Zobrazeno 1 - 10
of 18
pro vyhledávání: '"Michael Rutenberg Schoenberg"'
Autor:
Jing Zhang, Donghoon Lee, Vineet Dhiman, Peng Jiang, Jie Xu, Patrick McGillivray, Hongbo Yang, Jason Liu, William Meyerson, Declan Clarke, Mengting Gu, Shantao Li, Shaoke Lou, Jinrui Xu, Lucas Lochovsky, Matthew Ung, Lijia Ma, Shan Yu, Qin Cao, Arif Harmanci, Koon-Kiu Yan, Anurag Sethi, Gamze Gürsoy, Michael Rutenberg Schoenberg, Joel Rozowsky, Jonathan Warrell, Prashant Emani, Yucheng T. Yang, Timur Galeev, Xiangmeng Kong, Shuang Liu, Xiaotong Li, Jayanth Krishnan, Yanlin Feng, Juan Carlos Rivera-Mulia, Jessica Adrian, James R Broach, Michael Bolt, Jennifer Moran, Dominic Fitzgerald, Vishnu Dileep, Tingting Liu, Shenglin Mei, Takayo Sasaki, Claudia Trevilla-Garcia, Su Wang, Yanli Wang, Chongzhi Zang, Daifeng Wang, Robert J. Klein, Michael Snyder, David M. Gilbert, Kevin Yip, Chao Cheng, Feng Yue, X. Shirley Liu, Kevin P. White, Mark Gerstein
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-11 (2020)
ENCODE is a resource comprising thousands of functional genomic datasets. Here, the authors present custom annotation within ENCODE for cancer, highlighting a workflow that can help prioritise key elements in oncogenesis.
Externí odkaz:
https://doaj.org/article/d3ef1766b33842a5aa6bd3194efeba4e
Autor:
Jing Zhang, Jason Liu, Donghoon Lee, Jo-Jo Feng, Lucas Lochovsky, Shaoke Lou, Michael Rutenberg-Schoenberg, Mark Gerstein
Publikováno v:
Genome Biology, Vol 21, Iss 1, Pp 1-13 (2020)
Abstract RNA-binding proteins (RBPs) play key roles in post-transcriptional regulation and disease. Their binding sites cover more of the genome than coding exons; nevertheless, most noncoding variant prioritization methods only focus on transcriptio
Externí odkaz:
https://doaj.org/article/d5da4ad7e27047c7a1b4265132dc397a
Publikováno v:
PLoS Genetics, Vol 11, Iss 12, p e1005668 (2015)
The long non-coding RNA (lncRNA) Xist is a master regulator of X-chromosome inactivation in mammalian cells. Models for how Xist and other lncRNAs function depend on thermodynamically stable secondary and higher-order structures that RNAs can form in
Externí odkaz:
https://doaj.org/article/508acf4505e84bd69897834bb15b0e77
Autor:
Michael Rutenberg-Schoenberg, Mark Gerstein, Lucas Lochovsky, Jo-Jo Feng, Jing Zhang, Jason Liu, Dong-Hoon Lee, Shaoke Lou
Publikováno v:
Genome biology, vol 21, iss 1
Genome Biology, Vol 21, Iss 1, Pp 1-13 (2020)
Genome Biology
Genome Biology, Vol 21, Iss 1, Pp 1-13 (2020)
Genome Biology
RNA-binding proteins (RBPs) play key roles in post-transcriptional regulation and disease. Their binding sites cover more of the genome than coding exons; nevertheless, most noncoding variant prioritization methods only focus on transcriptional regul
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ea3e271523c3affde4e4c2c72444db55
https://escholarship.org/uc/item/0s89n4f4
https://escholarship.org/uc/item/0s89n4f4
Publikováno v:
Biochemistry. 56:4713-4721
Chemical probing has the power to provide insight into RNA conformation in vivo and in vitro, but interpreting the results depends on methods to detect the chemically modified nucleotides. Traditionally, the presence of modified bases was inferred fr
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::c6476f548ecb9bb7f78b3a04b9f97398
https://doi.org/10.1021/acs.biochem.7b00323
https://doi.org/10.1021/acs.biochem.7b00323
Autor:
Chongzhi Zang, Jonathan Warrell, Jing Zhang, Patrick McGillivray, Chao Cheng, Su Wang, Arif Harmanci, Peng Jiang, Mark Gerstein, Jessica Adrian, Mengting Gu, William Meyerson, Qin Cao, Jennifer R. Moran, Jie Xu, Robert J. Klein, David M. Gilbert, Prashant Emani, Xiangmeng Kong, Yanlin Feng, Anurag Sethi, Shuang Liu, Yanli Wang, Shenglin Mei, Michael Rutenberg Schoenberg, Vishnu Dileep, Takayo Sasaki, Daifeng Wang, Matthew Ung, Michael Snyder, Kevin Y. Yip, Joel Rozowsky, Kevin P. White, Declan Clarke, Shan Yu, Koon-Kiu Yan, Shaoke Lou, Gamze Gürsoy, Yucheng T. Yang, Michael J. Bolt, Jason Liu, Jayanth Krishnan, Jinrui Xu, Lucas Lochovsky, Lijia Ma, Xiaotong Li, Dominic Fitzgerald, Juan Carlos Rivera-Mulia, Claudia Trevilla-Garcia, Hongbo Yang, Dong-Hoon Lee, Vineet K. Dhiman, James R. Broach, X. Shirley Liu, Feng Yue, Timur R. Galeev, Tingting Liu, Shantao Li
Publikováno v:
Nature Communications
Nature Communications, Vol 11, Iss 1, Pp 1-11 (2020)
Nature Communications, Vol 11, Iss 1, Pp 1-11 (2020)
ENCODE comprises thousands of functional genomics datasets, and the encyclopedia covers hundreds of cell types, providing a universal annotation for genome interpretation. However, for particular applications, it may be advantageous to use a customiz
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4bb906488a0fac8b8b16249e62e2c506
https://doi.org/10.1101/706424
https://doi.org/10.1101/706424
Autor:
Michael Rutenberg-Schoenberg, Renee R. Wasko, Michael Rosenblum, Brett A. Shook, Bahar Zirak, Francesc López-Giráldez, Valerie Horsley, Michael Rendl, Michael C. Rudolph, Omer Mano, Guillermo C. Rivera-Gonzalez, Amélie Rezza, Mark Gerstein, Damon A. Clark, Simona Zarini
Publikováno v:
Cell Stem Cell
Mature adipocytes store fatty acids and are a common component of tissue stroma. While adipocyte function in regulating bone marrow, skin, muscle, and mammary gland biology is emerging, the role of adipocyte-derived lipids in tissue homeostasis and r
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::cfd1884340bf6356fd3b2820b12b15c7
https://doi.org/10.1016/j.stem.2020.03.013
https://doi.org/10.1016/j.stem.2020.03.013
Autor:
Mark Gerstein, Michael Rutenberg-Schoenberg, Matthew D. Simon, Catherine D. Stark, Erin E. Duffy, Robert R. Kitchen
Publikováno v:
Molecular Cell. 59:858-866
We describe a chemical method to label and purify 4-thiouridine (s(4)U)-containing RNA. We demonstrate that methanethiosulfonate (MTS) reagents form disulfide bonds with s(4)U more efficiently than the commonly used HPDP-biotin, leading to higher yie
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::14da6b837c5664f384a426a43fbab910
https://doi.org/10.1016/j.molcel.2015.07.023
https://doi.org/10.1016/j.molcel.2015.07.023
Publikováno v:
Annual review of genomics and human genetics. 17
Beyond coding for proteins, RNA molecules have well-established functions in the posttranscriptional regulation of gene expression. Less clear are the upstream roles of RNA in regulating transcription and chromatin-based processes in the nucleus. RNA
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3558785eb170fcb6d39eff134cdc1043
https://pubmed.ncbi.nlm.nih.gov/27147088
https://pubmed.ncbi.nlm.nih.gov/27147088
Autor:
Ellen Q. Wang, Brian J. Druker, Luke B Fletcher, Motomi Mori, Wayne F. Yang, Jeffrey W. Tyner, Marc M. Loriaux, Michael Heinrich, Michael W. Deininger, Michael Rutenberg-Schoenberg, Carol Beadling
Publikováno v:
Cancer Research. 70:6233-6237
High-throughput sequencing promises to accelerate the discovery of sequence variants, but distinguishing oncogenic mutations from irrelevant “passenger” mutations remains a major challenge. Here we present an analysis of two sequence variants of
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::70eb980a8d6784decb9ddfa7c2489574
https://doi.org/10.1158/0008-5472.can-10-0429
https://doi.org/10.1158/0008-5472.can-10-0429