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Research

Rearrangements of viral and human genomes at human papillomavirus integration events and their allele-specific impacts on cancer genome regulation

  • Vanessa L. Porter
  • Michelle Ng
  • Kieran O'Neill
  • Signe MacLennan
  • Richard D. Corbett
  • Luka Culibrk Zeid Hamadeh Marissa Iden Rachel Schmidt Shirng-Wern Tsaih Carolyn Nakisige Martin Origa Jackson Orem Glenn Chang Jeremy Fan Ka Ming Nip Vahid Akbari Simon K. Chan James Hopkins Richard A. Moore Eric Chuah Karen L. Mungall Andrew J. Mungall
  • ... [+18 authors] ...,
  • Inanc Birol
  • Steven J.M. Jones
  • Janet S. Rader
  • Marco A. Marra
  • First Published December 5, 2024
Research

High-resolution structural genomics reveals new therapeutic vulnerabilities in glioblastoma

  • Michael J. Johnston
  • Ana Nikolic
  • Nicoletta Ninkovic
  • Paul Guilhamon
  • Florence M.G. Cavalli
  • Steven Seaman Franz J. Zemp John Lee Aly Abdelkareem Katrina Ellestad Alex Murison Michelle M. Kushida Fiona J. Coutinho Yussanne Ma Andrew J. Mungall Richard Moore Marco A. Marra Michael D. Taylor Peter B. Dirks Trevor J. Pugh Sorana Morrissy
  • ... [+16 authors] ...,
  • Bradley St Croix
  • Douglas J. Mahoney
  • Mathieu Lupien
  • Marco Gallo
  • First Published June 27, 2019
Research

Macaca mulatta) based on whole-genome sequences" > The population genomics of rhesus macaques (Macaca mulatta) based on whole-genome sequences

  • Cheng Xue
  • Muthuswamy Raveendran
  • R. Alan Harris
  • Gloria L. Fawcett
  • Xiaoming Liu
  • Simon White Mahmoud Dahdouli David Rio Deiros Jennifer E. Below William Salerno Laura Cox Guoping Fan Betsy Ferguson Julie Horvath Zach Johnson Sree Kanthaswamy H. Michael Kubisch Dahai Liu Michael Platt David G. Smith Binghua Sun Eric J. Vallender Feng Wang Roger W. Wiseman Rui Chen
  • ... [+20 authors] ...,
  • Donna M. Muzny
  • Richard A. Gibbs
  • Fuli Yu
  • Jeffrey Rogers
  • First Published October 17, 2016
Method

Integrative subcellular proteomic analysis allows accurate prediction of human disease-causing genes

  • Li Zhao
  • Yiyun Chen
  • Amol Onkar Bajaj
  • Aiden Eblimit
  • Mingchu Xu
  • Zachry T. Soens Feng Wang Zhongqi Ge Sung Yun Jung Feng He
  • ... [+5 authors] ...,
  • Yumei Li
  • Theodore G. Wensel
  • Jun Qin
  • Rui Chen
  • First Published February 24, 2016
Method

TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data

  • Gavin Ha
  • Andrew Roth
  • Jaswinder Khattra
  • Julie Ho
  • Damian Yap
  • Leah M. Prentice Nataliya Melnyk Andrew McPherson Ali Bashashati Emma Laks Justina Biele Jiarui Ding Alan Le Jamie Rosner Karey Shumansky Marco A. Marra C. Blake Gilks
  • ... [+12 authors] ...,
  • David G. Huntsman
  • Jessica N. McAlpine
  • Samuel Aparicio
  • Sohrab P. Shah
  • First Published July 24, 2014
Method

Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm

  • Bo Zhang
  • Yan Zhou
  • Nan Lin
  • Rebecca F. Lowdon
  • Chibo Hong
  • Raman P. Nagarajan Jeffrey B. Cheng Daofeng Li Michael Stevens Hyung Joo Lee Xiaoyun Xing Jia Zhou Vasavi Sundaram GiNell Elliott Junchen Gu Taoping Shi Philippe Gascard Mahvash Sigaroudinia Thea D. Tlsty Theresa Kadlecek Arthur Weiss Henriette O’Geen Peggy J. Farnham Cécile L. Maire Keith L. Ligon Pamela A.F. Madden Angela Tam Richard Moore Martin Hirst
  • ... [+24 authors] ...,
  • Marco A. Marra
  • Baoxue Zhang
  • Joseph F. Costello
  • Ting Wang
  • First Published June 26, 2013
Method

Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods

  • Michael Stevens
  • Jeffrey B. Cheng
  • Daofeng Li
  • Mingchao Xie
  • Chibo Hong
  • Cécile L. Maire Keith L. Ligon
  • ... [+2 authors] ...,
  • Martin Hirst
  • Marco A. Marra
  • Joseph F. Costello
  • Ting Wang
  • First Published June 26, 2013
Method

Integrative analysis of genome-wide loss of heterozygosity and monoallelic expression at nucleotide resolution reveals disrupted pathways in triple-negative breast cancer

  • Gavin Ha
  • Andrew Roth
  • Daniel Lai
  • Ali Bashashati
  • Jiarui Ding
  • Rodrigo Goya Ryan Giuliany Jamie Rosner Arusha Oloumi Karey Shumansky Suet-Feung Chin Gulisa Turashvili Martin Hirst
  • ... [+8 authors] ...,
  • Carlos Caldas
  • Marco A. Marra
  • Samuel Aparicio
  • Sohrab P. Shah
  • First Published May 25, 2012
Research

Extensive relationship between antisense transcription and alternative splicing in the human genome

  • A. Sorana Morrissy
  • Malachi Griffith
  • Marco A. Marra
  • First Published June 30, 2011
Research

Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence" > Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence

  • Eugene Berezikov
  • Nicolas Robine
  • Anastasia Samsonova
  • Jakub O. Westholm
  • Ammar Naqvi
  • Jui-Hung Hung Katsutomo Okamura Qi Dai Diane Bortolamiol-Becet Raquel Martin Yongjun Zhao Phillip D. Zamore Gregory J. Hannon
  • ... [+8 authors] ...,
  • Marco A. Marra
  • Zhiping Weng
  • Norbert Perrimon
  • Eric C. Lai
  • First Published December 22, 2010
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