Publications

Full list of publications can be found at Google Scholar

*: First Authors; #: Corresponding Authors

Selected

Identifying predictors of glioma evolution from longitudinal sequencing

Quanhua Mu*, Ruichao Chai*, Bo Pang, Yingxi Yang, Hanjie Liu, Zheng Zhao, Zhaoshi Bao, Dong Song, Zhihan Zhu, Mengli Yan, Biaobin Jiang, Zongchao Mo, Jihong Tang, Jason K. Sa, Hee Jin Cho, Yuzhou Chang, Kaitlin Hao Yi Chan, Danson Shek Chun Loi, Sindy Sing Ting Tam, Aden Ka Yin Chan, Angela Ruohao Wu, Zhaoqi Liu, Wai Sang Poon, Ho Keung Ng, Danny Tat Ming Chan, Antonio Iavarone#, Do-Hyun Nam#, Tao Jiang#, Jiguang Wang#

Science Translational Medicine · 04 Oct 2023 · doi:10.1126/scitranslmed.adh4181

We portrayed the evolution landscape of three subtypes of adult diffuse gliomas, and identified early predictors of glioma evolution, including MYC activation that promoted hypermutation after temozolomide treatment.

Website

Source

cancer evolution hypermutation

Mutational Landscape of Secondary Glioblastoma Guides MET-Targeted Trial in Brain Tumor

Huimin Hu*, Quanhua Mu*, Zhaoshi Bao*, Yiyun Chen*, Yanwei Liu*, Jing Chen, Kuanyu Wang, Zheng Wang, Yoonhee Nam, Biaobin Jiang, Jason K. Sa, Hee-Jin Cho, Nam-Gu Her, Chuanbao Zhang, Zheng Zhao, Ying Zhang, Fan Zeng, Fan Wu, Xun Kang, Yuqing Liu, Zenghui Qian, Zhiliang Wang, Ruoyu Huang, Qiangwei Wang, Wei Zhang, Xiaoguang Qiu, Wenbin Li, Do-Hyun Nam, Xiaolong Fan#, Jiguang Wang#, Tao Jiang#

Cell · 29 Nov 2018 · https://doi.org/10.1016/j.cell.2018.09.038

We discovered MET exon 14 skipping enriched in secondary glioblastomas, which activated MET signaling and brought vulnerability to MET-targeted therapy as demonstrated in pre-clinical models and a clinical trial.

cancer progression precision medicine

MGMT genomic rearrangements contribute to chemotherapy resistance in gliomas

Barbara Oldrini*, Nuria Vaquero-Siguero*, Quanhua Mu*, Paula Kroon, Ying Zhang, Marcos Galán-Ganga, Zhaoshi Bao, Zheng Wang, Hanjie Liu, Jason K. Sa, Junfei Zhao, Hoon Kim, Sandra Rodriguez-Perales, Do-Hyun Nam, Roel G. W. Verhaak, Raul Rabadan, Tao Jiang#, Jiguang Wang#, Massimo Squatrito#

Nature Communications · 04 Aug 2020 · https://doi.org/10.1038/s41467-020-17717-0

We identified multiple novel MGMT fusions in temozolomide-treated recurrent gliomas, and demonstrated that they contribute to temozolomide resistance.

cancer drug resistance gene fusions

All

2024

Genetic and microenvironmental evolution of colorectal liver metastases under chemotherapy

Min Shi, Yingxi Yang, Na Huang, Dongqiang Zeng, Zongchao Mo, Jiao Wang, Xiaomeng Zhang, Ran Liu, Chunlin Wang, Xiaoxiang Rong, Zhenzhen Wu, Qiong Huang, Haixia Shang, Jihong Tang, Zhaojun Wang, Jianan Cai, Genjie Huang, Yijin Guan, Jian Guo, Quanhua Mu, Jiguang Wang#, Wangjun Liao#

Cell Reports Medicine · 04 Dec 2024 · doi:10.1016/j.xcrm.2024.101838

Source

cancer evolution

2023

Adaptive DNA amplification of synthetic gene circuit opens a way to overcome cancer chemoresistance

Yiming Wan*, Quanhua Mu*, Rafał Krzysztoń*, Joseph Cohen, Damiano Coraci, Christopher Helenek, Christopher Tompkins, Annie Lin, Kevin Farquhar, Erin Cross, Jiguang Wang, Gábor Balázsi#

Proceedings of the National Academy of Sciences · 05 Dec 2023 · https://doi.org/10.1073/pnas.2303114120

We found DNA amplification as a driver of drug resistance, and proposed targeting the amplified DNA via triplex forming oligonucleotides (TFOs).

cancer drug resistance

Identifying predictors of glioma evolution from longitudinal sequencing

Science Translational Medicine · 04 Oct 2023 · doi:10.1126/scitranslmed.adh4181

Website

Source

cancer evolution hypermutation

Genomic profiling and prognostic factors of H3 K27M-mutant spinal cord diffuse glioma

Ruichao Chai, Hao Yan, Songyuan An, Bo Pang, Huiyuan Chen, Quanhua Mu, Kenan Zhang, Yaowu Zhang, Yuqing Liu, Xing Liu, Zheng Zhao, Tao Jiang, Yongzhi Wang, Wenqing Jia

Brain Pathology · 01 Jul 2023 · https://doi.org/10.1111/bpa.13153

Pharmacogenomic profiling reveals molecular features of chemotherapy resistance in IDH wild-type primary glioblastoma

Yoonhee Nam, Harim Koo, Yingxi Yang, Sang Shin, Zhihan Zhu, Donggeon Kim, Hee Jin Cho, Quanhua Mu, Seung Won Choi, Jason K. Sa, Yun Jee Seo, Yejin Kim, Kyoungmin Lee, Jeong-Woo Oh, Yong-Jun Kwon, Woong-Yang Park, Doo-Sik Kong, Ho Jun Seol, Jung-Il Lee, Chul-Kee Park, Hye Won Lee, Yeup Yoon, Jiguang Wang

Genome Medicine · 13 Mar 2023 · https://doi.org/10.1186/s13073-023-01165-8

scONE-seq: A single-cell multi-omics method enables simultaneous dissection of phenotype and genotype heterogeneity from frozen tumors

Lei Yu, Xinlei Wang, Quanhua Mu, Sindy Sing Ting Tam, Danson Shek Chun Loi, Aden K. Y. Chan, Wai Sang Poon, Ho-Keung Ng, Danny T. M. Chan, Jiguang Wang, Angela Ruohao Wu

Science Advances · 06 Jan 2023 · https://doi.org/10.1126/sciadv.abp8901

2022

MET fusions and splicing variants convergently define a subgroup of glioma sensitive to MET inhibitors

Ke-Nan Zhang, Zheng Zhao, Jing Chen, Zhaoshi Bao, Rui-Chao Chai, Zhiyan Sun, Lingxiang Wu, Zhiliang Wang, Hanjie Liu, Quanhua Mu, Huimin Hu, Fan Zeng, Zheng Wang, Guanzhang Li, Yuanhao Chang, Qiangwei Wang, Fan Wu, Ying Zhang, Yuqing Liu, Chunjie Jiang, Ulf Dietrich Kahlert, Do-Hyun Nam, Wei Zhang, Chunsheng Kang, Jiguang Wang, Rongjie Tao, Qianghu Wang, Tao Jiang

Holistic Integrative Oncology · 20 Nov 2022 · https://doi.org/10.1007/s44178-022-00014-9

2021

Machine learning of genomic features in organotropic metastases stratifies progression risk of primary tumors

Biaobin Jiang, Quanhua Mu, Fufang Qiu, Xuefeng Li, Weiqi Xu, Jun Yu, Weilun Fu, Yong Cao, Jiguang Wang

Nature Communications · 18 Nov 2021 · https://doi.org/10.1038/s41467-021-27017-w

Website

CNAPE: A Machine Learning Method for Copy Number Alteration Prediction from Gene Expression

Quanhua Mu, Jiguang Wang

IEEE/ACM Transactions on Computational Biology and Bioinformatics · 01 Jan 2021 · doi:10.1109/TCBB.2019.2944827

We developed a computational method to infer copy number alterations from transcriptomic data of human cancers.

Source

2020

CELLO: a longitudinal data analysis toolbox untangling cancer evolution

Biaobin Jiang, Dong Song, Quanhua Mu, Jiguang Wang

Quantitative Biology · 01 Sep 2020 · https://doi.org/10.1007/s40484-020-0218-1

Source

MGMT genomic rearrangements contribute to chemotherapy resistance in gliomas

Nature Communications · 04 Aug 2020 · https://doi.org/10.1038/s41467-020-17717-0

We identified multiple novel MGMT fusions in temozolomide-treated recurrent gliomas, and demonstrated that they contribute to temozolomide resistance.

cancer drug resistance gene fusions

Ionic Liquid Enriches the Antibiotic Resistome, Especially Efflux Pump Genes, Before Significantly Affecting Microbial Community Structure

Xiaolong Wang*, Zeyou Chen*, Quanhua Mu*, Xinyan Wu, Jingjing Zhang, Daqing Mao, Yi Luo, Pedro J. J. Alvarez

Environmental Science & Technology · 07 Apr 2020 · https://doi.org/10.1021/acs.est.9b04116

We found that when the water microbiome was exposed to an ionic liquid, [BMIm][PF6], the resistome was enriched within 24 hours, long before the community strucutre was altered.

2019

Deciphering Brain Complexity Using Single-cell Sequencing

Quanhua Mu*, Yiyun Chen*, Jiguang Wang

Genomics, Proteomics & Bioinformatics · 01 Aug 2019 · https://doi.org/10.1016/j.gpb.2018.07.007

We summarized the technologies and computational methods to analyze single cell sequencing data, as well as their application in studying brain diseases.

2018

Mutational Landscape of Secondary Glioblastoma Guides MET-Targeted Trial in Brain Tumor

Cell · 29 Nov 2018 · https://doi.org/10.1016/j.cell.2018.09.038

cancer progression precision medicine

2017

RNA Exosome Complex-Mediated Control of Redox Status in Pluripotent Stem Cells

Maria Skamagki, Cheng Zhang, Christian A. Ross, Aparna Ananthanarayanan, Zhong Liu, Quanhua Mu, Uttiya Basu, Jiguang Wang, Rui Zhao, Hu Li, Kitai Kim

Stem Cell Reports · 10 Oct 2017 · http://dx.doi.org/10.1016/j.stemcr.2017.08.024

2015

Prevalence and proliferation of antibiotic resistance genes in two municipal wastewater treatment plants

Daqing Mao, Shuai Yu, Michal Rysz, Yi Luo, Fengxia Yang, Fengxiang Li, Jie Hou, Quanhua Mu, P.J.J. Alvarez

Water Research · 15 Nov 2015 · https://doi.org/10.1016/j.watres.2015.09.010

Fate and proliferation of typical antibiotic resistance genes in five full-scale pharmaceutical wastewater treatment plants

Jilu Wang, Daqing Mao, Quanhua Mu, Yi Luo

Science of the Total Environment · 01 Sep 2015 · https://doi.org/10.1016/j.scitotenv.2015.05.046

Enhanced Horizontal Transfer of Antibiotic Resistance Genes in Freshwater Microcosms Induced by an Ionic Liquid

Qing Wang, Daqing Mao, Quanhua Mu, Yi Luo

PLOS ONE · 07 May 2015 · https://doi.org/10.1371/journal.pone.0126784

Occurrence of sulfonamide-, tetracycline-, plasmid-mediated quinolone- and macrolide-resistance genes in livestock feedlots in Northern China

Quanhua Mu, Jin Li, Yingxue Sun, Daqing Mao, Qing Wang, Yi Luo

Environmental Science and Pollution Research · 01 May 2015 · https://doi.org/10.1007/s11356-014-3905-5

Occurrence and distribution of sulfonamides, tetracyclines, quinolones, macrolides, and nitrofurans in livestock manure and amended soils of Northern China

Jie Hou, Weining Wan, Daqing Mao, Chong Wang, Quanhua Mu, Songyan Qin, Yi Luo

Environmental Science and Pollution Research · 01 Mar 2015 · https://doi.org/10.1007/s11356-014-3632-y

2014

An Ionic Liquid Facilitates the Proliferation of Antibiotic Resistance Genes Mediated by Class I Integrons

Yi Luo, Qing Wang, Qian Lu, Quanhua Mu, Daqing Mao

Environmental Science & Technology Letters · 13 May 2014 · https://doi.org/10.1021/ez500103v

Persistence of Extracellular DNA in River Sediment Facilitates Antibiotic Resistance Gene Propagation

Daqing Mao, Yi Luo, Jacques Mathieu, Qing Wang, Ling Feng, Quanhua Mu, Chunyan Feng, P. J. J. Alvarez

Environmental Science & Technology · 07 Jan 2014 · https://doi.org/10.1021/es404280v