A
Angela N. Brooks
Researcher at University of California, Santa Cruz
Publications - 73
Citations - 34860
Angela N. Brooks is an academic researcher from University of California, Santa Cruz. The author has contributed to research in topics: Gene & RNA splicing. The author has an hindex of 35, co-authored 59 publications receiving 26110 citations. Previous affiliations of Angela N. Brooks include University of California, Berkeley & Broad Institute.
Papers
More filters
Posted ContentDOI
The UCSC Xena platform for public and private cancer genomics data visualization and interpretation
Mary Goldman,Brian Craft,Mim Hastie,Kristupas Repečka,Fran McDade,Akhil Kamath,Ayan Banerjee,Yunhai Luo,Dave Rogers,Angela N. Brooks,Jingchun Zhu,David Haussler +11 more
TL;DR: UCSC Xena as mentioned in this paper is a web-based visualization tool for both public and private omics data, supported through Xena Browser and multiple turn-key Xena Hubs, allowing researchers to view their own data securely, using private Xena hubs, simultaneously visualizing large public cancer genomics datasets, including TCGA and the GDC.
Journal ArticleDOI
Nanopore native RNA sequencing of a human poly(A) transcriptome.
Rachael E. Workman,Alison D. Tang,Paul S. Tang,Miten Jain,John R. Tyson,Roham Razaghi,Philip C. Zuzarte,Timothy Gilpatrick,Alexander Payne,Joshua Quick,Norah Sadowski,Nadine Holmes,Jaqueline Goes de Jesus,Karen Jones,Cameron M. Soulette,Terrance P. Snutch,Nicholas J. Loman,Benedict Paten,Matthew Loose,Jared T. Simpson,Jared T. Simpson,Hugh E. Olsen,Angela N. Brooks,Mark Akeson,Winston Timp +24 more
TL;DR: This study generated 9.9 million aligned sequence reads for the human cell line GM12878, using thirty MinION flow cells at six institutions to identify 33,984 plausible RNA isoforms and describes strategies for assessing 3′ poly(A) tail length, base modifications and transcript haplotypes.
Posted ContentDOI
The UCSC Xena Platform for cancer genomics data visualization and interpretation
TL;DR: UCSC Xena is a web-based visual integration and exploration tool for multi-omic data and associated clinical and phenotypic annotations and showcases seminal cancer genomics datasets from TCGA, Pan-Cancer Atlas, PCAWG, ICGC, GTEx, and the GDC.
Journal ArticleDOI
Genomic basis for RNA alterations in cancer
Claudia Calabrese,Natalie R. Davidson,Deniz Demircioğlu,Deniz Demircioğlu,Nuno A. Fonseca,Yao He,André Kahles,Kjong-Van Lehmann,Fenglin Liu,Yuichi Shiraishi,Cameron M. Soulette,Lara Urban,Liliana Greger,Siliang Li,Dongbing Liu,Marc D. Perry,Marc D. Perry,Qian Xiang,Fan Zhang,Junjun Zhang,Peter Bailey,Serap Erkek,Katherine A. Hoadley,Yong Hou,Matthew R. Huska,Helena Kilpinen,Jan O. Korbel,Maximillian G. Marin,Julia Markowski,Tannistha Nandi,Qiang Pan-Hammarström,Chandra Sekhar Pedamallu,Chandra Sekhar Pedamallu,Reiner Siebert,Stefan G. Stark,Hong Su,Patrick Tan,Patrick Tan,Sebastian M. Waszak,Christina K. Yung,Shida Zhu,Philip Awadalla,Philip Awadalla,Chad J. Creighton,Matthew Meyerson,Matthew Meyerson,B. F. Francis Ouellette,Kui Wu,Huanming Yang,Alvis Brazma,Angela N. Brooks,Angela N. Brooks,Angela N. Brooks,Jonathan Göke,Gunnar Rätsch,Roland F. Schwarz,Oliver Stegle,Oliver Stegle,Zemin Zhang +58 more
TL;DR: The most comprehensive catalogue of cancer-associated gene alterations to date, obtained by characterizing tumour transcriptomes from 1,188 donors of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Gome Atlas (TCGA) was presented in this article.
Journal ArticleDOI
Conservation of an RNA Regulatory Map Between Drosophila and Mammals
Angela N. Brooks,Li Yang,Michael O. Duff,Kasper D. Hansen,Jung Woo Park,Sandrine Dudoit,Steven E. Brenner,Brenton R. Graveley +7 more
TL;DR: The RNA regulatory map of Pasilla (PS) and NOVA1/2 is highly conserved between insects and mammals despite the fact that the target gene orthologs regulated by PS and NoVA1 /2 are almost entirely nonoverlapping.