten, Schmitt-Kopplin, Philippe
Recent technical advances in mass spectrometry (MS) have brought the field of metabolomics to a point where large numbers of metabolites from numerous prokaryotic and eukaryotic organisms can now be...
Genetics Meets Metabolomics: A Genome-Wide Association Study of Metabolite Profiles in Human Serum
Gieger, Christian, Geistlinger, Ludwig, Altmaier, Elisabeth, Hrabé De Angelis, Martin, Kronenberg, Florian, Meitinger, Thomas, ...
The rapidly evolving field of metabolomics aims at a comprehensive measurement of ideally all endogenous metabolites in a cell or body fluid. It thereby provides a functional readout of the...
Wang-Sattler, Rui, Yu, Yao, Mittelstrass, Kirstin, Lattka, Eva, Altmaier, Elisabeth, Gieger, Christian, ...
Exposure to nicotine during smoking causes a multitude of metabolic changes that are poorly understood. We quantified and analyzed 198 metabolites in 283 serum samples from the human cohort KORA...