Pumping the brakes on RNA velocity by understanding and interpreting RNA velocity estimates

by Shijie C. Zheng, Genevieve Stein-O’Brien, Leandros Boukas, Loyal A. Goff, Kasper D. Hansen
Published 2023-10-01

A cell-type deconvolution meta-analysis of whole blood EWAS reveals lineage-specific smoking-associated DNA methylation changes

by Chenglong You, Sijie Wu, Shijie C. Zheng, Tianyu Zhu, Han Jing, Ken Flagg, Guangyu Wang, Li Jin, Sijia Wang, Andrew E. Teschendorff
Published 2020-09-01

Universal prediction of cell-cycle position using transfer learning

by Shijie C. Zheng, Genevieve Stein-O’Brien, Jonathan J. Augustin, Jared Slosberg, Giovanni A. Carosso, Briana Winer, Gloria Shin, Hans T. Bjornsson, Loyal A. Goff, Kasper D. Hansen
Published 2022-01-01

recount3: summaries and queries for large-scale RNA-seq expression and splicing

by Christopher Wilks, Shijie C. Zheng, Feng Yong Chen, Rone Charles, Brad Solomon, Jonathan P. Ling, Eddie Luidy Imada, David Zhang, Lance Joseph, Jeffrey T. Leek, Andrew E. Jaffe, Abhinav Nellore, Leonardo Collado-Torres, Kasper D. Hansen, Ben Langmead
Published 2021-11-01

A meta-analysis of immune-cell fractions at high resolution reveals novel associations with common phenotypes and health outcomes

by Qi Luo, Varun B. Dwaraka, Qingwen Chen, Huige Tong, Tianyu Zhu, Kirsten Seale, Joseph M. Raffaele, Shijie C. Zheng, Tavis L. Mendez, Yulu Chen, Natalia Carreras, Sofina Begum, Kevin Mendez, Sarah Voisin, Nir Eynon, Jessica A. Lasky-Su, Ryan Smith, Andrew E. Teschendorff
Published 2023-07-01