Search Results - "Legrand, Carine"

Statistically robust methylation calling for whole-transcriptome bisulfite sequencing reveals distinct methylation patterns for mouse RNAs by Legrand, Carine, Tuorto, Francesca, Hartmann, Mark, Liebers, Reinhard, Jacob, Dominik, Helm, Mark, Lyko, Frank

“…Cytosine-5 RNA methylation plays an important role in several biologically and pathologically relevant processes. However, owing to methodological limitations,…”
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Time-resolved, integrated analysis of clonally evolving genomes by Legrand, Carine, Andriantsoa, Ranja, Lichter, Peter, Raddatz, Günter, Lyko, Frank

“…Clonal genome evolution is a key feature of asexually reproducing species and human cancer development. While many studies have described the landscapes of…”
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Mutations in Cytosine-5 tRNA Methyltransferases Impact Mobile Element Expression and Genome Stability at Specific DNA Repeats by Genenncher, Bianca, Durdevic, Zeljko, Hanna, Katharina, Zinkl, Daniela, Mobin, Mehrpouya Balaghy, Senturk, Nevcin, Da Silva, Bruno, Legrand, Carine, Carré, Clément, Lyko, Frank, Schaefer, Matthias

“…The maintenance of eukaryotic genome stability is ensured by the interplay of transcriptional as well as post-transcriptional mechanisms that control…”
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Genome analysis of the monoclonal marbled crayfish reveals genetic separation over a short evolutionary timescale by Maiakovska, Olena, Andriantsoa, Ranja, Tönges, Sina, Legrand, Carine, Gutekunst, Julian, Hanna, Katharina, Pârvulescu, Lucian, Novitsky, Roman, Weiperth, András, Sciberras, Arnold, Deidun, Alan, Ercoli, Fabio, Kouba, Antonin, Lyko, Frank

“…The marbled crayfish ( Procambarus virginalis ) represents a very recently evolved parthenogenetic freshwater crayfish species that has invaded diverse…”
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Queuine links translational control in eukaryotes to a micronutrient from bacteria by Müller, Martin, Legrand, Carine, Tuorto, Francesca, Kelly, Vincent P, Atlasi, Yaser, Lyko, Frank, Ehrenhofer-Murray, Ann E

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Orthogonal outlier detection and dimension estimation for improved MDS embedding of biological datasets by Li, Wanxin, Mirone, Jules, Prasad, Ashok, Miolane, Nina, Legrand, Carine, Dao Duc, Khanh

“…Conventional dimensionality reduction methods like Multidimensional Scaling (MDS) are sensitive to the presence of orthogonal outliers, leading to significant…”
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Correction to ‘RiboVIEW: a computational framework for visualization, quality control and statistical analysis of ribosome profiling data’ by Legrand, Carine, Tuorto, Francesca

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RiboVIEW: a computational framework for visualization, quality control and statistical analysis of ribosome profiling data by Legrand, Carine, Tuorto, Francesca

“…Abstract Recently, newly developed ribosome profiling methods based on high-throughput sequencing of ribosome-protected mRNA footprints allow to study…”
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Analysis of Ribosome Profiling Data by Legrand, Carine, Duc, Khanh Dao, Tuorto, Francesca

“…Ribosome profiling methods are based on high-throughput sequencing of ribosome-protected mRNA footprints and allow to study in detail translational changes…”
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BisAMP: A web-based pipeline for targeted RNA cytosine-5 methylation analysis by Bormann, Felix, Tuorto, Francesca, Cirzi, Cansu, Lyko, Frank, Legrand, Carine

“…•Analysis of cytosine-5 methylation in amplicons from bisulfite-treated RNA.•Filtering of bisulfite artifacts in RNA.•Web-based analysis. RNA cytosine-5…”
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Queuine links translational control in eukaryotes to a micronutrient from bacteria by Müller, Martin, Legrand, Carine, Tuorto, Francesca, Kelly, Vincent P, Atlasi, Yaser, Lyko, Frank, Ehrenhofer-Murray, Ann E

“…Abstract In eukaryotes, the wobble position of tRNA with a GUN anticodon is modified to the 7-deaza-guanosine derivative queuosine (Q34), but the original…”
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Queuosine‐modified tRNAs confer nutritional control of protein translation by Tuorto, Francesca, Legrand, Carine, Cirzi, Cansu, Federico, Giuseppina, Liebers, Reinhard, Müller, Martin, Ehrenhofer‐Murray, Ann E, Dittmar, Gunnar, Gröne, Hermann‐Josef, Lyko, Frank

“…Global protein translation as well as translation at the codon level can be regulated by tRNA modifications. In eukaryotes, levels of tRNA queuosinylation…”
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Translational adaptation to heat stress is mediated by RNA 5‐methylcytosine in Caenorhabditis elegans by Navarro, Isabela Cunha, Tuorto, Francesca, Jordan, David, Legrand, Carine, Price, Jonathan, Braukmann, Fabian, Hendrick, Alan G, Akay, Alper, Kotter, Annika, Helm, Mark, Lyko, Frank, Miska, Eric A

“…Methylation of carbon‐5 of cytosines (m 5 C) is a post‐transcriptional nucleotide modification of RNA found in all kingdoms of life. While individual m 5…”
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Queuosine‐tRNA promotes sex‐dependent learning and memory formation by maintaining codon‐biased translation elongation speed by Cirzi, Cansu, Dyckow, Julia, Legrand, Carine, Schott, Johanna, Guo, Wei, Perez Hernandez, Daniel, Hisaoka, Miharu, Parlato, Rosanna, Pitzer, Claudia, van der Hoeven, Franciscus, Dittmar, Gunnar, Helm, Mark, Stoecklin, Georg, Schirmer, Lucas, Lyko, Frank, Tuorto, Francesca

“…Abstract Queuosine (Q) is a modified nucleoside at the wobble position of specific tRNAs. In mammals, queuosinylation is facilitated by queuine uptake from the…”
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The Splicing-Associated Network PAK1-Clk-SRRM1 Is a Critical Vulnerability to Overcome Chemoresistance in Acute Myeloid Leukemia by Vaganay, Camille, Ling, Frank, Kelly, Lois M., Ho Nhat, Duong, Forget, Antoine, Meslin, Paul-Arthur, Pasquer, Hélène, Kim, Rathana, Passet, Marie, Fodil, Sofiane, Huynh, Tony, Su, Angela H, Bassil, Christopher F, Duchmann, Matthieu, Alexe, Gabriela, Fortin, Gael, Legrand, Carine, Saadallah, Khansa, Delaney, Christopher, Pacchiardi, Kim, Kocijancic, Anja, Aziez, Lisa, Fenouille, Nina, Sebert, Marie, Ades, Lionel, Raffoux, Emmanuel, Clappier, Emmanuelle, Benajiba, Lina, Stegmaier, Kimberly, Wood, Kris C., Itzykson, Raphael, Lobry, Camille, Puissant, Alexandre

“…In Acute Myeloid Leukemia (AML), distinguishing between chemoresistance driver mechanisms and cell plasticity in response to chemotherapy is challenging due to…”
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Division of labour: tRNA methylation by the NSun2 tRNA methyltransferases Trm4a and Trm4b in fission yeast by Müller, Martin, Samel-Pommerencke, Anke, Legrand, Carine, Tuorto, Francesca, Lyko, Frank, Ehrenhofer-Murray, Ann E.

“…Enzymes of the cytosine-5 RNA methyltransferase Trm4/NSun2 family methylate tRNAs at C48 and C49 in multiple tRNAs, as well as C34 and C40 in selected tRNAs…”
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Mutations in Cytosine-5 tRNA Methyltransferases Impact Mobile Element Expression and Genome Stability at Specific DNA Repeats by Genenncher, Bianca, Durdevic, Zeljko, Hanna, Katharina, Zinkl, Daniela, Mobin, Mehrpouya Balaghy, Senturk, Nevcin, da Silva, Bruno, Legrand, Carine, Carré, Clément, Lyko, Frank, Schaefer, Matthias

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Practical investigation of the performance of robust logistic regression to predict the genetic risk of hypertension by Kesselmeier, Miriam, Legrand, Carine, Peil, Barbara, Kabisch, Maria, Fischer, Christine, Hamann, Ute, Lorenzo Bermejo, Justo

“…Logistic regression is usually applied to investigate the association between inherited genetic variants and a binary disease phenotype. A limitation of…”
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Using next-generation DNA sequence data for genetic association tests based on allele counts with and without consideration of zero inflation by González Silos, Rosa, Karadag, Özge, Peil, Barbara, Fischer, Christine, Kabisch, Maria, Legrand, Carine, Lorenzo Bermejo, Justo

“…The relationship between genetic variability and individual phenotypes is usually investigated by testing for association relying on called genotypes. Allele…”
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Inherited variability in a master regulator polymorphism (rs4846126) associates with survival in 5-FU treated colorectal cancer patients by Pardini, Barbara, Bermejo, Justo Lorenzo, Naccarati, Alessio, Di Gaetano, Cornelia, Rosa, Fabio, Legrand, Carine, Novotny, Jan, Vodicka, Pavel, Kumar, Rajiv

“…Treatment with 5-fluorouracil (5-FU) is known to improve survival in many cancers including colorectal cancer. Response to the treatment, overall survival and…”
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