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Author Details

Chongzhi Zang
Center for Public Health Genomics, University of Virginia
2008
64
31
Aidong Zhang (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36864611Interpretable meta-learning of multi-omics data for survival analysis and pathway enrichment.Bioinformatics2023
38077031Proximal immune-epithelial progenitor interactions drive chronic tissue sequelae post COVID-19.Res Sq2023
37745354Proximal immune-epithelial progenitor interactions drive chronic tissue sequelae post COVID-19.bioRxiv2023
37546918Integrative analysis of DNA replication origins and ORC/MCM binding sites in human cells reveals a lack of overlap.bioRxiv2023
37058545Fob1-dependent condensin recruitment and loop extrusion on yeast chromosome III.PLoS Genet2023
37456831Single cell RNA sequencing unravels mechanisms underlying senescence-like phenotypes of alveolar macrophages.iScience2023
36778402Perturb-tracing enables high-content screening of multiscale 3D genome regulators.bioRxiv2023
34741118Genetic ablation of Pim1 or pharmacologic inhibition with TP-3654 ameliorates myelofibrosis in murine models.Leukemia2022
35768727Author Correction: Single-nucleus chromatin accessibility profiling highlights regulatory mechanisms of coronary artery disease risk.Nat Genet2022
35832633Extracting physical characteristics of higher-order chromatin structures from 3D image data.Comput Struct Biotechnol J2022
35590109Single-nucleus chromatin accessibility profiling highlights regulatory mechanisms of coronary artery disease risk.Nat Genet2022
35618699Single-cell chromatin profiling of the primitive gut tube reveals regulatory dynamics underlying lineage fate decisions.Nat Commun2022
35414119Publisher Correction: Tcf1 preprograms the mobilization of glycolysis in central memory CD8<sup>+</sup> T cells during recall responses.Nat Immunol2022
36130957Intrinsic bias estimation for improved analysis of bulk and single-cell chromatin accessibility profiles using SELMA.Nat Commun2022
36055233Nonparametric single-cell multiomic characterization of trio relationships between transcription factors, target genes, and cis-regulatory regions.Cell Syst2022
35190717Tcf1 preprograms the mobilization of glycolysis in central memory CD8<sup>+</sup> T cells during recall responses.Nat Immunol2022
32341523Ectopic Tcf1 expression instills a stem-like program in exhausted CD8<sup>+</sup> T cells to enhance viral and tumor immunity.Cell Mol Immunol2021
33720325BART3D: inferring transcriptional regulators associated with differential chromatin interactions from Hi-C data.Bioinformatics2021
33860225BARTweb: a web server for transcriptional regulator association analysis.NAR Genom Bioinform2021
34526716UTX condensation underlies its tumour-suppressive activity.Nature2021
34405474Assessing acute myeloid leukemia susceptibility in rearrangement-driven patients by DNA breakage at topoisomerase II and CCCTC-binding factor/cohesin binding sites.Genes Chromosomes Cancer2021
33414485U2af1 is required for survival and function of hematopoietic stem/progenitor cells.Leukemia2021
32179771An epilepsy-associated mutation in the nuclear import receptor KPNA7 reduces nuclear localization signal binding.Sci Rep2020
34327037RECOGNICER: A coarse-graining approach for identifying broad domains from ChIP-seq data.Quant Biol2020
31688895YY1 is a cis-regulator in the organoid models of high mammographic density.Bioinformatics2020
32920490Polyadenylation of Histone H3.1 mRNA Promotes Cell Transformation by Displacing H3.3 from Gene Regulatory Elements.iScience2020
32728046An integrative ENCODE resource for cancer genomics.Nat Commun2020
31251903Specific inhibition of DPY30 activity by ASH2L-derived peptides suppresses blood cancer cell growth.Exp Cell Res2019
31727847Deciphering essential cistromes using genome-wide CRISPR screens.Proc Natl Acad Sci U S A2019
31856895Nickel-induced transcriptional changes persist  post exposure through epigenetic reprogramming.Epigenetics Chromatin2019
29126307Universal correction of enzymatic sequence bias reveals molecular signatures of protein/DNA interactions.Nucleic Acids Res2018
29987050Estrogen-regulated feedback loop limits the efficacy of estrogen receptor-targeted breast cancer therapy.Proc Natl Acad Sci U S A2018
29528143Nickel exposure induces persistent mesenchymal phenotype in human lung epithelial cells through epigenetic activation of ZEB1.Mol Carcinog2018
29608647BART: a transcription factor prediction tool with query gene sets or epigenomic profiles.Bioinformatics2018
27789702Cistrome Data Browser: a data portal for ChIP-Seq and chromatin accessibility data in human and mouse.Nucleic Acids Res2017
28465412Genome-wide identification and characterization of Notch transcription complex-binding sequence-paired sites in leukemia cells.Sci Signal2017
29092931Cistrome Cancer: A Web Resource for Integrative Gene Regulation Modeling in Cancer.Cancer Res2017
27072482High-dimensional genomic data bias correction and data integration using MANCIE.Nat Commun2016
26659825Integrative Analysis Reveals the Transcriptional Collaboration between EZH2 and E2F1 in the Regulation of Cancer-Related Gene Expression.Mol Cancer Res2016
27716038ChiLin: a comprehensive ChIP-seq and DNase-seq quality control and analysis pipeline.BMC Bioinformatics2016
27466232Modeling cis-regulation with a compendium of genome-wide histone H3K27ac profiles.Genome Res2016
27457419NF-E2, FLI1 and RUNX1 collaborate at areas of dynamic chromatin to activate transcription in mature mouse megakaryocytes.Sci Rep2016
25418913The role of Notch receptors in transcriptional regulation.J Cell Physiol2015
26518695Network analysis of gene essentiality in functional genomics experiments.Genome Biol2015
26414678Partitioning heritability by functional annotation using genome-wide association summary statistics.Nat Genet2015
23950101Dioscin prevents the mitochondrial apoptosis and attenuates oxidative stress in cardiac H9c2 cells.Drug Res (Stuttg)2014
25439723Partitioning heritability of regulatory and cell-type-specific variants across 11 common diseases.Am J Hum Genet2014
25369933Long-range enhancer activity determines Myc sensitivity to Notch inhibitors in T cell leukemia.Proc Natl Acad Sci U S A2014
25104330Discovery of biomarkers predictive of GSI response in triple-negative breast cancer and adenoid cystic carcinoma.Cancer Discov2014
25103624MethylPurify: tumor purity deconvolution and differential methylation detection from single tumor DNA methylomes.Genome Biol2014
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Collaborators

Xiaole Shirley Liu
Co-authored papers 19
Zhenjia Wang
Beijing Hospital of Traditional Chinese Medicine, Capital Medical University
Co-authored papers 12
Shengen Shawn Hu
Co-authored papers 11
Clifford A Meyer
Co-authored papers 10
Myles Brown
Co-authored papers 9
Peng Jiang
Anhui Medical University
Co-authored papers 5
Housheng Hansen He
Princess Margaret Cancer Center, University Health Network, University of Toronto
Co-authored papers 4
Len Taing
Co-authored papers 4
Wei Li
Co-authored papers 4
Clint L Miller
University of Virginia
Co-authored papers 3
Michael J Guertin
Center for Cell Analysis and Modeling, University of Connecticut
Co-authored papers 3
Euan A Ashley
Stanford University
Co-authored papers 2
Mark J Daly
Massachusetts General Hospital
Co-authored papers 2
Thomas Quertermous
Co-authored papers 2
Alkes L Price
Broad Institute of MIT and Harvard
Co-authored papers 2
Yuka Kanno
Co-authored papers 2
Bradley E Bernstein
Broad Institute of MIT and Harvard
Co-authored papers 2
Glenda Canderan
University of Virginia
Co-authored papers 2
Shaun Purcell
Brigham and Women's Hospital
Co-authored papers 2
Tao Liu
Co-authored papers 2
John J O'Shea
National Institute of Arthritis, National Institutes of Health
Co-authored papers 2
Eli A Stahl
Co-authored papers 2
Aloke V Finn
CVPath Institute
Co-authored papers 2
Stephan Ripke
Massachusetts General Hospital and Harvard Medical School
Co-authored papers 2
Anshul Kundaje
Stanford University.
Co-authored papers 2
Hilary K Finucane
Co-authored papers 2
Chen-Hao Chen
Co-authored papers 2
Judith A Woodfolk
University of Virginia School of Medicine
Co-authored papers 2
Alexander Gusev
The Center for Functional Cancer Epigenetics, Dana Farber Cancer Institute
Co-authored papers 2
Soumya Raychaudhuri
Brigham and Women's Hospital and Harvard Medical School
Co-authored papers 2
Release 1.2