Early transcriptional response pathways in Daphnia magna are coordinated in networks of crustacean-specific genes

Autor: Jouni Kvist, Mieke Jansen, Luc De Meester, Katina I. Spanier, Karel A.C. De Schamphelaere, Omid Shams Solari, Marcus H. Stoiber, Mikko J. Frilander, John K. Colbourne, Shan He, Ellen Decaestecker, Dong Li, Ram Podicheti, Donald L. Gilbert, James B. Brown, Douglas B. Rusch, Michael E. Pfrender, Luisa Orsini

Publikováno v: Molecular ecology, vol 27, iss 4

Natural habitats are exposed to an increasing number of environmental stressors that cause important ecological consequences. However, the multifarious nature of environmental change, the strength and the relative timing of each stressor largely limi

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::61faa0ee07859bffcf09c91ebe556c5c
https://escholarship.org/uc/item/3vf7d4sc

BasecRAWller: Streaming Nanopore Basecalling Directly from Raw Signal

Autor: Marcus H. Stoiber, Brown J

All current nanopore basecalling applications begin with the segmentation of raw signal into discrete events, which are ultimately processed into called bases. We propose the basecRAWller algorithm, a pair of unidirectional recurrent neural networks

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::945261d84cf1201f10b8710ac126499b

Comparative Analysis of the Transcriptome across Distant Species

Autor: Gang Fang, LaDeana W. Hillier, Brenton R. Graveley, Ali Mortazavi, Norbert Perrimon, Nathan Boley, Jingyi Jessica Li, William C. Spencer, James B. Brown, Chau Huynh, Roger A. Hoskins, Mark Gerstein, Ann S. Hammonds, Sarah Djebali, Sonali Jha, Kenneth H. Wan, Cédric Howald, Raymond K. Auerbach, Chenghai Xue, Haiyan Huang, Jorg Drenkow, Elise A. Feingold, Julien Lagarde, Daifeng Wang, Dmitri D. Pervouchine, Thomas R. Gingeras, Guilin Wang, Peter Cherbas, Brent Ewing, Chao Di, Gary Saunders, Benjamin W. Booth, Joel Rozowsky, Yan Zhang, Anastasia Samsonova, Dionna M. Kasper, Cristina Sisu, Marcus H. Stoiber, Jiayu Wen, Michael O. Duff, Felix Schlesinger, Gennifer E. Merrihew, Sara Olson, Susan E. Celniker, Burak H. Alver, Chao Cheng, Gemma E. May, Alexandre Reymond, Carrie A. Davis, Alexander Dobin, Max E. Boeck, Roger P. Alexander, Michael J. Pazin, Peter J. Park, Adam Frankish, Lucy Cherbas, Zhi Lu, Kevin Y. Yip, Henry Zheng, Owen Thompson, Jing Leng, Kathie L. Watkins, Andrea Tanzer, Valerie Reinke, Rebecca McWhirter, Eric C. Lai, Steven E. Brenner, Robert H. Waterston, Koon-Kiu Yan, Masaomi Kato, Roderic Guigó, Huaien Wang, Kimberly Bell, Pnina Strasbourger, Baikang Pei, Jen Harrow, Long Hu, Chris Zaleski, Rabi Murad, Thomas C. Kaufman, Erik Ladewig, Robert R. Kitchen, Anurag Sethi, Kejia Wen, Guanjun Gao, Arif Harmanci, Megan Fastuca, Brian Oliver, Frank J. Slack, David M. Miller, Tim Hubbard, Garrett Robinson, Peter J. Good, Peter J. Bickel, Michael J. MacCoss, Li Yang

Publikováno v: Nature
Recercat. Dipósit de la Recerca de Catalunya
instname
NATURE
Nature, vol 512, iss 7515
Nature, vol. 512, no. 7515, pp. 445-448

The transcriptome is the readout of the genome. Identifying common features in it across distant species can reveal fundamental principles. To this end, the ENCODE and modENCODE consortia have generated large amounts of matched RNA-sequencing data fo

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6ff4743e37adbb649e1f3de16b418d13
http://europepmc.org/articles/PMC4155737

Diverse Hormone Response Networks in 41 Independent Drosophila Cell Lines

Autor: Ben Brown, Lucy Cherbas, Susan E. Celniker, Peter Cherbas, Marcus H. Stoiber

Publikováno v: G3 (Bethesda, Md.), vol 6, iss 3
G3: Genes, Genomes, Genetics, Vol 6, Iss 3, Pp 683-694 (2016)
Stoiber, M; Celniker, S; Cherbas, L; Brown, B; & Cherbas, P. (2016). Diverse hormone response networks in 41 independent Drosophila cell lines. G3: Genes, Genomes, Genetics, 6(3), 683-694. doi: 10.1534/g3.115.023366. Lawrence Berkeley National Laboratory: Lawrence Berkeley National Laboratory. Retrieved from: http://www.escholarship.org/uc/item/5nk4t5h6
G3: Genes|Genomes|Genetics

Steroid hormones induce cascades of gene activation and repression with transformative effects on cell fate . Steroid transduction plays a major role in the development and physiology of nearly all metazoan species, and in the progression of the most

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6e2041e8cc620585f01f490a92aff0a8
https://escholarship.org/uc/item/5nk4t5h6

Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility

Autor: Wessel, Jennifer, Chu, Audrey Y, Willems, Sara M, Wang, Shuai, Yaghootkar, Hanieh, Brody, Jennifer A, Dauriz, Marco, Hivert, Marie-France, Raghavan, Sridharan, Lipovich, Leonard, Hidalgo, Bertha, Fox, Keolu, Huffman, Jennifer E, An, Ping, Lu, Yingchang, Rasmussen-Torvik, Laura J, Grarup, Niels, Ehm, Margaret G, Li, Li, Baldridge, Abigail S, Stančáková, Alena, Abrol, Ravinder, Besse, Céline, Boland, Anne, Bork-Jensen, Jette, Fornage, Myriam, Freitag, Daniel F, Garcia, Melissa E, Guo, Xiuqing, Hara, Kazuo, Isaacs, Aaron, Jakobsdottir, Johanna, Lange, Leslie A, Layton, Jill C, Li, Man, Hua Zhao, Jing, Meidtner, Karina, Morrison, Alanna C, Nalls, Mike A, Peters, Marjolein J, Sabater-Lleal, Maria, Schurmann, Claudia, Silveira, Angela, Smith, Albert V, Southam, Lorraine, Stoiber, Marcus H, Strawbridge, Rona J., Taylor, Kent D, Varga, Tibor V, Allin, Kristine H, Amin, Najaf, Aponte, Jennifer L, Aung, Tin, Barbieri, Caterina, Bihlmeyer, Nathan A, Boehnke, Michael, Bombieri, Cristina, Bowden, Donald W, Burns, Sean M, Chen, Yuning, Chen, Yii-DerI, Cheng, Ching-Yu, Correa, Adolfo, Czajkowski, Jacek, Dehghan, Abbas, Ehret, Georg B, Eiriksdottir, Gudny, Escher, Stefan A, Farmaki, Aliki-Eleni, Frånberg, Mattias, Gambaro, Giovanni, Giulianini, Franco, Goddard, William A, Goel, Anuj, Gottesman, Omri, Grove, Megan L, Gustafsson, Stefan, Hai, Yang, Hallmans, Göran, Heo, Jiyoung, Hoffmann, Per, Ikram, Mohammad K, Jensen, Richard A, Jørgensen, Marit E, Jørgensen, Torben, Karaleftheri, Maria, Khor, Chiea C, Kirkpatrick, Andrea, Kraja, Aldi T, Kuusisto, Johanna, Lange, Ethan M, Lee, I T, Lee, Wen-Jane, Leong, Aaron, Liao, Jiemin, Liu, Chunyu, Liu, Yongmei, Lindgren, Cecilia M, Linneberg, Allan, Malerba, Giovanni, Mamakou, Vasiliki, Marouli, Eirini, Maruthur, Nisa M, Matchan, Angela, McKean-Cowdin, Roberta, McLeod, Olga, Metcalf, Ginger A, Mohlke, Karen L, Muzny, Donna M, Ntalla, Ioanna, Palmer, Nicholette D, Pasko, Dorota, Peter, Andreas, Rayner, Nigel W, Renström, Frida, Rice, Ken, Sala, Cinzia F, Sennblad, Bengt, Serafetinidis, Ioannis, Smith, Jennifer A, Soranzo, Nicole, Speliotes, Elizabeth K, Stahl, Eli A, Stirrups, Kathleen, Tentolouris, Nikos, Thanopoulou, Anastasia, Torres, Mina, Traglia, Michela, Tsafantakis, Emmanouil, Javad, Sundas, Yanek, Lisa R, Zengini, Eleni, Becker, Diane M, Bis, Joshua C, Brown, James B, Adrienne Cupples, L, Hansen, Torben, Ingelsson, Erik, Karter, Andrew J, Lorenzo, Carlos, Mathias, Rasika A, Norris, Jill M, Peloso, Gina M, Sheu, Wayne H.-H., Toniolo, Daniela, Vaidya, Dhananjay, Varma, Rohit, Wagenknecht, Lynne E, Boeing, Heiner, Bottinger, Erwin P, Dedoussis, George, Deloukas, Panos, Ferrannini, Ele, Franco, Oscar H, Franks, Paul W, Gibbs, Richard A, Gudnason, Vilmundur, Hamsten, Anders, Harris, Tamara B, Hattersley, Andrew T, Hayward, Caroline, Hofman, Albert, Jansson, Jan-Håkan, Langenberg, Claudia, Launer, Lenore J, Levy, Daniel, Oostra, Ben A, O’Donnell, Christopher J, O’Rahilly, Stephen, Padmanabhan, Sandosh, Pankow, James S, Polasek, Ozren, Province, Michael A, Rich, Stephen S, Ridker, Paul M, Rudan, Igor, Schulze, Matthias B, Smith, Blair H, Uitterlinden, André G, Walker, Mark, Watkins, Hugh, Wong, Tien Y, Zeggini, Eleftheria, Sharp, Stephen J, Forouhi, Nita G, Kerrison, Nicola D, Lucarelli, Debora ME, Sims, Matt, Barroso, Inês, McCarthy, Mark I, Arriola, Larraitz, Balkau, Beverley, Barricarte, Aurelio, Gonzalez, Carlos, Grioni, Sara, Kaaks, Rudolf, Key, Timothy J, Navarro, Carmen, Nilsson, Peter M, Overvad, Kim, Palli, Domenico, Panico, Salvatore, Quirós, J. Ramón, Rolandsson, Olov, Sacerdote, Carlotta, Sánchez, María–José, Slimani, Nadia, Tjonneland, Anne, Tumino, Rosario, van der A, Daphne L, van der Schouw, Yvonne T, Riboli, Elio, Laakso, Markku, Borecki, Ingrid B, Chasman, Daniel I, Pedersen, Oluf, Psaty, Bruce M, Shyong Tai, E, van Duijn, Cornelia M, Wareham, Nicholas J, Waterworth, Dawn M, Boerwinkle, Eric, Linda Kao, W H, Florez, Jose C, Loos, Ruth J.F., Wilson, James G, Frayling, Timothy M, Siscovick, David S, Dupuis, Josée, Rotter, Jerome I, Meigs, James B, Scott, Robert A, Goodarzi, Mark O

Publikováno v: Nature Communications; 6, no 5897 (2015)
Nature Communications, 6. Nature Publishing Group
Nature Communications

Fasting glucose and insulin are intermediate traits for type 2 diabetes. Here we explore the role of coding variation on these traits by analysis of variants on the HumanExome BeadChip in 60,564 non-diabetic individuals and in 16,491 T2D cases and 81

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=pmid_dedup__::b4e753838b417a40127c2f21bb64f1eb
http://urn.kb.se/resolve?urn=urn:nbn:se:umu:diva-100787