Selected Publications

Academic Article

Year Title Altmetric
2021 Haplotype-resolved diverse human genomes and integrated analysis of structural variationScience.  372. 2021
2021 ClipSV: improving structural variation detection by read extension, spliced alignment and tree-based decision rules. 2021
2021 Scalable de Novo Genome Assembly Using a Pregel-Like Graph-Parallel SystemIEEE/ACM Transactions on Computational Biology and Bioinformatics.  18:731-744. 2021
2020 Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples (Nature Communications, (2020), 11, 1, (4748), 10.1038/s41467-020-18151-y)Nature Communications.  11. 2020
2020 Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samplesNature Communications.  11. 2020
2020 Sex differences in oncogenic mutational processesNature Communications.  11. 2020
2020 The effects of common structural variants on 3D chromatin structureBMC Genomics.  21. 2020
2020 Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotranspositionNature Genetics.  52:306-319. 2020
2020 Pan-cancer analysis of whole genomesNature.  578:82-93. 2020
2020 De novo mutations across 1,465 diverse genomes reveal mutational insights and reductions in the Amish founder population 2020
2020 MRLR: Unraveling high-resolution meiotic recombination by linked readsBioinformatics.  36:10-16. 2020
2020 Ozone and Particulate Matter Exposure and Alzheimer's Disease: A Review of Human and Animal StudiesJournal of Alzheimer's Disease.  76:807-824. 2020
2019 Multi-platform discovery of haplotype-resolved structural variation in human genomesNature Communications.  10. 2019
2019 Human-specific tandem repeat expansion and differential gene expression during primate evolution 2019
2019 Megabase Length Hypermutation Accompanies Human Structural Variation at 17p11.2Cell.  176:1310-1324.e10. 2019
2018 Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detectionGenome Biology.  19. 2018
2018 Identification of meiotic recombination through gamete genome reconstruction using whole genome linked-reads 2018
2018 Marker chromosome genomic structure and temporal origin implicate a chromoanasynthesis event in a family with pleiotropic psychiatric phenotypesHuman Mutation.  39:939-946. 2018
2018 Regenerative potential of neonatal porcine heartsCirculation.  138:2809-2816. 2018
2018 Structural variant breakpoint detection with novoBreakMethods in Molecular Biology.  1833:129-141. 2018
2017 A murine preclinical syngeneic transplantation model for breast cancer precision medicineScience Advances.  3:e1600957-e1600957. 2017
2017 Integrated genomic and molecular characterization of cervical cancerNature.  543:378-384. 2017
2017 A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell LinesCell Systems.  5:485-497.e3. 2017
2017 An Organismal CNV Mutator Phenotype Restricted to Early Human DevelopmentCell.  168:830-842. 2017
2017 novoBreak: local assembly for breakpoint detection in cancer genomes.Nature methods.  14:65-67. 2017
2016 Single-cell isolation by a modular single-cell pipette for RNA-sequencing. 2016
2016 Functional annotation of rare gene aberration drivers of pancreatic cancerNature Communications.  7. 2016
2016 Hotspot mutations delineating diverse mutational signatures and biological utilities across cancer typesBMC Genomics.  17:394-394. 2016
2015 An integrated map of structural variation in 2,504 human genomesNature.  526:75-81. 2015
2015 A global reference for human genetic variationNature.  526:68-74. 2015
2015 ClinSeK: a targeted variant characterization framework for clinical sequencingGenome Medicine.  7:34-34. 2015
2015 Clinical actionability enhanced through deep targeted sequencing of solid tumorsClinical Chemistry.  61:544-553. 2015
2015 Genome-wide 5-hydroxymethylcytosine modification pattern is a novel epigenetic feature of globozoospermiaOncotarget.  6:6535-6535. 2015
2015 Identification of variant-specific functions of PIK3CA by rapid phenotyping of rare mutationsCancer Research.  75:5341-5354. 2015
2015 TransVar: a multilevel variant annotator for precision genomicsNature methods.  12:1002-1003. 2015
2014 Ago2 facilitates Rad51 recruitment and DNA double-strand break repair by homologous recombination.Cell Research.  24:532-541. 2014
2014 Towards accurate characterization of clonal heterogeneity based on structural variationBMC Bioinformatics.  15:299-299. 2014
2014 Trrap-dependent histone acetylation specifically regulates cell-cycle gene transcription to control neural progenitor fate decisionsCell Stem Cell.  14:632-643. 2014
2013 The evolution of small insertions and deletions in the coding genes of Drosophila melanogaster.Molecular Biology and Evolution.  30:2699-2708. 2013
2013 Ascorbic acid enhances Tet-mediated 5-methylcytosine oxidation and promotes DNA demethylation in mammalsJournal of the American Chemical Society.  135:10396-10403. 2013
2013 Pseudo-Sanger sequencing: massively parallel production of long and near error-free reads using NGS technologyBMC Genomics.  14:711-711. 2013
2013 Redox-active quinones induces genome-wide DNA methylation changes by an iron-mediated and Tet-dependent mechanismNucleic Acids Research.  gkt1090-gkt1090. 2013
2012 Rainbow: an integrated tool for efficient clustering and assembling RAD-seq readsBioinformatics2012
2011 Rapid growth of a hepatocellular carcinoma and the driving mutations revealed by cell-population genetic analysis of whole-genome data. 2011

Education And Training

  • Doctor of Social or Behavioral Sciences in Genome Sciences / Genomics, Chinese Academy of Medical Sciences and Peking Union Medical College 2013
  • Univeristy of Texas MD Anderson Cancer Center Bioinformatics and Computational Biology, Postdoctoral Fellowship 2017
  • Full Name

  • Zechen Chong