Publications

Haley E Randolph, Raul Aguirre-Gamboa, Elsa Brunet-Ratnasingham, Takahiro Nakanishi, Zepeng Mu, Vitor Locher, Emma Ketter, Caitlin Brandolino, Catherine Larochelle, Alexandre Prat, Nathalie Arbour, Anne Dumaine, Andres Finzi, Madeleine Durand, J. Brent Richards, Daniel E Kaufmann, Luis B Barreiro
Corresponding
(2026). Widespread gene-environment interactions shape the immune response to SARS-CoV-2 infection in hospitalized COVID-19 patients. Nature Communications.
URL DOI
Zepeng Mu
First
, Haley E Randolph, Raúl Aguirre-Gamboa, Ellen Ketter, Anne Dumaine, Veronica Locher, Cary Brandolino, Xuanyao Liu, Daniel E Kaufmann, Luis B Barreiro
Corresponding
, Yang I Li
Corresponding
(2025). Impact of disease-associated chromatin accessibility QTLs across immune cell types and contexts. Cell Genomics.
Zenodo SRA DOI
Yuriy Baglaenko
Corresponding, equal contribution
, Zepeng Mu
Equal contribution
, Michelle Curtis, Hafsa M Mire, Vidyashree Jayanthi, Majd Al Suqri, Cassidy Liu, Ryan Agnew, Aparna Nathan, Annelise Yoo Mah-Som, David R Liu, Gregory a Newby, Soumya Raychaudhuri
Corresponding
(2025). Precisely defining disease variant effects in CRISPR-edited single cells. Nature.
DOI
Guimin Gao
Equal contribution
, Julian McClellan
Equal contribution
, Alvaro N Barbeira
Equal contribution
, Peter N Fiorica, James L Li, Zepeng Mu, Olufunmilayo I Olopade, Dezheng Huo
Corresponding
, Hae Kyung Im
Corresponding
(2024). A multi-tissue, splicing-based joint transcriptome-wide association study identifies susceptibility genes for breast cancer. The American Journal of Human Genetics.
Haley E Randolph
First
, Katherine a Aracena, Yen-Lung Lin, Zepeng Mu, Luis B Barreiro
Corresponding
(2024). Shaping immunity: The influence of natural selection on population immune diversity. Immunological Reviews.
URL DOI
Katherine a Aracena
First
, Yen-Lung Lin, Kaixuan Luo, Alain Pacis, Saideep Gona, Zepeng Mu, Vania Yotova, Renata Sindeaux, Albena Pramatarova, Marie-Michelle Simon, Xun Chen, Cristian Groza, David Lougheed, Romain Gregoire, David Brownlee, Carly Boye, Roger Pique-Regi, Yang Li, Xin He, David Bujold, Tomi Pastinen, Guillaume Bourque
Corresponding
, Luis B Barreiro
Corresponding
(2024). Epigenetic variation impacts individual differences in the transcriptional response to influenza infection. Nature Genetics.
DOI
Yu Zhao, Ran Zhou, Zepeng Mu, Peter Carbonetto, Xiaoyuan Zhong, Bingqing Xie, Kaixuan Luo, Candace M Cham, Jason Koval, Xin He, Andrew W Dahl, Xuanyao Liu, Eugene B Chang, Anindita Basu, Sebastian Pott (2024). Cell-type-resolved chromatin accessibility in the human intestine identifies complex regulatory programs and clarifies genetic associations in Crohn's disease. medRxiv.
Zepeng Mu
Equal contribution
, Wei Wei
Equal contribution
, Benjamin Jung Fair, Jinlin Miao, Ping Zhu
Corresponding
, Yang I Li
Corresponding
(2021). The impact of cell-type and context-dependent regulatory variants on human immune traits. Genome Biology.
EGA Archive Full Summ Stats PDF Zenodo DOI
Mengjie Chen
Corresponding, First
, Qi Zhan, Zepeng Mu, Lili Wang, Zhaohui Zheng, Jinlin Miao, Ping Zhu
Corresponding
, Yang I Li
Corresponding
(2021). Alignment of single-cell RNA-seq samples without over-correction using kernel density matching. Genome Research.
DOI
Peter Ebert, Peter a Audano, Qihui Zhu, Bernardo Rodriguez-Martin, David Porubsky, Marc Jan Bonder, Arvis Sulovari, Jana Ebler, Weichen Zhou, Rebecca Serra Mari, Others (2021). Haplotype-resolved diverse human genomes and integrated analysis of structural variation. Science.
DOI