Search Results - "Jarosz, Yohan"

HTSstation: a web application and open-access libraries for high-throughput sequencing data analysis by David, Fabrice P A, Delafontaine, Julien, Carat, Solenne, Ross, Frederick J, Lefebvre, Gregory, Jarosz, Yohan, Sinclair, Lucas, Noordermeer, Daan, Rougemont, Jacques, Leleu, Marion

“…The HTSstation analysis portal is a suite of simple web forms coupled to modular analysis pipelines for various applications of High-Throughput Sequencing…”
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PredictProtein - Predicting Protein Structure and Function for 29 Years by Bernhofer, Michael, Dallago, Christian, Karl, Tim, Satagopam, Venkata, Heinzinger, Michael, Littmann, Maria, Olenyi, Tobias, Qiu, Jiajun, Schütze, Konstantin, Yachdav, Guy, Ashkenazy, Haim, Ben-Tal, Nir, Bromberg, Yana, Goldberg, Tatyana, Kajan, Laszlo, O’Donoghue, Sean, Sander, Chris, Schafferhans, Andrea, Schlessinger, Avner, Vriend, Gerrit, Mirdita, Milot, Gawron, Piotr, Gu, Wei, Jarosz, Yohan, Trefois, Christophe, Steinegger, Martin, Schneider, Reinhard, Rost, Burkhard

“…Abstract Since 1992 PredictProtein (https://predictprotein.org) is a one-stop online resource for protein sequence analysis with its main site hosted at the…”
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The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease by Noronha, Alberto, Modamio, Jennifer, Jarosz, Yohan, Guerard, Elisabeth, Sompairac, Nicolas, Preciat, German, Daníelsdóttir, Anna Dröfn, Krecke, Max, Merten, Diane, Haraldsdóttir, Hulda S, Heinken, Almut, Heirendt, Laurent, Magnúsdóttir, Stefanía, Ravcheev, Dmitry A, Sahoo, Swagatika, Gawron, Piotr, Friscioni, Lucia, Garcia, Beatriz, Prendergast, Mabel, Puente, Alberto, Rodrigues, Mariana, Roy, Akansha, Rouquaya, Mouss, Wiltgen, Luca, Žagare, Alise, John, Elisabeth, Krueger, Maren, Kuperstein, Inna, Zinovyev, Andrei, Schneider, Reinhard, Fleming, Ronan M T, Thiele, Ines

“…Abstract A multitude of factors contribute to complex diseases and can be measured with ‘omics’ methods. Databases facilitate data interpretation for…”
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The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals by Bastian, Frederic B, Roux, Julien, Niknejad, Anne, Comte, Aurélie, Fonseca Costa, Sara S, de Farias, Tarcisio Mendes, Moretti, Sébastien, Parmentier, Gilles, de Laval, Valentine Rech, Rosikiewicz, Marta, Wollbrett, Julien, Echchiki, Amina, Escoriza, Angélique, Gharib, Walid H, Gonzales-Porta, Mar, Jarosz, Yohan, Laurenczy, Balazs, Moret, Philippe, Person, Emilie, Roelli, Patrick, Sanjeev, Komal, Seppey, Mathieu, Robinson-Rechavi, Marc

“…Abstract Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced by integrating multiple data types (RNA-Seq,…”
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IMP: a pipeline for reproducible reference-independent integrated metagenomic and metatranscriptomic analyses by Narayanasamy, Shaman, Jarosz, Yohan, Muller, Emilie E L, Heintz-Buschart, Anna, Herold, Malte, Kaysen, Anne, Laczny, Cédric C, Pinel, Nicolás, May, Patrick, Wilmes, Paul

“…Existing workflows for the analysis of multi-omic microbiome datasets are lab-specific and often result in sub-optimal data usage. Here we present IMP, a…”
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Quantifying ChIP-seq data: a spiking method providing an internal reference for sample-to-sample normalization by Bonhoure, Nicolas, Bounova, Gergana, Bernasconi, David, Praz, Viviane, Lammers, Fabienne, Canella, Donatella, Willis, Ian M, Herr, Winship, Hernandez, Nouria, Delorenzi, Mauro

“…Chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) experiments are widely used to determine, within entire genomes, the occupancy sites of…”
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Differential regulation of RNA polymerase III genes during liver regeneration by Yeganeh, Meghdad, Praz, Viviane, Carmeli, Cristian, Villeneuve, Dominic, Rib, Leonor, Guex, Nicolas, Herr, Winship, Delorenzi, Mauro, Hernandez, Nouria

“…Abstract Mouse liver regeneration after partial hepatectomy involves cells in the remaining tissue synchronously entering the cell division cycle. We have used…”
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Drug-target identification in COVID-19 disease mechanisms using computational systems biology approaches by Niarakis, Anna, Ostaszewski, Marek, Mazein, Alexander, Kuperstein, Inna, Kutmon, Martina, Gillespie, Marc E, Funahashi, Akira, Acencio, Marcio Luis, Hemedan, Ahmed, Aichem, Michael, Klein, Karsten, Czauderna, Tobias, Burtscher, Felicia, Yamada, Takahiro G, Hiki, Yusuke, Hiroi, Noriko F, Hu, Finterly, Pham, Nhung, Ehrhart, Friederike, Willighagen, Egon L, Valdeolivas, Alberto, Dugourd, Aurelien, Messina, Francesco, Esteban-Medina, Marina, Peña-Chilet, Maria, Rian, Kinza, Soliman, Sylvain, Aghamiri, Sara Sadat, Puniya, Bhanwar Lal, Naldi, Aurélien, Helikar, Tomáš, Singh, Vidisha, Fernández, Marco Fariñas, Bermudez, Viviam, Tsirvouli, Eirini, Montagud, Arnau, Noël, Vincent, Ponce-de-Leon, Miguel, Maier, Dieter, Bauch, Angela, Gyori, Benjamin M, Bachman, John A, Luna, Augustin, Piñero, Janet, Furlong, Laura I, Balaur, Irina, Rougny, Adrien, Jarosz, Yohan, Overall, Rupert W, Phair, Robert, Perfetto, Livia, Matthews, Lisa, Rex, Devasahayam Arokia Balaya, Orlic-Milacic, Marija, Gomez, Luis Cristobal Monraz, De Meulder, Bertrand, Ravel, Jean Marie, Jassal, Bijay, Satagopam, Venkata, Wu, Guanming, Golebiewski, Martin, Gawron, Piotr, Calzone, Laurence, Beckmann, Jacques S, Evelo, Chris T, D'Eustachio, Peter, Schreiber, Falk, Saez-Rodriguez, Julio, Dopazo, Joaquin, Kuiper, Martin, Valencia, Alfonso, Wolkenhauer, Olaf, Kitano, Hiroaki, Barillot, Emmanuel, Auffray, Charles, Balling, Rudi, Schneider, Reinhard

“…The COVID-19 Disease Map project is a large-scale community effort uniting 277 scientists from 130 Institutions around the globe. We use high-quality,…”
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Genome-wide analysis of SREBP1 activity around the clock reveals its combined dependency on nutrient and circadian signals by Gilardi, Federica, Migliavacca, Eugenia, Naldi, Aurélien, Baruchet, Michaël, Canella, Donatella, Le Martelot, Gwendal, Guex, Nicolas, Desvergne, Béatrice

“…In mammals, the circadian clock allows them to anticipate and adapt physiology around the 24 hours. Conversely, metabolism and food consumption regulate the…”
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DAISY: A Data Information System for accountability under the General Data Protection Regulation by Becker, Regina, Alper, Pinar, Grouès, Valentin, Munoz, Sandrine, Jarosz, Yohan, Lebioda, Jacek, Rege, Kavita, Trefois, Christophe, Satagopam, Venkata, Schneider, Reinhard

“…Abstract Background The new European legislation on data protection, namely, the General Data Protection Regulation (GDPR), has introduced comprehensive…”
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A multiplicity of factors contributes to selective RNA polymerase III occupancy of a subset of RNA polymerase III genes in mouse liver by Canella, Donatella, Bernasconi, David, Gilardi, Federica, LeMartelot, Gwendal, Migliavacca, Eugenia, Praz, Viviane, Cousin, Pascal, Delorenzi, Mauro, Hernandez, Nouria

“…The genomic loci occupied by RNA polymerase (RNAP) III have been characterized in human culture cells by genome-wide chromatin immunoprecipitations, followed…”
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Accurate long-read sequencing identified GBA1 as major risk factor in the Luxembourgish Parkinson’s study by Pachchek, Sinthuja, Landoulsi, Zied, Pavelka, Lukas, Schulte, Claudia, Buena-Atienza, Elena, Gross, Caspar, Hauser, Ann-Kathrin, Reddy Bobbili, Dheeraj, Casadei, Nicolas, May, Patrick, Krüger, Rejko

“…Heterozygous variants in the glucocerebrosidase GBA1 gene are an increasingly recognized risk factor for Parkinson’s disease (PD). Due to the GBAP1 pseudogene,…”
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Comprehensive blood metabolomics profiling of Parkinson’s disease reveals coordinated alterations in xanthine metabolism by de Lope, Elisa Gómez, Loo, Rebecca Ting Jiin, Rauschenberger, Armin, Ali, Muhammad, Pavelka, Lukas, Marques, Tainá M., Gomes, Clarissa P. C., Krüger, Rejko, Glaab, Enrico

“…Parkinson’s disease (PD) is a highly heterogeneous disorder influenced by several environmental and genetic factors. Effective disease-modifying therapies and…”
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Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks by Roume, Hugo, Heintz-Buschart, Anna, Muller, Emilie E L, May, Patrick, Satagopam, Venkata P, Laczny, Cédric C, Narayanasamy, Shaman, Lebrun, Laura A, Hoopmann, Michael R, Schupp, James M, Gillece, John D, Hicks, Nathan D, Engelthaler, David M, Sauter, Thomas, Keim, Paul S, Moritz, Robert L, Wilmes, Paul

“…Background: Mixed microbial communities underpin important biotechnological processes such as biological wastewater treatment (BWWT). A detailed knowledge of…”
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Author Correction: Accurate long-read sequencing identified GBA1 as major risk factor in the Luxembourgish Parkinson’s study by Pachchek, Sinthuja, Landoulsi, Zied, Pavelka, Lukas, Schulte, Claudia, Buena-Atienza, Elena, Gross, Caspar, Hauser, Ann-Kathrin, Reddy Bobbili, Dheeraj, Casadei, Nicolas, May, Patrick, Krüger, Rejko

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Cycles of gene expression and genome response during mammalian tissue regeneration by Rib, Leonor, Villeneuve, Dominic, Minocha, Shilpi, Praz, Viviane, Hernandez, Nouria, Guex, Nicolas, Herr, Winship

“…Compensatory liver hyperplasia-or regeneration-induced by two-thirds partial hepatectomy (PH) permits the study of synchronized activation of mammalian gene…”
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HTSstation: A Web Application and Open-Access Libraries for High-Throughput Sequencing Data Analysis: e85879 by David, Fabrice PA, Delafontaine, Julien, Carat, Solenne, Ross, Frederick J, Lefebvre, Gregory, Jarosz, Yohan, Sinclair, Lucas, Noordermeer, Daan, Rougemont, Jacques, Leleu, Marion

“…The HTSstation analysis portal is a suite of simple web forms coupled to modular analysis pipelines for various applications of High-Throughput Sequencing…”
Get full text