Global Analysis of RNA-Dependent RNA Polymerase-Dependent Small RNAs Reveals New Substrates and Functions for These Proteins and SGS3 in Arabidopsis

by Xia Hua, Nathan D. Berkowitz, Matthew R. Willmann, Xiang Yu, Eric Lyons, Brian D. Gregory
Published 2021-04-01

Analysis of the host transcriptome from demyelinating spinal cord of murine coronavirus-infected mice.

by Ruth Elliott, Fan Li, Isabelle Dragomir, Ming Ming W Chua, Brian D Gregory, Susan R Weiss
Published 2013-01-01

HiPR: High-throughput probabilistic RNA structure inference

by Pavel P. Kuksa, Fan Li, Sampath Kannan, Brian D. Gregory, Yuk Yee Leung, Li-San Wang
Published 2020-01-01

Dicer-2 processes diverse viral RNA species.

by Leah R Sabin, Qi Zheng, Pramod Thekkat, Jamie Yang, Gregory J Hannon, Brian D Gregory, Matthew Tudor, Sara Cherry
Published 2013-01-01

Genome-wide double-stranded RNA sequencing reveals the functional significance of base-paired RNAs in Arabidopsis.

by Qi Zheng, Paul Ryvkin, Fan Li, Isabelle Dragomir, Otto Valladares, Jamie Yang, Kajia Cao, Li-San Wang, Brian D Gregory
Published 2010-09-01

Nuclear m6A reader YTHDC1 regulates alternative polyadenylation and splicing during mouse oocyte development.

by Seth D Kasowitz, Jun Ma, Stephen J Anderson, N Adrian Leu, Yang Xu, Brian D Gregory, Richard M Schultz, P Jeremy Wang
Published 2018-05-01

Essential Role for endogenous siRNAs during meiosis in mouse oocytes.

by Paula Stein, Nikolay V Rozhkov, Fan Li, Fabián L Cárdenas, Olga Davydenko, Lee E Vandivier, Brian D Gregory, Gregory J Hannon, Richard M Schultz
Published 2015-02-01

Paternal poly (ADP-ribose) metabolism modulates retention of inheritable sperm histones and early embryonic gene expression.

by Motomasa Ihara, Mirella L Meyer-Ficca, N Adrian Leu, Shilpa Rao, Fan Li, Brian D Gregory, Irina A Zalenskaya, Richard M Schultz, Ralph G Meyer
Published 2014-05-01

Two plant viral suppressors of silencing require the ethylene-inducible host transcription factor RAV2 to block RNA silencing.

by Matthew W Endres, Brian D Gregory, Zhihuan Gao, Amy Wahba Foreman, Sizolwenkosi Mlotshwa, Xin Ge, Gail J Pruss, Joseph R Ecker, Lewis H Bowman, Vicki Vance
Published 2010-01-01

N6‐methyladenosine and RNA secondary structure affect transcript stability and protein abundance during systemic salt stress in Arabidopsis

by Marianne C. Kramer, Kevin A. Janssen, Kyle Palos, Andrew D. L. Nelson, Lee E. Vandivier, Benjamin A. Garcia, Eric Lyons, Mark A. Beilstein, Brian D. Gregory
Published 2020-07-01

Impact of poly(A)-tail G-content on Arabidopsis PAB binding and their role in enhancing translational efficiency

by Taolan Zhao, Qing Huan, Jing Sun, Chunyan Liu, Xiuli Hou, Xiang Yu, Ian M. Silverman, Yi Zhang, Brian D. Gregory, Chun-Ming Liu, Wenfeng Qian, Xiaofeng Cao
Published 2019-09-01

PNPase knockout results in mtDNA loss and an altered metabolic gene expression program.

by Eriko Shimada, Fasih M Ahsan, Mahta Nili, Dian Huang, Sean Atamdede, Tara TeSlaa, Dana Case, Xiang Yu, Brian D Gregory, Benjamin J Perrin, Carla M Koehler, Michael A Teitell
Published 2018-01-01

Read Mapping and Transcript Assembly: A Scalable and High-Throughput Workflow for the Processing and Analysis of Ribonucleic Acid Sequencing Data

by Sateesh Peri, Sarah Roberts, Isabella R. Kreko, Lauren B. McHan, Alexandra Naron, Archana Ram, Rebecca L. Murphy, Eric Lyons, Eric Lyons, Brian D. Gregory, Upendra K. Devisetty, Andrew D. L. Nelson
Published 2020-01-01

Global Analysis of RNA Secondary Structure in Two Metazoans

by Fan Li, Qi Zheng, Paul Ryvkin, Isabelle Dragomir, Yaanik Desai, Subhadra Aiyer, Otto Valladares, Jamie Yang, Shelly Bambina, Leah R. Sabin, John I. Murray, Todd Lamitina, Arjun Raj, Sara Cherry, Li-San Wang, Brian D. Gregory
Published 2012-01-01

Transcriptomic Changes Due to Cytoplasmic TDP-43 Expression Reveal Dysregulation of Histone Transcripts and Nuclear Chromatin.

by Alexandre Amlie-Wolf, Paul Ryvkin, Rui Tong, Isabelle Dragomir, EunRan Suh, Yan Xu, Vivianna M Van Deerlin, Brian D Gregory, Linda K Kwong, John Q Trojanowski, Virginia M-Y Lee, Li-San Wang, Edward B Lee
Published 2015-01-01

Changes in the Transcriptome of Human Astrocytes Accompanying Oxidative Stress-induced Senescence

by Elizabeth P. Crowe, Ferit Tuzer, Brian D. Gregory, Greg Donahue, Sager J. Gosai, Justin Cohen, Yuk Yee Leung, Emre Yetkin, Raffaella Nativio, Li-San Wang, Christian Sell, Nancy M. Bonini, Shelley L. Berger, F Brad Johnson, Claudio Torres
Published 2016-08-01

The Msi Family of RNA-Binding Proteins Function Redundantly as Intestinal Oncoproteins

by Ning Li, Maryam Yousefi, Angela Nakauka-Ddamba, Fan Li, Lee Vandivier, Kimberly Parada, Dong-Hun Woo, Shan Wang, Ammar S. Naqvi, Shilpa Rao, John Tobias, Ryan J. Cedeno, Gerard Minuesa, Katz Y, Trevor S. Barlowe, Alexander Valvezan, Sheila Shankar, Raquel P. Deering, Peter S. Klein, Shane T. Jensen, Michael G. Kharas, Brian D. Gregory, Zhengquan Yu, Christopher J. Lengner
Published 2015-12-01

Local admixture of amplified and diversified secreted pathogenesis determinants shapes mosaic Toxoplasma gondii genomes

by Hernan Lorenzi, Asis Khan, Michael S. Behnke, Sivaranjani Namasivayam, Lakshmipuram S. Swapna, Michalis Hadjithomas, Svetlana Karamycheva, Deborah Pinney, Brian P. Brunk, James W. Ajioka, Daniel Ajzenberg, John C. Boothroyd, Jon P. Boyle, Marie L. Dardé, Maria A. Diaz-Miranda, Jitender P. Dubey, Heather M. Fritz, Solange M. Gennari, Brian D. Gregory, Kami Kim, Jeroen P. J. Saeij, Chunlei Su, Michael W. White, Xing-Quan Zhu, Daniel K. Howe, Benjamin M. Rosenthal, Michael E. Grigg, John Parkinson, Liang Liu, Jessica C. Kissinger, David S. Roos, L. David Sibley
Published 2016-01-01