Zobrazeno 1 - 10
of 84
pro vyhledávání: '"Angela N. Brooks"'
Autor:
Alison D. Tang, Colette Felton, Eva Hrabeta-Robinson, Roger Volden, Christopher Vollmers, Angela N. Brooks
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-21 (2024)
Abstract Background RNA-seq has brought forth significant discoveries regarding aberrations in RNA processing, implicating these RNA variants in a variety of diseases. Aberrant splicing and single nucleotide variants (SNVs) in RNA have been demonstra
Externí odkaz:
https://doaj.org/article/e84f9fb100e24b9fa9603bd9e3275e12
Publikováno v:
STAR Protocols, Vol 3, Iss 3, Pp 101651- (2022)
Summary: We describe a bioinformatics protocol for eVIP2 (expression-based variant impact phenotyping). eVIP2 can predict a gene variant’s functional impact by comparing gene expression signatures induced by introduction of wild-type versus mutant
Externí odkaz:
https://doaj.org/article/11c3caca128e4744b4c09ef5d4202c6c
Autor:
Hector H. Huang, Ian D. Ferguson, Alexis M. Thornton, Prabhakar Bastola, Christine Lam, Yu-Hsiu T. Lin, Priya Choudhry, Margarette C. Mariano, Makeba D. Marcoulis, Chin Fen Teo, Julia Malato, Paul J. Phojanakong, Thomas G. Martin, Jeffrey L. Wolf, Sandy W. Wong, Nina Shah, Byron Hann, Angela N. Brooks, Arun P. Wiita
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-14 (2020)
The mechanisms of action of proteasome inhibitors (PI) in multiple myeloma (MM) treatment are not fully elucidated. Here, the authors use unbiased phosphoproteomics in PI-treated MM and show increased phosphorylation of splicing-associated proteins,
Externí odkaz:
https://doaj.org/article/9ede6677994c4ad081bb8e902cda0b7a
Autor:
Alison D. Tang, Cameron M. Soulette, Marijke J. van Baren, Kevyn Hart, Eva Hrabeta-Robinson, Catherine J. Wu, Angela N. Brooks
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-12 (2020)
Long-read sequencing is useful in determining exon-connectivity of full-length mRNA isoforms. Here, by long-read nanopore sequencing, the authors report that intron retention is downregulated in SF3B1 mutant chronic lymphocytic leukemia cells than no
Externí odkaz:
https://doaj.org/article/6a806ecaedad4c65b48bc9c6561be042
Autor:
Elektra K Robinson, Pratibha Jagannatha, Sergio Covarrubias, Matthew Cattle, Valeriya Smaliy, Rojin Safavi, Barbara Shapleigh, Robin Abu-Shumays, Miten Jain, Suzanne M Cloonan, Mark Akeson, Angela N Brooks, Susan Carpenter
Publikováno v:
eLife, Vol 10 (2021)
Determining the layers of gene regulation within the innate immune response is critical to our understanding of the cellular responses to infection and dysregulation in disease. We identified a conserved mechanism of gene regulation in human and mous
Externí odkaz:
https://doaj.org/article/7623ad82df924ce0aad8a2be411d8d62
Autor:
Ji Li, Peter S Choi, Christine L Chaffer, Katherine Labella, Justin H Hwang, Andrew O Giacomelli, Jong Wook Kim, Nina Ilic, John G Doench, Seav Huong Ly, Chao Dai, Kimberly Hagel, Andrew L Hong, Ole Gjoerup, Shom Goel, Jennifer Y Ge, David E Root, Jean J Zhao, Angela N Brooks, Robert A Weinberg, William C Hahn
Publikováno v:
eLife, Vol 7 (2018)
Alternative splicing of mRNA precursors represents a key gene expression regulatory step and permits the generation of distinct protein products with diverse functions. In a genome-scale expression screen for inducers of the epithelial-to-mesenchymal
Externí odkaz:
https://doaj.org/article/065b7c78b0bc49f4914d3e34a00422d9
Gene fusions are important cancer drivers and drug targets, but are difficult to reliably identify with short-read RNA-sequencing. Long-read RNA sequencing data are more likely to span a fusion breakpoint and provide more sequence context around the
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::152a718ca4a64eb2b8e5bd0ae5e20013
https://doi.org/10.1101/2022.08.01.502364
https://doi.org/10.1101/2022.08.01.502364
Detecting somatic mutations is a cornerstone of cancer genomics and clinical genotyping; however, there has been little systematic evaluation of the utility of RNA sequencing (RNA-seq) for somatic variant detection and driver mutation analysis. Varia
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::4a54a72ce7d00159ec89bb8c48f0c6e3
https://doi.org/10.1101/2022.05.10.491431
https://doi.org/10.1101/2022.05.10.491431
Autor:
Federica Piccioni, Cathy L Hartland, Angela N. Brooks, Juan C. Caicedo, Xiaoyun Wu, Anne E. Carpenter, Shantanu Singh, John Arevalo, Mark-Anthony Bray, Alice H. Berger, Jesse S. Boehm
Publikováno v:
Molecular biology of the cell. 33(6)
Most variants in most genes across most organisms have an unknown impact on the function of the corresponding gene. This gap in knowledge is especially acute in cancer, where clinical sequencing of tumors now routinely reveals patient-specific varian
Autor:
Tingsheng Yu, Oscar Cazares, Alison D. Tang, Hyun-Yi Kim, Tomas Wald, Adya Verma, Qi Liu, Mary Helen Barcellos-Hoff, Stephen N. Floor, Han-Sung Jung, Angela N. Brooks, Ophir D. Klein
Publikováno v:
Dev Cell
Developmental cell, vol 57, iss 5
Developmental cell, vol 57, iss 5
Alternative splicing generates distinct mRNA variants and is essential for development, homeostasis, and renewal. Proteins of the serine/arginine (SR)-rich splicing factor family are major splicing regulators that are broadly required for organ devel
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e61dfd0ee5a8512eebbc35495240102c
https://europepmc.org/articles/PMC8974236/
https://europepmc.org/articles/PMC8974236/