Homepage of Dr. Lihua Zhang @ Wuhan University

Published papers (# Equal-contribution; * Co-corresponding authors)

DIRECT-NET: a machine learning method to discover cis-regulatory elements and construct regulatory networks from single cell multiomics data

L Zhang, J Zhang^*, Q Nie^*.

Science Advances, 8(22):eabl7393, 2022

Multimodal Analyses of Stable Vitiligo Skin Identify Tissue Interactions That Control Disease Persistence

J Shiu^#, L Zhang^#, G Lentsch^#, J Flesher, S Jin, C Polleys, S Jo, C Mizzoni, P Mobasher, J Kwan, F Ruis-Diaz, B Tromberg, I Georgakoudi, Q Nie, M Balu, A Ganesan^*.

JCI Insight (IF: 9.48), 7(13):e154585, 2022.

scMC learns biological variation through the alignment of multiple single cell genomics datasets

L Zhang, Q Nie^*.

Genome Biology (IF: 17.9), 22(1):10, 2021.

Inference and analysis of cell-cell communication using CellChat

S Jin, C Guerrero-Juarez, L Zhang, I Chang, R Ramos, CH Kuan, P Myung, M Plikus^*, Q Nie ^*.

Nature Communications (ESI 高被引), 12(1):1088, 2021

Imputing single-cell RNA-seq data by considering cell heterogeneity and prior expression of dropouts

L Zhang, S Zhang^*.

Journal of Molecular Cell Biology (封面文章，被同期点评), 13(1):29-40, 2021

Predicting transcription factor binding in single cells through deep learning

L Fu, L Zhang, Emmanuel Dollinger, Qinke Peng, Qing Nie^*, Xiaohui Xie^*.

Science Advances, 6(51): eaba9031, 2020

scAI: an unsupervised approach for integrative analysis of parallel single cell transcriptomic and epigenomic profiles

S Jin^#, L Zhang^#, Q Nie^*

Genome Biology (IF: 17.9), 21(1)：25, 2020

Comparison of computational methods for imputing single-cell RNA-sequencing data

L Zhang, S Zhang^*.

IEEE/ACM Transactions on Computational Biology and Bioinformatics (ESI 高被引), 17(2): 376-389, 2020

Learning common and specific patterns from data of multiple interrelated biological scenarios with matrix factorization

L Zhang, S Zhang^*.

Nucleic Acids Research (IF: 19.16), 47(13): 6606-6617, 2019

A general joint matrix factorization framework for data integration and its systematic algorithmic exploration

L Zhang, S Zhang^*.

IEEE Transactions on Fuzzy Systems, 28(9): 1971-1983, 2019