Zobrazeno 1 - 10
of 526
pro vyhledávání: '"Gene W Yeo"'
Autor:
Qishan Liang, Tao Yu, Eric Kofman, Pratibha Jagannatha, Kevin Rhine, Brian A. Yee, Kevin D. Corbett, Gene W. Yeo
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-16 (2024)
Abstract RNA-binding proteins (RBPs) have pivotal functions in RNA metabolism, but current methods are limited in retrieving RBP-RNA interactions within endogenous biological contexts. Here, we develop INSCRIBE (IN situ Sensitive Capture of RNA-prote
Externí odkaz:
https://doaj.org/article/83aaa86b265641a4b9aa06dd076b7a84
Autor:
Sophie Hawkins, Alexandre Mondaini, Seema C. Namboori, Grady G. Nguyen, Gene W. Yeo, Asif Javed, Akshay Bhinge
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-20 (2024)
Abstract RNA-binding proteins (RBPs) regulate key aspects of RNA processing including alternative splicing, mRNA degradation and localization by physically binding RNA molecules. Current methods to map these interactions, such as CLIP, rely on purify
Externí odkaz:
https://doaj.org/article/98cdf82927c44a94a75a95ed56f2b3cc
Autor:
Clarence K. Mah, Noorsher Ahmed, Nicole A. Lopez, Dylan C. Lam, Avery Pong, Alexander Monell, Colin Kern, Yuanyuan Han, Gino Prasad, Anthony J. Cesnik, Emma Lundberg, Quan Zhu, Hannah Carter, Gene W. Yeo
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-25 (2024)
Abstract The spatial organization of molecules in a cell is essential for their functions. While current methods focus on discerning tissue architecture, cell–cell interactions, and spatial expression patterns, they are limited to the multicellular
Externí odkaz:
https://doaj.org/article/370b90adee9c46aa93c11ebcecb1cb61
Autor:
Platon Megagiannis, Yuan Mei, Rachel E. Yan, Lin Yuan, Jonathan J. Wilde, Hailey Eckersberg, Rahul Suresh, Xinzhu Tan, Hong Chen, W. Todd Farmer, Kuwook Cha, Phuong Uyen Le, Helene Catoire, Daniel Rochefort, Tony Kwan, Brian A. Yee, Patrick Dion, Arjun Krishnaswamy, Jean-Francois Cloutier, Stefano Stifani, Kevin Petrecca, Gene W. Yeo, Keith K. Murai, Guoping Feng, Guy A. Rouleau, Trey Ideker, Neville E. Sanjana, Yang Zhou
Publikováno v:
Cell Reports, Vol 43, Iss 8, Pp 114637- (2024)
Summary: Reactive changes of glial cells during neuroinflammation impact brain disorders and disease progression. Elucidating the mechanisms that control reactive gliosis may help us to understand brain pathophysiology and improve outcomes. Here, we
Externí odkaz:
https://doaj.org/article/85d2608293c54038ac6d9ed11c01f673
Autor:
Shuhao Xu, Grady G. Nguyen, Jack T. Naritomi, Hema M. Kopalle, Brian A. Yee, Katherine L. Rothamel, Evan A. Boyle, Gene W. Yeo
Publikováno v:
STAR Protocols, Vol 5, Iss 2, Pp 103040- (2024)
Summary: Here, we present a protocol for using Skipper, a pipeline designed to process crosslinking and immunoprecipitation (CLIP) data into annotated binding sites. We describe steps for partitioning annotated transcript regions and fitting data to
Externí odkaz:
https://doaj.org/article/e622606ca3b6467c8ebeda72b22e1c1e
Autor:
Hugo C. Medina-Munoz, Eric Kofman, Pratibha Jagannatha, Evan A. Boyle, Tao Yu, Krysten L. Jones, Jasmine R. Mueller, Grace D. Lykins, Andrew T. Doudna, Samuel S. Park, Steven M. Blue, Brodie L. Ranzau, Rahul M. Kohli, Alexis C. Komor, Gene W. Yeo
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-17 (2024)
Abstract RNA binding proteins (RBPs) are key regulators of RNA processing and cellular function. Technologies to discover RNA targets of RBPs such as TRIBE (targets of RNA binding proteins identified by editing) and STAMP (surveying targets by APOBEC
Externí odkaz:
https://doaj.org/article/8d2fba859be64189bf8bdb600ad90c27
Autor:
Veronica F. Busa, Yoshinari Ando, Stefan Aigner, Brian A. Yee, Gene W. Yeo, Anthony K.L. Leung
Publikováno v:
iScience, Vol 27, Iss 4, Pp 109251- (2024)
Summary: The RNA-binding protein PARP13 is a primary factor in the innate antiviral response, which suppresses translation and drives decay of bound viral and host RNA. PARP13 interacts with many proteins encoded by interferon-stimulated genes (ISG)
Externí odkaz:
https://doaj.org/article/cae2492ab46847208893735af25a2a31
Publikováno v:
BMC Bioinformatics, Vol 24, Iss 1, Pp 1-15 (2023)
Abstract Background Fusion of RNA-binding proteins (RBPs) to RNA base-editing enzymes (such as APOBEC1 or ADAR) has emerged as a powerful tool for the discovery of RBP binding sites. However, current methods that analyze sequencing data from RNA-base
Externí odkaz:
https://doaj.org/article/60fd58a8fbc4499381f485d2f5c347e6
Autor:
Corina E. Antal, Tae Gyu Oh, Stefan Aigner, En-Ching Luo, Brian A. Yee, Tania Campos, Hervé Tiriac, Katherine L. Rothamel, Zhang Cheng, Henry Jiao, Allen Wang, Nasun Hah, Elizabeth Lenkiewicz, Jan C. Lumibao, Morgan L. Truitt, Gabriela Estepa, Ester Banayo, Senada Bashi, Edgar Esparza, Ruben M. Munoz, Jolene K. Diedrich, Nicole M. Sodir, Jasmine R. Mueller, Cory R. Fraser, Erkut Borazanci, David Propper, Daniel D. Von Hoff, Christopher Liddle, Ruth T. Yu, Annette R. Atkins, Haiyong Han, Andrew M. Lowy, Michael T. Barrett, Dannielle D. Engle, Gerard I. Evan, Gene W. Yeo, Michael Downes, Ronald M. Evans
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-17 (2023)
Abstract Pancreatic ductal adenocarcinoma (PDAC) is a lethal malignancy in need of new therapeutic options. Using unbiased analyses of super-enhancers (SEs) as sentinels of core genes involved in cell-specific function, here we uncover a druggable SE
Externí odkaz:
https://doaj.org/article/57cc744cc0404cd39ed1bebee4e6eee7
Autor:
Waqar Arif, Bhoomika Mathur, Michael F. Saikali, Ullas V. Chembazhi, Katelyn Toohill, You Jin Song, Qinyu Hao, Saman Karimi, Steven M. Blue, Brian A. Yee, Eric L. Van Nostrand, Sushant Bangru, Grace Guzman, Gene W. Yeo, Kannanganattu V. Prasanth, Sayeepriyadarshini Anakk, Carolyn L. Cummins, Auinash Kalsotra
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-19 (2023)
Nonalcoholic steatohepatitis (NASH) is an advanced form of fatty liver disease with complex pathogenic mechanisms. Here, the authors report that SRSF1 deficiency in mice livers provokes deleterious R-loop formation and genotoxicity, which impedes hep
Externí odkaz:
https://doaj.org/article/ee830a8f79654480908b12970aefaf07