Xu Lab at the McGovern Medical School Functional Cancer Genomics

Publications

2024

Heterogeneity in chromatin structure drives core regulatory pathways in B-cell Acute Lymphoblastic Leukemia
Heterogeneity in chromatin structure drives core regulatory pathways in B-cell Acute Lymphoblastic Leukemia
Arko Sen, Zhichao Xu, Selene Tyndale, Jean Yasis, Chae Yun Cho, …, Lillian Kay Petersen, Max Shokhirev, Dennis J Kuo, Graham P McVicker, Jesse R Dixon
BioRxiv  ·  05 Oct 2024  ·  doi:10.1101/2024.10.04.616668
A STAG2-PAXIP1/PAGR1 axis suppresses lung tumorigenesis
A STAG2-PAXIP1/PAGR1 axis suppresses lung tumorigenesis
Emily L Ashkin, Yuning J Tang, Haiqing Xu, King L Hung, Julia Belk, …, Howard Y Chang, Dmitri A Petrov, Jesse R Dixon, Zhichao Xu, Monte M Winslow
BioRxiv  ·  19 Sep 2024  ·  doi:10.1101/2024.09.14.613043

2022

Structural variants drive context-dependent oncogene activation in cancer
Structural variants drive context-dependent oncogene activation in cancer
Zhichao Xu, Dong-Sung Lee, Sahaana Chandran, Victoria T. Le, Rosalind Bump, …, Selene Tyndale, P. Andrew Futreal, Graham McVicker, Geoffrey M. Wahl, Jesse R. Dixon
Nature  ·  07 Dec 2022  ·  doi:10.1038/s41586-022-05504-4

2020

Dynamic regulation of histone modifications and long-range chromosomal interactions during postmitotic transcriptional reactivation
Dynamic regulation of histone modifications and long-range chromosomal interactions during postmitotic transcriptional reactivation
Hyeseon Kang, Maxim N. Shokhirev, Zhichao Xu, Sahaana Chandran, Jesse R. Dixon, Martin W. Hetzer
Genes & Development  ·  04 Jun 2020  ·  doi:10.1101/gad.335794.119

2019

Genome reconstruction and haplotype phasing using chromosome conformation capture methodologies
Genome reconstruction and haplotype phasing using chromosome conformation capture methodologies
Zhichao Xu, Jesse R Dixon
Briefings in Functional Genomics  ·  26 Dec 2019  ·  doi:10.1093/bfgp/elz026

2018

Genomic basis of recombination suppression in the hybrid between Caenorhabditis briggsae and C. nigoni
Genomic basis of recombination suppression in the hybrid between Caenorhabditis briggsae and C. nigoni
Xiaoliang Ren, Runsheng Li, Xiaolin Wei, Yu Bi, Vincy Wing Sze Ho, …, Chia-Ling Hsieh, Amanda Young, Jianyang Zeng, Xiao Liu, Zhongying Zhao
Nucleic Acids Research  ·  09 Jan 2018  ·  doi:10.1093/nar/gkx1277

2017

Technologies of High-Throughput Tissue-Specific Gene Expression Profiling
Technologies of High-Throughput Tissue-Specific Gene Expression Profiling
RNA & DISEASE  ·  06 Feb 2017  ·  doi:10.14800/rd.1492

2016

pBACode: a random-barcode-based high-throughput approach for BAC paired-end sequencing and physical clone mapping
pBACode: a random-barcode-based high-throughput approach for BAC paired-end sequencing and physical clone mapping
Xiaolin Wei, Zhichao Xu, Guixing Wang, Jilun Hou, Xiaopeng Ma, …, Meizhong Luo, Bingyan Xie, Ruiqiang Li, Jue Ruan, Xiao Liu
Nucleic Acids Research  ·  15 Dec 2016  ·  doi:10.1093/nar/gkw1261