Competitive repair by naturally dispersed repetitive DNA during non-allelic homologous recombination.

Autor: Margaret L Hoang, Frederick J Tan, David C Lai, Sue E Celniker, Roger A Hoskins, Maitreya J Dunham, Yixian Zheng, Douglas Koshland

Publikováno v: PLoS Genetics, Vol 6, Iss 12, p e1001228 (2010)

Genome rearrangements often result from non-allelic homologous recombination (NAHR) between repetitive DNA elements dispersed throughout the genome. Here we systematically analyze NAHR between Ty retrotransposons using a genome-wide approach that exp

Externí odkaz: https://doaj.org/article/44485b86523a44119d8fcbbac618ea2d

Abstract LB-250: The Critical Assessment of Genome Interpretation: A community experiment that informs use of methods for germline cancer variant impact prediction

Autor: Constantina Bakolitsa, Roger A. Hoskins, Cagi participants, Predrag Radivojac, Steven E. Brenner, John Moult, Gaia Andreoletti

Publikováno v: Cancer Research. 80:LB-250

Interpretation of genomic variation plays an essential role in the analysis of cancer and monogenic disease, with applications ranging from basic research to clinical decisions. Yet the field lacks a clear consensus on the appropriate level of confid

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::6f679b33abcf5e03d2b94f4a3c63eb34
https://doi.org/10.1158/1538-7445.am2020-lb-250

Working towards precision medicine: predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges

Autor: Predrag Radivojac, Yanran Wang, Kunal Kundu, Maggie Haitian Wang, Laksshman Sundaram, Pier Luigi Martelli, Sohela Shah, Steven E. Brenner, Emanuela Leonardi, Yuxiang Jiang, Roxana Daneshjou, Mehdi Pirooznia, Marco Carraro, Rita Casadio, Biao Li, Giulia Babbi, Peter P. Zandi, John Moult, Silvio C. E. Tosatto, Andre Franke, Yanay Ofran, James B. Potash, David T. Jones, Mauno Vihinen, Billy Chang, Sean D. Mooney, Pietro Di Lena, Roger A. Hoskins, Russ B. Altman, David K. Gifford, Rajendra Rana Bhat, Kymberleigh A. Pagel, Carlo Ferrari, Yana Bromberg, Susanna Repo, Britt-Sabina Petersen, Xiaolin Li, Yizhou Yin, Alexander A. Morgan, Teri E. Klein, Lipika R. Pal, Ron Unger, Samuele Bovo, Abhishek Niroula, Richard W. McCombie, Vikas Pejaver, Eran Bachar, Matthew D. Edwards, Alessandra Gasparini, Johnathan Roy Azaria, Manuel Giollo

Publikováno v: PMC

Precision medicine aims to predict a patient's disease risk and best therapeutic options by using that individual's genetic sequencing data. The Critical Assessment of Genome Interpretation (CAGI) is a community experiment consisting of genotype�

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7093df1a3254b2b364be645d9ec72274
https://europepmc.org/articles/PMC5600620/

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

Stringent Analysis of Gene Function and Protein–Protein Interactions Using Fluorescently Tagged Genes

Autor: Koen J. T. Venken, Michael Buckner, Young Guen Kwon, Frederik Wirtz-Peitz, Ralph A. Neumüller, Norbert Perrimon, Roger A. Hoskins, Stephanie E. Mohr, Hugo J. Bellen, Stella Juhyun Lee

Publikováno v: Genetics. 190:931-940

In Drosophila collections of green fluorescent protein (GFP) trap lines have been used to probe the endogenous expression patterns of trapped genes or the subcellular localization of their protein products. Here, we describe a method, based on nonove

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::79084b4fea18a1ad6def2866b95db28f
https://doi.org/10.1534/genetics.111.136465