Yong Wang

发表

Predicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data

Rui Jiang, Yong Wang, Wing Hung Wong, 2017, Nucleic acids research.

Integrating distal and proximal information to predict gene expression via a densely connected convolutional neural network

Yong Wang, Rui Jiang, Wanwen Zeng, 2018, bioRxiv.

Modeling gene regulation from paired expression and chromatin accessibility data

W. Wong, R. Jiang, Yong Wang, 2017, Proceedings of the National Academy of Sciences.

Chromatin accessibility landscape and regulatory network of high-altitude hypoxia adaptation

W. Wong, Yong Wang, B. Su, 2020, Nature Communications.

Multi-Level Comparative Framework Based on Gene Pair-Wise Expression Across Three Insulin Target Tissues for Type 2 Diabetes

Shaoyan Sun, Yong Wang, Fengnan Sun, 2019, Front. Genet..

Associating divergent lncRNAs with target genes by integrating genome sequence, gene expression and chromatin accessibility data

R. Jiang, Yongcui Wang, Shilong Chen, 2020, NAR genomics and bioinformatics.

Hierarchical graphical model reveals HFR1 bridging circadian rhythm and flower development in Arabidopsis thaliana

Xingming Zhao, Luonan Chen, Yong Wang, 2019, npj Systems Biology and Applications.

Revealing transcription factor and histone modification co-localization and dynamics across cell lines by integrating ChIP-seq and RNA-seq data

Yong Wang, Lirong Zhang, Qianzhong Li, 2018, BMC Genomics.

AC-PCA: simultaneous dimension reduction and adjustment for confounding variation

John C. Duchi, W. Wong, Hongyu Zhao, 2016, bioRxiv.

Ac-pca Adjusts for Confounding Variation in Transcriptome Data and Recovers the Anatomical Structure of Neocortex

John C. Duchi, W. Wong, Hongyu Zhao, 2022 .

Multiple-Tissue and Multilevel Analysis on Differentially Expressed Genes and Differentially Correlated Gene Pairs for HFpEF

Shaoyan Sun, Yong Wang, Qiuyue Yuan, 2021, Frontiers in Genetics.

Comparison of chromatin accessibility landscapes during early development of prefrontal cortex between rhesus macaque and human

Xiaoqun Wang, Jiang Liu, Lei Gao, 2022, Nature Communications.

Genetic adaptation of skin pigmentation in highland Tibetans

B. Jiang, X. Liu, Yong Wang, 2022, Proceedings of the National Academy of Sciences of the United States of America.

Heritability enrichment in context-specific regulatory networks improves phenotype-relevant tissue identification

Wing Hong Wong, Yong Wang, Zhana Duren, 2022, bioRxiv.

Lipid-gene regulatory network reveals coregulations of triacylglycerol with phosphatidylinositol/lysophosphatidylinositol and with hexosyl-ceramide.

X. Yang, Yong Wang, G. Shui, 2019, Biochimica et biophysica acta. Molecular and cell biology of lipids.

Identification of TAZ as the essential molecular switch in orchestrating SCLC phenotypic transition and metastasis

Yingyong Hou, H. Ji, Roman K. Thomas, 2021, bioRxiv.

MIMIC: an optimization method to identify cell type-specific marker panel for cell sorting

Yong Wang, Zhana Duren, Meng Zou, 2021, Briefings Bioinform..

OpenAnnotate: a web server to annotate the chromatin accessibility of genomic regions

Xuegong Zhang, R. Jiang, Chunquan Li, 2021, Nucleic Acids Res..

Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations

Yong Wang, Wing Hung Wong, Howard Y. Chang, 2018, Proceedings of the National Academy of Sciences.

GuidingNet: revealing transcriptional cofactor and predicting binding for DNA methyltransferase by network regularization

Yong Wang, Zhana Duren, Lixin Ren, 2020, bioRxiv.

DC3 is a method for deconvolution and coupled clustering from bulk and single-cell genomics data

Yong Wang, Wing Hung Wong, Zhana Duren, 2019, Nature Communications.

Revealing transcription factor and histone modification co-localization and dynamics across cell lines by integrating ChIP-seq and RNA-seq data

Yong Wang, Lirong Zhang, Qianzhong Li, 2018, BMC Genomics.

Integrated profiling of human pancreatic cancer organoids reveals chromatin accessibility features associated with drug sensitivity

Yong Wang, Qiuyue Yuan, Yunguang Li, 2022, Nature Communications.

hReg-CNCC reconstructs a regulatory network in human cranial neural crest cells and annotates variants in a developmental context

Wing Hong Wong, Yong Wang, Zhana Duren, 2021, Communications biology.

Feedback Regulation between Initiation and Maturation Networks Orchestrates the Chromatin Dynamics of Epidermal Lineage Commitment

Howard Y. Chang, Samantha N. Piekos, Eric J. Liaw, 2018, bioRxiv.

Human Genetic Variants Associated with COVID-19 Severity are Enriched in Immune and Epithelium Regulatory Networks

X. Ren, Yong Wang, Zhana Duren, 2021, bioRxiv.

ERG orchestrates chromatin interactions to drive prostate cell fate reprogramming

B. Carver, P. Chi, Yong Wang, 2020, bioRxiv.

The cell-surface 5′-nucleotidase CD73 defines a functional T memory cell subset that declines with age

Yong Wang, D. Farber, C. Weyand, 2021, Cell reports.

Simultaneous dimension reduction and adjustment for confounding variation

Can Yang, Bai Jiang, Yong Wang, 2016, Proceedings of the National Academy of Sciences.

Interpreting ruminant specific conserved non-coding elements by developmental gene regulatory network

Wing Hong Wong, Zhaoxia Ma, Yong Wang, 2021, bioRxiv.

OPENANNO: annotating genomic regions with chromatin accessibility

Rui Jiang, Yong Wang, Shengquan Chen, 2019, bioRxiv.

Modeling the causal regulatory network by integrating chromatin accessibility and transcriptome data.

Rui Jiang, Wing Hung Wong, Yong Wang, 2016, National science review.

hReg-CNCC reconstructs a regulatory network in human cranial neural crest cells and annotates variants in a developmental context

Wing Hong Wong, F. Liu, Yong Wang, 2021, Communications Biology.

Influence of age on functional memory T cell diversity

B. Hu, Yong Wang, C. Weyand, 2021, bioRxiv.

TFAP2C- and p63-Dependent Networks Sequentially Rearrange Chromatin Landscapes to Drive Human Epidermal Lineage Commitment.

Howard Y. Chang, Eric J. Liaw, W. Wong, 2019, Cell stem cell.

Drosophila TRF2 and TAF9 regulate lipid droplet size and phospholipid fatty acid composition

Yong Wang, G. Shui, Jingxue Xin, 2017, PLoS genetics.

Models of global gene expression define major domains of cell type and tissue identity

A. Hutchins, Yong Wang, Xiaoshan Wang, 2017, Nucleic acids research.

A network biology study on circadian rhythm by integrating various omics data.

Xiang-Sun Zhang, Yong Wang, Luonan Chen, 2009, Omics : a journal of integrative biology.

3Scover: Identifying Safeguard TF from Cell Type-TF Specificity Network by an Extended Minimum Set Cover Model

Yong Wang, Qiuyue Yuan, 2020, iScience.

ZokorDB: tissue specific regulatory network annotation for non-coding elements of plateau zokor

Yong Wang, Tao Zhang, Peng Shi, 2020, Quantitative Biology.

Predicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data

R. Jiang, Mahdi Zamanighomi, Zhixiang Lin, 2017, Nucleic acids research.

ELF: Extract Landmark Features By Optimizing Topology Maintenance, Redundancy, and Specificity

Yong Wang, Zhanying Feng, Yong Wang, 2020, IEEE/ACM Transactions on Computational Biology and Bioinformatics.