DeDoc2 Identifies and Characterizes the Hierarchy and Dynamics of Chromatin TAD-Like Domains in the Single Cells, Li, Angsheng, Zeng, Guangjie, Wang, Haoyu, Li, Xiao, Zhang, Zhihua, 2023
Cell cycle arrest explained the observed bulk 3D genomic alterations in response to long term heat shock in K562 cells, xu bingxiang, Xiaomeng Gao, xiaoli li, yan jia, Feifei li, Zhihua Zhang, 2022
Lattice simulation-based diffusion modelling of 3D chromatin structure, Yang, Qingzhu, Zhang, Zhihua, 2022
DeTOKI identifies and characterizes the dynamics of chromatin TAD-like domains in a single cell, Li, Xiao, Zeng, Guangjie, Li, Angsheng, Zhang, Zhihua, 2021
DNA transposons mediate duplications via transposition-independent and -dependent mechanisms in metazoans, Shengjun Tan, Huijing Ma, Jinbo Wang, Man Wang, Mengxia Wang, Haodong Yin, Yaqiong Zhang, Xinying Zhang, Jieyu Shen, Danyang Wang, Graham L Banes, Zhihua Zhang, Jianmin Wu, Xun Huang, Hua Chen, Siqin Ge, ChunLong Chen, Yong E Zhang, 2021
Exploring multiomics data in 3D genomic space using augmented reality based visualization platform Delta.AR, Bixia Tang, Xiaoxing Li, Guan Li, Dong Tian, Feifei Li, Zhihua Zhang, 2021
Episo: quantitative estimation of RNA 5-methylcytosine at isoform level by high-throughput sequencing of RNA treated with bisulfite, Liu, Junfeng, An, Ziyang, Luo, Jianjun, Li, Jing, Li, Feifei, Zhang, Zhihua, 2020
Comparison of computational methods for 3D genome analysis at single-cell Hi-C level, Li, Xiao, An, Ziyang, Zhang, Zhihua, 2020
The asynchronous establishment of chromatin 3D architecture between in vitro fertilized and uniparental preimplantation pig embryos, Li, Feifei, Wang, Danyang, Song, Ruigao, Cao, Chunwei, Zhang, Zhihua, Wang, Yu, Li, Xiaoli, Huang, Jiaojiao, Liu, Qiang, Hou, Naipeng, Xu, Bingxiang, Li, Xiao, Gao, Xiaomeng, Jia, Yan, Zhao, Jianguo, Wang, Yanfang, 2020
Evidence of constraint in the 3D genome for trans-splicing in human cells, Liu, Cong, Zhang, Yiqun, Li, Xiaoli, Jia, Yan, Li, Feifei, Li, Jing, Zhang, Zhihua, 2020
基于Hi-C技术识别基因组结构变异及其在肿瘤研究中的应用, 刘聪, 张治华, 2020
生物大分子“液–液相分离”调控染色质三维空间结构和功能, 高晓萌, 张治华, 2020
The Dynamic 3D Genome in Gametogenesis and Early Embryonic Development, Li, Feifei, An, Ziyang, Zhang, Zhihua, 2019
Decoding topologically associating domains with ultra-low resolution Hi-C data by graph structural entropy, Angsheng Li, Xianchen Yin, Bingxiang Xu, Danyang Wang, Jimin Han, Yi Wei, Yun Deng, Ying Xiong, Zhihua Zhang, 2018
Delta: a new Web-based 3D genome visualiza-tion and analysis platform, Zhang Zhihua, 2017
An efficient and assumption-free method to approximate protein level distribution in the two-states gene expression model, Xu, Bingxiang, Ge, Hao, Zhang, Zhihua, 2017
Characteristic arrangement of nucleosomes is predictive of chromatin interactions at kilobase resolution, Zhang, Hui, Li, Feifei, Jia, Yan, Xu, Bingxiang, Zhang, Yiqun, Li, Xiaoli, Zhang, Zhihua, 2017
Computational inference of physical spatial organization of eukaryotic genomes, Xu Bingxiang, Zhang Zhihua, 2016
ESCRT-0 complex modulates Rbf-mutant cell survival by regulating Rhomboid endosomal trafficking and EGFR signaling, Sheng, Zhentao, Yu, Lijia, Zhang, Tianyi, Pei, Xun, Li, Xuan, Zhang, Zhihua, Du, Wei, 2016
Functional diversity of CTCFs is encoded in their binding motifs, Fang, Rongxin, Wang, Chengqi, Skogerbo, Geir, Zhang, Zhihua, 2015
The Evolution of Heterogeneities Altered by Mutational Robustness, Gene Expression Noise and Bottlenecks in Gene Regulatory Networks, Zhang, Zhihua, 2014
Computational Identification of Active Enhancers in Model Organisms, Wang Chengqi, Zhang Michael Q, Zhang Zhihua, 2013
Prediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study, Sun, Lei, Zhang, Zhihua, Bailey, Timothy L, Perkins, Andrew C, Tallack, Michael R, Xu, Zhao, Liu, Hui, 2012
Bivalent-Like Chromatin Markers Are Predictive for Transcription Start Site Distribution in Human, Zhang, Zhihua, Ma, Xiaotu, Zhang, Michael Q, 2012
Histone modification profiles are predictive for tissue/cell-type specific expression of both protein-coding and microRNA genes, Zhang, Zhihua, Zhang, Michael Q, 2011
Positive selection for elevated gene expression noise in yeast, Zhang, Zhihua, Qian, Wenfeng, Zhang, Jianzhi, 2009
A Big World Inside Small-World Networks, Zhang, Zhihua, Zhang, Jianzhi, 2009
Accuracy and application of the motif expression decomposition method in dissecting transcriptional regulation, Zhang, Zhihua, Zhang, Jianzhi, 2008
Dynamic changes in subgraph preference profiles of crucial transcription factors, 陈润生, 2006
A hypothetical model of trans-acting R-loops-mediated promoter-enhancer interactions by Alu elements, Xue Bai, Feifei Li, Zhihua Zhang, 2021
