Chih-Lin Hsieh

Chih-Lin Hsieh

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Chih-Lin Hsieh

Chih-Lin Hsieh

Publications by authors named "Chih-Lin Hsieh"

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60Publications

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Derivation of induced pluripotent stem cells from ferret somatic cells.

Am J Physiol Lung Cell Mol Physiol 2020 Feb 19. Epub 2020 Feb 19.

Medicine, University of Southern California, United States.

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http://dx.doi.org/10.1152/ajplung.00456.2019DOI Listing
February 2020

Data-adaptive multi-locus association testing in subjects with arbitrary genealogical relationships.

Stat Appl Genet Mol Biol 2019 04 8;18(3). Epub 2019 Apr 8.

Department of Health Research and Policy, Stanford University School of Medicine, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1515/sagmb-2018-0030DOI Listing
April 2019

Novel Lines of Evidence for the Asymmetric Strand Displacement Model of Mitochondrial DNA Replication.

Authors:
Chih-Lin Hsieh

Mol Cell Biol 2019 01 3;39(2). Epub 2019 Jan 3.

Norris Comprehensive Cancer Center, University of Southern California, Los Angeles, California, USA

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http://mcb.asm.org/lookup/doi/10.1128/MCB.00406-18
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http://dx.doi.org/10.1128/MCB.00406-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6321883PMC
January 2019

Effect of CpG dinucleotides within IgH switch region repeats on immunoglobulin class switch recombination.

Mol Immunol 2015 Aug 18;66(2):284-9. Epub 2015 Apr 18.

USC Norris Comprehensive Cancer Center, Molecular and Computational Biology Program, Department of Biological Sciences; Departments of Pathology, Biochemistry and Molecular Biology, Molecular Microbiology and Immunology, Urology, University of Southern California Keck School of Medicine, 1441 Eastlake Ave., Rm. 5428, Los Angeles, CA 90089-9176, United States. Electronic address:

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http://dx.doi.org/10.1016/j.molimm.2015.04.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4461542PMC
August 2015

Human lymphoid translocation fragile zones are hypomethylated and have accessible chromatin.

Mol Cell Biol 2015 Apr 26;35(7):1209-22. Epub 2015 Jan 26.

USC Norris Comprehensive Cancer Ctr., Los Angeles, California, USA

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http://dx.doi.org/10.1128/MCB.01085-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4355534PMC
April 2015

Complexities due to single-stranded RNA during antibody detection of genomic rna:dna hybrids.

BMC Res Notes 2015 Apr 8;8:127. Epub 2015 Apr 8.

USC Norris Comprehensive Cancer Ctr. Molecular and Computational Biology Program, Department of Biological Sciences, University of Southern California Keck School of Medicine, 1441 Eastlake Ave., Rm. 5428, Los Angeles, CA, 90089-9176, USA.

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http://dx.doi.org/10.1186/s13104-015-1092-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4393563PMC
April 2015

Sensitivity and specificity of immunoprecipitation of DNA containing 5-Methylcytosine.

BMC Res Notes 2015 Mar 27;8:102. Epub 2015 Mar 27.

Department of Urology and Department of Biochemistry, University of Southern California, 1441 Eastlake Ave., Rm 5420, Norris Cancer Center, Los Angeles, CA, 90033, USA.

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http://dx.doi.org/10.1186/s13104-015-1069-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4379710PMC
March 2015

The role of G-density in switch region repeats for immunoglobulin class switch recombination.

Nucleic Acids Res 2014 Dec 6;42(21):13186-93. Epub 2014 Nov 6.

USC Norris Comprehensive Cancer Center, Molecular and Computational Biology Program, Departments of Biological Sciences; Pathology, Biochemistry & Molecular Biology; Molecular Microbiology & Immunology; Urology; University of Southern California Keck School of Medicine, 1441 Eastlake Ave., Rm. 5428, Los Angeles, CA 90089-9176, USA

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http://dx.doi.org/10.1093/nar/gku1100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4245955PMC
December 2014

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 10;8(2):557-69. Epub 2014 Jul 10.

USC Norris Comprehensive Cancer Center, University of Southern California, Los Angeles, CA 90033, USA; Molecular and Computational Biology Section, Department of Biological Sciences, USC Dornsife, University of Southern California, Los Angeles, CA 90033, USA; Departments of Pathology, Biochemistry & Molecular Biology, Molecular Microbiology & Immunology, and Urology, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.06.021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4118936PMC
July 2014

DNA ligase I is not essential for mammalian cell viability.

Cell Rep 2014 Apr 13;7(2):316-320. Epub 2014 Apr 13.

Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI 48824, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2014.03.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4593317PMC
April 2014

Reproducibility and reliability of SNP analysis using human cellular DNA at or near nanogram levels.

BMC Res Notes 2013 Dec 6;6:515. Epub 2013 Dec 6.

Department of Urology, University of Southern California, 1441 Eastlake Ave,,Rm 5420, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1186/1756-0500-6-515DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4029319PMC
December 2013

Regionally specific and genome-wide analyses conclusively demonstrate the absence of CpG methylation in human mitochondrial DNA.

Mol Cell Biol 2013 Jul 13;33(14):2683-90. Epub 2013 May 13.

Molecular and Computational Biology Section, Department of Biological Sciences, University of Southern California, Los Angeles, California, USA

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http://dx.doi.org/10.1128/MCB.00220-13DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3700126PMC
July 2013

Large chromosome deletions, duplications, and gene conversion events accumulate with age in normal human colon crypts.

Aging Cell 2013 Apr 11;12(2):269-79. Epub 2013 Mar 11.

USC Norris Comprehensive Cancer Center, University of Southern California Keck School of Medicine, 1441 Eastlake Ave., MC9176, Los Angeles, CA 90089, USA.

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http://doi.wiley.com/10.1111/acel.12053
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http://dx.doi.org/10.1111/acel.12053DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5706647PMC
April 2013

Heterogeneity and randomness of DNA methylation patterns in human embryonic stem cells.

DNA Cell Biol 2012 Jun 25;31(6):893-907. Epub 2012 Jan 25.

Department of Biochemistry and Molecular Biology, Norris Cancer Center, University of Southern California, Los Angeles, California 90033, USA.

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http://dx.doi.org/10.1089/dna.2011.1477DOI Listing
June 2012

Q-PCR in combination with ChIP assays to detect changes in chromatin acetylation.

Methods Mol Biol 2011 ;791:213-23

Department of Urology, University of Southern California, Los Angeles, CA, USA.

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http://dx.doi.org/10.1007/978-1-61779-316-5_16DOI Listing
December 2011

Polarized secretion of PEDF from human embryonic stem cell-derived RPE promotes retinal progenitor cell survival.

Invest Ophthalmol Vis Sci 2011 Mar 1;52(3):1573-85. Epub 2011 Mar 1.

Department of Pathology, Keck School of Medicine, University of Southern California, Los Angeles, California 90089, USA.

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http://dx.doi.org/10.1167/iovs.10-6413DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4183377PMC
March 2011

Transcriptional activity affects the H3K4me3 level and distribution in the coding region.

Mol Cell Biol 2010 Jun 19;30(12):2933-46. Epub 2010 Apr 19.

Department of Urology, University of Southern California, Los Angeles, California, USA.

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http://dx.doi.org/10.1128/MCB.01478-09DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2876678PMC
June 2010

Human chromosomal translocations at CpG sites and a theoretical basis for their lineage and stage specificity.

Cell 2008 Dec;135(6):1130-42

Norris Comprehensive Cancer Center, University of Southern California Keck School of Medicine, 1441 Eastlake Avenue, MC9176, Los Angeles, CA 90089-9176, USA.

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http://dx.doi.org/10.1016/j.cell.2008.10.035DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2642632PMC
December 2008

Germline competent embryonic stem cells derived from rat blastocysts.

Cell 2008 Dec;135(7):1299-310

Eli and Edythe Broad Center for Regenerative Medicine and Stem Cell Research at USC, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA.

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http://linkinghub.elsevier.com/retrieve/pii/S009286740801567
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http://dx.doi.org/10.1016/j.cell.2008.12.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2735113PMC
December 2008

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

Department of Molecular Microbiology and Immunology, USC Norris Cell and Tissue Imaging Core, USC/Norris Comprehensive Cancer Center, Keck School of Medicine at USC, Los Angeles, CA, USA.

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http://dx.doi.org/10.1002/pmic.200700931DOI Listing
May 2008

Sequence dependence of chromosomal R-loops at the immunoglobulin heavy-chain Smu class switch region.

Mol Cell Biol 2007 Aug 11;27(16):5921-32. Epub 2007 Jun 11.

Department of Pathology, University of Southern California Keck School of Medicine, Los Angeles, California 90089-9176, USA.

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http://dx.doi.org/10.1128/MCB.00702-07DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1952116PMC
August 2007

DNA methylation dictates histone H3K4 methylation.

Mol Cell Biol 2007 Apr 22;27(7):2746-57. Epub 2007 Jan 22.

Department of Urology, University of Southern California, Norris Cancer Center, 1441 Eastlake Avenue, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1128/MCB.02291-06DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1899905PMC
April 2007

Pooled genome linkage scan of aggressive prostate cancer: results from the International Consortium for Prostate Cancer Genetics.

Hum Genet 2006 Nov 25;120(4):471-85. Epub 2006 Aug 25.

Harwick 7, Mayo Clinic College of Medicine, Rochester, MN 55905, USA.

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http://dx.doi.org/10.1007/s00439-006-0219-9DOI Listing
November 2006

Analysis of non-B DNA structure at chromosomal sites in the mammalian genome.

Methods Enzymol 2006 ;409:301-16

Department of Pathology, University of Southern California, Keck School of Medicine, Los Angeles, USA.

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http://dx.doi.org/10.1016/S0076-6879(05)09017-8DOI Listing
August 2006

TNFalpha induces chromosomal abnormalities independent of ROS through IKK, JNK, p38 and caspase pathways.

Cytokine 2006 Apr 24;34(1-2):39-50. Epub 2006 May 24.

Department of Molecular Microbiology and Immunology, USC/Norris Comprehensive Cancer Center, Keck School of Medicine at USC, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1016/j.cyto.2006.03.015DOI Listing
April 2006

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 17;103(13):5030-5. Epub 2006 Mar 17.

Department of Pathology, University of Southern California Keck School of Medicine, 1441 Eastlake Avenue, MC9176, Los Angeles, CA 90089-9176, USA.

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http://dx.doi.org/10.1073/pnas.0506548103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1458789PMC
March 2006

Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2.

Science 2006 Jan;311(5759):395-8

Department of Genetics and Development, College of Physicians and Surgeons, Columbia University, New York, NY 10032, USA.

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http://dx.doi.org/10.1126/science.1120976DOI Listing
January 2006

Physical and functional interactions between the human DNMT3L protein and members of the de novo methyltransferase family.

J Cell Biochem 2005 Aug;95(5):902-17

Division of Biology, Beckman Research Institute of the City of Hope, Duarte, California 91010, USA.

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http://dx.doi.org/10.1002/jcb.20447DOI Listing
August 2005

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 29;77(2):219-29. Epub 2005 Jun 29.

Center for Human Genomics, Wake Forest University School of Medicine, Winston-Salem, NC, USA.

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http://dx.doi.org/10.1086/432377DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1224525PMC
August 2005

Evidence for a triplex DNA conformation at the bcl-2 major breakpoint region of the t(14;18) translocation.

J Biol Chem 2005 Jun 18;280(24):22749-60. Epub 2005 Apr 18.

Norris Comprehensive Cancer Center, Zilka Neurogenetics Institute, University of Southern California Keck School of Medicine, Los Angeles, 90033, USA.

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http://dx.doi.org/10.1074/jbc.M502952200DOI Listing
June 2005

The de novo methylation activity of Dnmt3a is distinctly different than that of Dnmt1.

Authors:
Chih-Lin Hsieh

BMC Biochem 2005 Mar 30;6. Epub 2005 Mar 30.

Department of Urology, University of Southern California, 1441 Eastlake Ave,, Rm 5420, Norris Cancer Center, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1186/1471-2091-6-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1084342PMC
March 2005

Generation and characterization of endonuclease G null mice.

Mol Cell Biol 2005 Jan;25(1):294-302

Norris Comprehensive Cancer Center, Rm. 5428, Keck School of Medicine, University of Southern California, 1441 Eastlake Ave., MC9176, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1128/MCB.25.1.294-302.2005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC538798PMC
January 2005

A biochemically defined system for mammalian nonhomologous DNA end joining.

Mol Cell 2004 Dec;16(5):701-13

University of Southern California Norris Comprehensive Cancer Center, Room 5428, Department of Pathology, University of Southern California Keck School, of Medicine, 1441 Eastlake Avenue, MC9176, Los Angeles, California 90033, USA.

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http://dx.doi.org/10.1016/j.molcel.2004.11.017DOI Listing
December 2004

Q-PCR in combination with ChIP assays to detect changes in chromatin acetylation.

Methods Mol Biol 2004 ;287:45-52

Department of Urology, University of Southern California, Los Angeles, CA, USA.

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http://dx.doi.org/10.1385/1-59259-828-5:045DOI Listing
October 2004

Inhibition of lipopolysaccharide-stimulated TNF-alpha promoter activity by S-adenosylmethionine and 5'-methylthioadenosine.

Am J Physiol Gastrointest Liver Physiol 2004 Aug 2;287(2):G352-62. Epub 2004 Apr 2.

Keck School of Medicine of the Univ. of Southern California, 1333 San Pablo St., MMR-402, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1152/ajpgi.00316.2003DOI Listing
August 2004

A non-B-DNA structure at the Bcl-2 major breakpoint region is cleaved by the RAG complex.

Nature 2004 Mar;428(6978):88-93

Norris Comprehensive Cancer Center, Room 5428, University of Southern California Keck School of Medicine, 1441 Eastlake Ave., MC9176, Los Angeles, California 90033, USA.

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http://dx.doi.org/10.1038/nature02355DOI Listing
March 2004

Developmental retinal apoptosis in Ku86-/- mice.

DNA Repair (Amst) 2003 Dec;2(12):1429-34

Norris Comprehensive Cancer Center, Room 5428, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089-9176, USA.

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http://dx.doi.org/10.1016/j.dnarep.2003.08.011DOI Listing
December 2003

Meddling with methylation.

Nat Cell Biol 2003 Jun;5(6):502-4

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http://dx.doi.org/10.1038/ncb0603-502DOI Listing
June 2003

R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells.

Nat Immunol 2003 May;4(5):442-51

USC Norris Comprehensive Cancer Center, Room 5428, University of Southern California Keck School of Medicine, 1441 Eastlake Avenue, MC 9176, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1038/ni919DOI Listing
May 2003

Overexpression of Cu/Zn superoxide dismutase is lethal for mice lacking double-strand break repair.

DNA Repair (Amst) 2003 Mar;2(3):285-94

Department of Pathology, USC Norris Comprehensive Cancer Center, Rm 5428, Keck School of Medicine, University of Southern California, 1441 Eastlake Ave, MC9176, Los Angeles, CA 90089-9176, USA.

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http://dx.doi.org/10.1016/s1568-7864(02)00218-5DOI Listing
March 2003

The DNA methyltransferase-like protein DNMT3L stimulates de novo methylation by Dnmt3a.

Proc Natl Acad Sci U S A 2002 Dec 12;99(26):16916-21. Epub 2002 Dec 12.

Departments of Pathology, Biochemistry and Molecular Biology, and Urology, Norris Comprehensive Cancer Center, Room 5420, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.262443999
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http://dx.doi.org/10.1073/pnas.262443999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC139244PMC
December 2002

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;1(12):1017-26

Norris Comprehensive Cancer Center, Rm 5428, Department of Pathology, University of Southern California, Keck School of Medicine, 1441 Eastlake Avenue, Los Angeles, CA 90033, USA.

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http://dx.doi.org/10.1016/s1568-7864(02)00151-9DOI Listing
December 2002

Loss of imprinting in colorectal cancer linked to hypomethylation of H19 and IGF2.

Cancer Res 2002 Nov;62(22):6442-6

Institute of Genetic Medicine and Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

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November 2002

DNA methylation has a local effect on transcription and histone acetylation.

Mol Cell Biol 2002 Oct;22(19):6689-96

Department of Urology, University of Southern California-Norris Cancer Center, Los Angeles 90033, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC134040PMC
http://dx.doi.org/10.1128/mcb.22.19.6689-6696.2002DOI Listing
October 2002

Oxygen metabolism causes chromosome breaks and is associated with the neuronal apoptosis observed in DNA double-strand break repair mutants.

Curr Biol 2002 Mar;12(5):397-402

Department of Pathology, Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles 90089-9176, USA.

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http://dx.doi.org/10.1016/s0960-9822(02)00684-xDOI Listing
March 2002

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

Department of Urology, University of Southern California, Norris Cancer Center, Los Angeles, California 90033, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC133553PMC
http://dx.doi.org/10.1128/mcb.22.3.704-723.2002DOI Listing
February 2002