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Chih-Lin Hsieh, PhD

Professor of Urology

Catherine and Joseph Aresty Chair in Urologic Research

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Phone +1 323 865 0567
Email hsieh_c@med.usc.edu
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Publications

  • Novel Lines of Evidence for the Asymmetric Strand Displacement Model of Mitochondrial DNA Replication Mol Cell Biol. 2019 01 15; 39(2). . View in PubMed
  • gsSKAT: Rapid gene set analysis and multiple testing correction for rare-variant association studies using weighted linear kernels Genet Epidemiol. 2017 05; 41(4):297-308. . View in PubMed
  • REVEL: An Ensemble Method for Predicting the Pathogenicity of Rare Missense Variants Am J Hum Genet. 2016 Oct 06; 99(4):877-885. . View in PubMed
  • Post hoc Analysis for Detecting Individual Rare Variant Risk Associations Using Probit Regression Bayesian Variable Selection Methods in Case-Control Sequencing Studies Genet Epidemiol. 2016 09; 40(6):461-9. . View in PubMed
  • Effect of CpG dinucleotides within IgH switch region repeats on immunoglobulin class switch recombination Mol Immunol. 2015 Aug; 66(2):284-9. . View in PubMed
  • Complexities due to single-stranded RNA during antibody detection of genomic rna:dna hybrids BMC Res Notes. 2015 Apr 08; 8:127. . View in PubMed
  • Human lymphoid translocation fragile zones are hypomethylated and have accessible chromatin Mol Cell Biol. 2015 Apr; 35(7):1209-22. . View in PubMed
  • Sensitivity and specificity of immunoprecipitation of DNA containing 5-Methylcytosine BMC Res Notes. 2015 Mar 27; 8:102. . View in PubMed
  • The role of G-density in switch region repeats for immunoglobulin class switch recombination Nucleic Acids Res. 2014 Dec 01; 42(21):13186-93. . View in PubMed
  • The strength of an Ig switch region is determined by its ability to drive R loop formation and its number of WGCW sites Cell Rep. 2014 Jul 24; 8(2):557-69. . View in PubMed
  • Association analysis of 9,560 prostate cancer cases from the International Consortium of Prostate Cancer Genetics confirms the role of reported prostate cancer associated SNPs for familial disease Hum Genet. 2014 Mar; 133(3):347-56. . View in PubMed
  • Reproducibility and reliability of SNP analysis using human cellular DNA at or near nanogram levels BMC Res Notes. 2013 Dec 06; 6:515. . View in PubMed
  • Regionally specific and genome-wide analyses conclusively demonstrate the absence of CpG methylation in human mitochondrial DNA Mol Cell Biol. 2013 Jul; 33(14):2683-90. . View in PubMed
  • Large chromosome deletions, duplications, and gene conversion events accumulate with age in normal human colon crypts Aging Cell. 2013 Apr; 12(2):269-79. . View in PubMed
  • Both CpG methylation and activation-induced deaminase are required for the fragility of the human bcl-2 major breakpoint region: implications for the timing of the breaks in the t(14;18) translocation Mol Cell Biol. 2013 Mar; 33(5):947-57. . View in PubMed
  • HOXB13 is a susceptibility gene for prostate cancer: results from the International Consortium for Prostate Cancer Genetics (ICPCG) Hum Genet. 2013 Jan; 132(1):5-14. . View in PubMed
  • Validation of prostate cancer risk-related loci identified from genome-wide association studies using family-based association analysis: evidence from the International Consortium for Prostate Cancer Genetics (ICPCG) Hum Genet. 2012 Jul; 131(7):1095-103. . View in PubMed
  • Analysis of Xq27-28 linkage in the international consortium for prostate cancer genetics (ICPCG) families BMC Med Genet. 2012 Jun 19; 13:46. . View in PubMed
  • Heterogeneity and randomness of DNA methylation patterns in human embryonic stem cells DNA Cell Biol. 2012 Jun; 31(6):893-907. . View in PubMed
  • Chromosomes 4 and 8 implicated in a genome wide SNP linkage scan of 762 prostate cancer families collected by the ICPCG Prostate. 2012 Mar; 72(4):410-26. . View in PubMed
  • Wnt signaling orchestration with a small molecule DYRK inhibitor provides long-term xeno-free human pluripotent cell expansion Stem Cells Transl Med. 2012 Jan; 1(1):18-28. . View in PubMed
  • Polarized secretion of PEDF from human embryonic stem cell-derived RPE promotes retinal progenitor cell survival Invest Ophthalmol Vis Sci. 2011 Mar 01; 52(3):1573-85. . View in PubMed
  • Transcriptional activity affects the H3K4me3 level and distribution in the coding region Mol Cell Biol. 2010 Jun; 30(12):2933-46. . View in PubMed
  • Genome-wide linkage analysis of 1,233 prostate cancer pedigrees from the International Consortium for Prostate Cancer Genetics using novel sumLINK and sumLOD analyses Prostate. 2010 May 15; 70(7):735-44. . View in PubMed
  • Competition between the RNA transcript and the nontemplate DNA strand during R-loop formation in vitro: a nick can serve as a strong R-loop initiation site Mol Cell Biol. 2010 Jan; 30(1):146-59. . View in PubMed
  • Germline competent embryonic stem cells derived from rat blastocysts Cell. 2008 Dec 26; 135(7):1299-310. . View in PubMed
  • Human chromosomal translocations at CpG sites and a theoretical basis for their lineage and stage specificity Cell. 2008 Dec 12; 135(6):1130-42. . View in PubMed
  • A simple and inexpensive on-column frit fabrication method for fused-silica capillaries for increased capacity and versatility in LC-MS/MS applications Proteomics. 2008 May; 8(9):1758-61. . View in PubMed
  • Sequence dependence of chromosomal R-loops at the immunoglobulin heavy-chain Smu class switch region Mol Cell Biol. 2007 Aug; 27(16):5921-32. . View in PubMed
  • Compelling evidence for a prostate cancer gene at 22q123 by the International Consortium for Prostate Cancer Genetics. Hum Mol Genet. 2007 Jun 01; 16(11):1271-8. . View in PubMed
  • Chromosomal instability by beta-catenin/TCF transcription in APC or beta-catenin mutant cells Oncogene. 2007 May 24; 26(24):3511-20. . View in PubMed
  • DNA methylation dictates histone H3K4 methylation Mol Cell Biol. 2007 Apr; 27(7):2746-57. . View in PubMed
  • Pooled genome linkage scan of aggressive prostate cancer: results from the International Consortium for Prostate Cancer Genetics Hum Genet. 2006 Nov; 120(4):471-85. . View in PubMed
  • TNFalpha induces chromosomal abnormalities independent of ROS through IKK, JNK, p38 and caspase pathways Cytokine. 2006 Apr; 34(1-2):39-50. . View in PubMed
  • Downstream boundary of chromosomal R-loops at murine switch regions: implications for the mechanism of class switch recombination Proc Natl Acad Sci U S A. 2006 Mar 28; 103(13):5030-5. . View in PubMed
  • Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2 Science. 2006 Jan 20; 311(5759):395-8. . View in PubMed
  • Analysis of non-B DNA structure at chromosomal sites in the mammalian genome Methods Enzymol. 2006; 409:301-16. . View in PubMed
  • A combined genomewide linkage scan of 1,233 families for prostate cancer-susceptibility genes conducted by the international consortium for prostate cancer genetics Am J Hum Genet. 2005 Aug; 77(2):219-29. . View in PubMed
  • Both V(D)J coding ends but neither signal end can recombine at the bcl-2 major breakpoint region, and the rejoining is ligase IV dependent Mol Cell Biol. 2005 Aug; 25(15):6475-84. . View in PubMed
  • Evidence for a triplex DNA conformation at the bcl-2 major breakpoint region of the t(14;18) translocation J Biol Chem. 2005 Jun 17; 280(24):22749-60. . View in PubMed
  • The de novo methylation activity of Dnmt3a is distinctly different than that of Dnmt1 BMC Biochem. 2005 Mar 30; 6:6. . View in PubMed
  • Generation and characterization of endonuclease G null mice Mol Cell Biol. 2005 Jan; 25(1):294-302. . View in PubMed
  • A biochemically defined system for mammalian nonhomologous DNA end joining Mol Cell. 2004 Dec 03; 16(5):701-13. . View in PubMed
  • Inhibition of lipopolysaccharide-stimulated TNF-alpha promoter activity by S-adenosylmethionine and 5′-methylthioadenosine Am J Physiol Gastrointest Liver Physiol. 2004 Aug; 287(2):G352-62. . View in PubMed
  • A non-B-DNA structure at the Bcl-2 major breakpoint region is cleaved by the RAG complex Nature. 2004 Mar 04; 428(6978):88-93. . View in PubMed
  • Developmental retinal apoptosis in Ku86-/- mice DNA Repair (Amst). 2003 Dec 09; 2(12):1429-34. . View in PubMed
  • Meddling with methylation Nat Cell Biol. 2003 Jun; 5(6):502-4. . View in PubMed
  • R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells Nat Immunol. 2003 May; 4(5):442-51. . View in PubMed
  • Overexpression of Cu/Zn superoxide dismutase is lethal for mice lacking double-strand break repair DNA Repair (Amst). 2003 Mar 01; 2(3):285-94. . View in PubMed
  • The DNA methyltransferase-like protein DNMT3L stimulates de novo methylation by Dnmt3a Proc Natl Acad Sci U S A. 2002 Dec 24; 99(26):16916-21. . View in PubMed
  • The embryonic lethality in DNA ligase IV-deficient mice is rescued by deletion of Ku: implications for unifying the heterogeneous phenotypes of NHEJ mutants DNA Repair (Amst). 2002 Dec 05; 1(12):1017-26. . View in PubMed
  • Loss of imprinting in colorectal cancer linked to hypomethylation of H19 and IGF2 Cancer Res. 2002 Nov 15; 62(22):6442-6. . View in PubMed
  • DNA methylation has a local effect on transcription and histone acetylation Mol Cell Biol. 2002 Oct; 22(19):6689-96. . View in PubMed
  • Oxygen metabolism causes chromosome breaks and is associated with the neuronal apoptosis observed in DNA double-strand break repair mutants Curr Biol. 2002 Mar 05; 12(5):397-402. . View in PubMed
  • Murine de novo methyltransferase Dnmt3a demonstrates strand asymmetry and site preference in the methylation of DNA in vitro Mol Cell Biol. 2002 Feb; 22(3):704-23. . View in PubMed
  • A genome screen of families with multiple cases of prostate cancer: evidence of genetic heterogeneity Am J Hum Genet. 2001 Jul; 69(1):148-58. . View in PubMed
  • Protein binding protects sites on stable episomes and in the chromosome from de novo methylation Mol Cell Biol. 2001 May; 21(10):3416-24. . View in PubMed
  • Chromosomal DNA demethylation specified by protein binding EMBO Rep. 2001 Feb; 2(2):108-12. . View in PubMed
  • Modulation of DNA binding protein affinity directly affects target site demethylation Mol Cell Biol. 2000 Apr; 20(7):2343-9. . View in PubMed
  • Dynamics of DNA methylation pattern Curr Opin Genet Dev. 2000 Apr; 10(2):224-8. . View in PubMed
  • The mammalian FEN-1 locus: structure and conserved sequence features Microb Comp Genomics. 2000; 5(3):173-7. . View in PubMed
  • The nonhomologous DNA end joining pathway is important for chromosome stability in primary fibroblasts Curr Biol. 1999 Dec 16-30; 9(24):1501-4. . View in PubMed
  • In vivo activity of murine de novo methyltransferases, Dnmt3a and Dnmt3b Mol Cell Biol. 1999 Dec; 19(12):8211-8. . View in PubMed
  • Chromosome instability and immunodeficiency syndrome caused by mutations in a DNA methyltransferase gene Nature. 1999 Nov 11; 402(6758):187-91. . View in PubMed
  • No evidence of linkage for chromosome 1q422-43 in prostate cancer. Am J Hum Genet. 1999 Jul; 65(1):254-6. . View in PubMed
  • Evidence that protein binding specifies sites of DNA demethylation Mol Cell Biol. 1999 Jan; 19(1):46-56. . View in PubMed
  • V(D)J recombination activity in human hematopoietic cells: correlation with developmental stage and genome stability Eur J Immunol. 1998 Jan; 28(1):351-8. . View in PubMed
  • Re: prostate cancer susceptibility locus on chromosome 1q: a confirmatory study J Natl Cancer Inst. 1997 Dec 17; 89(24):1893-4. . View in PubMed
  • Stability of patch methylation and its impact in regions of transcriptional initiation and elongation Mol Cell Biol. 1997 Oct; 17(10):5897-904. . View in PubMed
  • Processing of branched DNA intermediates by a complex of human FEN-1 and PCNA Nucleic Acids Res. 1996 Jun 01; 24(11):2036-43. . View in PubMed
  • Sequence of human FEN-1, a structure-specific endonuclease, and chromosomal localization of the gene (FEN1) in mouse and human Genomics. 1995 Jan 01; 25(1):220-5. . View in PubMed
  • Dependence of transcriptional repression on CpG methylation density Mol Cell Biol. 1994 Aug; 14(8):5487-94. . View in PubMed
  • V(D)J recombination in ataxia telangiectasia, Bloom’s syndrome, and a DNA ligase I-associated immunodeficiency disorder J Biol Chem. 1993 Sep 25; 268(27):20105-9. . View in PubMed
  • Analysis of the defect in DNA end joining in the murine scid mutation Mol Cell Biol. 1992 Oct; 12(10):4758-68. . View in PubMed
  • V(D)J recombination on minichromosomes is not affected by transcription J Biol Chem. 1992 Aug 05; 267(22):15613-9. . View in PubMed
  • Replication, transcription, CpG methylation and DNA topology in V(D)J recombination Curr Top Microbiol Immunol. 1992; 182:125-35. . View in PubMed
  • CpG methylated minichromosomes become inaccessible for V(D)J recombination after undergoing replication EMBO J. 1992 Jan; 11(1):315-25. . View in PubMed
  • V(D)J recombination: evidence that a replicative mechanism is not required Mol Cell Biol. 1991 Aug; 11(8):3972-7. . View in PubMed

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