Search Results - "Escudié, Frédéric"

FROGS: Find, Rapidly, OTUs with Galaxy Solution by Escudié, Frédéric, Auer, Lucas, Bernard, Maria, Mariadassou, Mahendra, Cauquil, Laurent, Vidal, Katia, Maman, Sarah, Hernandez-Raquet, Guillermina, Combes, Sylvie, Pascal, Géraldine

“…Abstract Motivation Metagenomics leads to major advances in microbial ecology and biologists need user friendly tools to analyze their data on their own…”
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jvenn: an interactive Venn diagram viewer by Bardou, Philippe, Mariette, Jérôme, Escudié, Frédéric, Djemiel, Christophe, Klopp, Christophe

“…Venn diagrams are commonly used to display list comparison. In biology, they are widely used to show the differences between gene lists originating from…”
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Compacting and correcting Trinity and Oases RNA-Seq de novo assemblies by Cabau, Cédric, Escudié, Frédéric, Djari, Anis, Guiguen, Yann, Bobe, Julien, Klopp, Christophe

“…transcriptome assembly of short reads is now a common step in expression analysis of organisms lacking a reference genome sequence. Several software packages…”
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Genome-Wide Study of Structural Variants in Bovine Holstein, Montbéliarde and Normande Dairy Breeds by Boussaha, Mekki, Esquerré, Diane, Barbieri, Johanna, Djari, Anis, Pinton, Alain, Letaief, Rabia, Salin, Gérald, Escudié, Frédéric, Roulet, Alain, Fritz, Sébastien, Samson, Franck, Grohs, Cécile, Bernard, Maria, Klopp, Christophe, Boichard, Didier, Rocha, Dominique

“…High-throughput sequencing technologies have offered in recent years new opportunities to study genome variations. These studies have mostly focused on single…”
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Targeted next generation sequencing reveals high mutation frequency of CREBBP, BCL2 and KMT2D in high-grade B-cell lymphoma with MYC and BCL2 and/or BCL6 rearrangements by Evrard, Solène M, Péricart, Sarah, Grand, David, Amara, Nadia, Escudié, Frédéric, Gilhodes, Julia, Bories, Pierre, Traverse-Glehen, Alexandra, Dubois, Romain, Brousset, Pierre, Parrens, Marie, Laurent, Camille

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Epstein–Barr Virus-Associated T- and NK-Cell Lymphoproliferative Diseases: A Review of Clinical and Pathological Features by Syrykh, Charlotte, Péricart, Sarah, Lamaison, Claire, Escudié, Frédéric, Brousset, Pierre, Laurent, Camille

“…Epstein–Barr virus (EBV) is a ubiquitous virus detected in up to 95% of the general population. Most people are asymptomatic, while some may develop a wide…”
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Root transcriptomic responses of grafted grapevines to heterogeneous nitrogen availability depend on rootstock genotype by Cochetel, Noé, Escudié, Frédéric, Cookson, Sarah Jane, Dai, Zhanwu, Vivin, Philippe, Bert, Pierre-François, Muñoz, Mindy Stephania, Delrot, Serge, Klopp, Christophe, Ollat, Nathalie, Lauvergeat, Virginie

“…In many fruit species, including grapevine, grafting is used to improve scion productivity and quality and to adapt the plant to environmental conditions…”
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MIAmS: microsatellite instability detection on NGS amplicons data by Escudié, Frédéric, Van Goethem, Charles, Grand, David, Vendrell, Julie, Vigier, Anna, Brousset, Pierre, Evrard, Solène M, Solassol, Jérôme, Selves, Janick

“…Abstract Summary Microsatellite instability (MSI) is a molecular marker of DNA mismatch repair deficiency frequently at play in oncogenesis. MSI testing is…”
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Management of T-Cell Lymphoma: In Quest of the Holy Grail by Péricart, Sarah, Escudié, Frédéric, Grand, David, Brousset, Pierre

“…T-cell lymphomas (TCL) represent a very heterogeneous group of lymphoid tumors which are clearly distinct from B-cell neoplasms [...]…”
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Mitochondrial genomes of the Baltic clam Macoma balthica (Bivalvia: Tellinidae): setting the stage for studying mito-nuclear incompatibilities by Saunier, Alice, Garcia, Pascale, Becquet, Vanessa, Marsaud, Nathalie, Escudié, Frédéric, Pante, Eric

“…Allopatric divergence across lineages can lead to post-zygotic reproductive isolation upon secondary contact and disrupt coevolution between mitochondrial and…”
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NG6: Integrated next generation sequencing storage and processing environment by Mariette, Jérôme, Escudié, Frédéric, Allias, Nicolas, Salin, Gérald, Noirot, Céline, Thomas, Sylvain, Klopp, Christophe

“…Next generation sequencing platforms are now well implanted in sequencing centres and some laboratories. Upcoming smaller scale machines such as the 454 junior…”
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Molecular diagnosis of T-cell lymphoma: a correlative study of PCR-based T-cell clonality assessment and targeted NGS by Syrykh, Charlotte, Gorez, Pauline, Péricart, Sarah, Grand, David, Escudié, Frédéric, Cabarrou, Bastien, Obéric, Lucie, Ysebaert, Loïc, Lamant, Laurence, Laurent, Camille, Evrard, Solène M., Brousset, Pierre

“…Immunomorphological diagnosis of T-cell lymphoma (TCL) may be challenging, especially on needle biopsies. Multiplex polymerase chain reaction (PCR) assays to…”
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Jflow: a workflow management system for web applications by Mariette, Jérôme, Escudié, Frédéric, Bardou, Philippe, Nabihoudine, Ibouniyamine, Noirot, Céline, Trotard, Marie-Stéphane, Gaspin, Christine, Klopp, Christophe

“…Biologists produce large data sets and are in demand of rich and simple web portals in which they can upload and analyze their files. Providing such tools…”
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Gene alterations in epigenetic modifiers and JAK-STAT signaling are frequent in breast implant–associated ALCL by Laurent, Camille, Nicolae, Alina, Laurent, Cécile, Le Bras, Fabien, Haioun, Corinne, Fataccioli, Virginie, Amara, Nadia, Adélaïde, José, Guille, Arnaud, Schiano, Jean-Marc, Tesson, Bruno, Traverse-Glehen, Alexandra, Chenard, Marie-Pierre, Mescam, Lénaïg, Moreau, Anne, Chassagne-Clement, Catherine, Somja, Joan, Escudié, Frédéric, André, Marc, Martin, Nadine, Lacroix, Laetitia, Lemonnier, François, Hamy, Anne-Sophie, Reyal, Fabien, Bannier, Marie, Oberic, Lucie, Prade, Nais, Frénois, François-Xavier, Beldi-Ferchiou, Asma, Delfau-Larue, Marie-Helene, Bouabdallah, Reda, Birnbaum, Daniel, Brousset, Pierre, Xerri, Luc, Gaulard, Philippe

“…The oncogenic events involved in breast implant–associated anaplastic large cell lymphoma (BI-ALCL) remain elusive. To clarify this point, we have…”
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RREB1–MKL2 fusion in biphenotypic “oropharyngeal” sarcoma: New entity or part of the spectrum of biphenotypic sinonasal sarcomas? by Siegfried, Aurore, Romary, Claire, Escudié, Fréderic, Nicaise, Yvan, Grand, David, Rochaix, Philippe, Barres, Béatrice, Vergez, Sébastien, Chevreau, Christine, Coindre, Jean‐Michel, Uro‐Coste, Emmanuelle, Le Guellec, Sophie

“…An increasing number of sarcomas displaying a primitive, monomorphic spindle cell phenotype have been shown to harbor recurrent gene fusions, including…”
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High-grade Follicular Lymphomas Exhibit Clinicopathologic, Cytogenetic, and Molecular Diversity Extending Beyond Grades 3A and 3B by Laurent, Camille, Adélaïde, José, Guille, Arnaud, Tesson, Bruno, Gat, Elodie, Evrard, Solene, Escudié, Frederic, Syrykh, Charlotte, Canioni, Danielle, Fabiani, Bettina, Meignin, Véronique, Chassagne-Clement, Catherine, Dartigues, Peggy, Traverse-Glehen, Alexandra, Parrens, Marie, Huet, Sarah, Copie-Bergman, Christiane, Salles, Gilles, Birnbaum, Daniel, Brousset, Pierre, Morschhauser, Franck, Xerri, Luc

“…Although follicular lymphoma (FL) is usually graded as FL1-2, FL3A, and FL3B, some borderline cases can be observed and led us to investigate the…”
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Resistance of B-Cell Lymphomas to CAR T-Cell Therapy Is Associated With Genomic Tumor Changes Which Can Result in Transdifferentiation by Laurent, Camille, Syrykh, Charlotte, Hamon, Maxime, Adélaïde, José, Guille, Arnaud, Escudié, Frederic, Jalowicki, Gael, Fina, Frederic, Bardet, Alexandre, Mescam, Lenaïg, Molina, Thierry J., Dartigues, Peggy, Parrens, Marie, Sujobert, Pierre, Besson, Caroline, Birnbaum, Daniel, Xerri, Luc

“…Despite the impressive efficacy of chimeric antigen receptor (CAR) T-cell therapy (CART) in B-cell non-Hodgkin lymphomas, durable responses are uncommon. The…”
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Contrasted effects of natural complex mixtures of PAHs and metals on oxygen cycle in a microbial mat by Pringault, Olivier, Aube, Johanne, Bouchez, Olivier, Klopp, Christophe, Mariette, Jérome, Escudie, Frédéric, Senin, Pavel, Goni-Urriza, Marisol

“…•Microbial mats were exposed to natural mixtures of PAHs and metals.•Primary production and respiration were strongly inhibited in spring.•Respiration and…”
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EWSR1‐PATZ1 gene fusion may define a new glioneuronal tumor entity by Siegfried, Aurore, Rousseau, Audrey, Maurage, Claude‐Alain, Pericart, Sarah, Nicaise, Yvan, Escudie, Fréderic, Grand, David, Delrieu, Alix, Gomez‐Brouchet, Anne, Le Guellec, Sophie, Franchet, Camille, Boetto, Sergio, Vinchon, Matthieu, Sol, Jean‐Christophe, Roux, Franck‐Emmanuel, Rigau, Valérie, Bertozzi, Anne‐Isabelle, Jones, David T. W., Figarella‐Branger, Dominique, Uro‐Coste, Emmanuelle

“…We investigated the challenging diagnostic case of a ventricular cystic glioneuronal tumor with papillary features, by RNA sequencing using the Illumina…”
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Evaluation of somatic and/or germline mosaicism in congenital malformation of the eye by Chesneau, Bertrand, Ivashchenko, Véronique, Habib, Christophe, Gaston, Véronique, Escudié, Fréderic, Morel, Godelieve, Capri, Yline, Vincent-Delorme, Catherine, Calvas, Patrick, Chassaing, Nicolas, Plaisancié, Julie

“…Microphthalmia, Anophthalmia and Coloboma (MAC) form a spectrum of congenital eye malformations responsible for severe visual impairment. Despite the…”
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