KUN contact ZHANG

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes
    Ying Gu
    Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA, 92037, USA
    Protein Cell 5:59-68. 2014
  2. pmc Massively parallel polymerase cloning and genome sequencing of single cells using nanoliter microwells
    Jeff Gole
    Department of Bioengineering, Institute for Genomic Medicine and Institute of Engineering in Medicine, University of California at San Diego, La Jolla, California, USA
    Nat Biotechnol 31:1126-32. 2013
  3. pmc Library-free methylation sequencing with bisulfite padlock probes
    Dinh Diep
    Department of Bioengineering, University of California at San Diego, La Jolla, California, USA
    Nat Methods 9:270-2. 2012
  4. pmc Analysis of protein-coding mutations in hiPSCs and their possible role during somatic cell reprogramming
    Sergio Ruiz
    Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, California 92037, USA
    Nat Commun 4:1382. 2013
  5. pmc Mouse SCNT ESCs have lower somatic mutation load than syngeneic iPSCs
    Zhe Li
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Stem Cell Reports 2:399-405. 2014
  6. pmc Genome-wide mapping of the sixth base
    Dinh Diep
    Department of Bioengineering, University of California at San Diego, 9500 Gilman Drive, MC0412, La Jolla, CA 92093 0412, USA
    Genome Biol 12:116. 2011
  7. pmc Digital RNA allelotyping reveals tissue-specific and allele-specific gene expression in human
    Kun Zhang
    Department of Bioengineering, University of California at San Diego, La Jolla, California, USA
    Nat Methods 6:613-8. 2009
  8. pmc Allele-specific methylation is prevalent and is contributed by CpG-SNPs in the human genome
    Robert Shoemaker
    Department of Chemistry and Biochemistry, University of California at San Diego, La Jolla, California 92093, USA
    Genome Res 20:883-9. 2010
  9. pmc Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming
    Jie Deng
    Department of Bioengineering, University of California San Diego, La Jolla, CA, USA
    Nat Biotechnol 27:353-60. 2009

Collaborators

  • Juan Carlos Izpisua Belmonte
  • George M Church
  • Jin Billy Li
  • Je Hyuk Lee
  • Konrad Hochedlinger
  • In Hyun Park
  • Emily M LeProust
  • Athurva Gore
  • Dinh Diep
  • Robert Shoemaker
  • Zhe Li
  • Ho Lim Fung
  • Jie Deng
  • Ying Gu
  • Nuria Montserrat
  • Sergio Ruiz
  • Jeff Gole
  • Nongluk Plongthongkum
  • Wei Wang
  • Jing Qu
  • Weiqi Zhang
  • Jiping Yang
  • Concepcion Rodriguez Esteban
  • Isaac Crespo
  • Guang Hui Liu
  • Jun Yong
  • Hongkui Deng
  • Antonio del Sol
  • Fei Yi
  • Weifeng Yang
  • Hongxia Lu
  • Christopher Benner
  • Keiichiro Suzuki
  • Yang Xu
  • Zhen Ning Zhang
  • Mo Li
  • Erika M Batchelder
  • Yu Hwa Lo
  • Alessandra Giorgetti
  • Jerold Chun
  • Andrew Richards
  • Yu Jui Chiu
  • Hans R Scholer
  • Hsin I Chiang
  • Holm Zaehres
  • Josipa Bilic
  • Diane Bushman
  • Athanasia D Panopoulos
  • Nimet Maherali
  • Yuan Gao
  • James Thomson
  • Junying Yu
  • Jessica Antosiewicz-Bourget
  • Bin Xie
  • Kevin Eggan
  • Dieter Egli
  • George Q Daley

Detail Information

Publications9

  1. pmc Global DNA methylation and transcriptional analyses of human ESC-derived cardiomyocytes
    Ying Gu
    Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA, 92037, USA
    Protein Cell 5:59-68. 2014
    ....
  2. pmc Massively parallel polymerase cloning and genome sequencing of single cells using nanoliter microwells
    Jeff Gole
    Department of Bioengineering, Institute for Genomic Medicine and Institute of Engineering in Medicine, University of California at San Diego, La Jolla, California, USA
    Nat Biotechnol 31:1126-32. 2013
    ..In addition, MIDAS allowed us to detect single-copy number changes in primary human adult neurons at 1- to 2-Mb resolution. MIDAS can potentially further the characterization of genomic diversity in many heterogeneous cell populations. ..
  3. pmc Library-free methylation sequencing with bisulfite padlock probes
    Dinh Diep
    Department of Bioengineering, University of California at San Diego, La Jolla, California, USA
    Nat Methods 9:270-2. 2012
    ....
  4. pmc Analysis of protein-coding mutations in hiPSCs and their possible role during somatic cell reprogramming
    Sergio Ruiz
    Gene Expression Laboratory, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, California 92037, USA
    Nat Commun 4:1382. 2013
    ....
  5. pmc Mouse SCNT ESCs have lower somatic mutation load than syngeneic iPSCs
    Zhe Li
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Stem Cell Reports 2:399-405. 2014
    ..In contrast, every iPSC line carries unique mutations. Our study highlights the need for improving reprogramming methods in more physiologically relevant conditions. ..
  6. pmc Genome-wide mapping of the sixth base
    Dinh Diep
    Department of Bioengineering, University of California at San Diego, 9500 Gilman Drive, MC0412, La Jolla, CA 92093 0412, USA
    Genome Biol 12:116. 2011
    ..Mapping of 5-hydroxylmethylcytosine in mammalian genomes has unveiled its unique role in the epigenetic regulation of gene expression...
  7. pmc Digital RNA allelotyping reveals tissue-specific and allele-specific gene expression in human
    Kun Zhang
    Department of Bioengineering, University of California at San Diego, La Jolla, California, USA
    Nat Methods 6:613-8. 2009
    ..Comparison of expressed SNPs on the sense and antisense transcripts suggested that allelic ratios are primarily determined by cis-regulatory mechanisms on the sense transcripts...
  8. pmc Allele-specific methylation is prevalent and is contributed by CpG-SNPs in the human genome
    Robert Shoemaker
    Department of Chemistry and Biochemistry, University of California at San Diego, La Jolla, California 92093, USA
    Genome Res 20:883-9. 2010
    ..This study identified distinct types of ASM across many cell types and suggests a potential role for CpG-SNP in connecting genetic variation with the epigenome...
  9. pmc Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming
    Jie Deng
    Department of Bioengineering, University of California San Diego, La Jolla, CA, USA
    Nat Biotechnol 27:353-60. 2009
    ..We found 288 regions methylated differently in fibroblasts and pluripotent cells. This targeted approach should be particularly useful for analyzing DNA methylation in large genomes...