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David Jay Segal

TitlePROF-HCOMP
InstitutionUniversity of California Davis
DepartmentBiochemistry and Molecular Medicine
Address4512 GBSF
CA 95616
Phone530-754-9134
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    Collapse Research 
    Collapse Research Activities and Funding
    Precision Nonhuman Primate Models for Congenital Diseases
    NIH/NINDS R21NS104675Apr 15, 2018 - Mar 31, 2020
    Role: Co-Principal Investigator
    CRISPR-based epigenetic modifiers
    NIH/NCI R21CA204563Jun 15, 2016 - May 31, 2018
    Role: Principal Investigator
    NextGen DNA Binding Proteins Based on TAL Domains
    NIH/NIGMS R01GM097073Apr 1, 2011 - Mar 31, 2015
    Role: Principal Investigator
    Towards Gene Therapy for Angelman Syndrome
    NIH/NINDS R21NS071028Sep 15, 2010 - Aug 31, 2012
    Role: Principal Investigator
    SEER - a novel method for the detection of genetic sequences
    NIH/NIGMS R01GM077403Jun 1, 2006 - May 31, 2011
    Role: Principal Investigator
    Inactivation of HIV by in vivo genetic modification
    NIH/NCI R21CA103651Jul 1, 2003 - Jun 30, 2007
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
    List All   |   Timeline
    1. Ren C, Xu K, Segal DJ, Zhang Z. Strategies for the Enrichment and Selection of Genetically Modified Cells. Trends Biotechnol. 2018 Aug 19. PMID: 30135027.
      View in: PubMed
    2. Ha DT, Ghosh S, Ahn CH, Segal DJ, Kim MS. Pathogen-specific DNA sensing with engineered zinc finger proteins immobilized on a polymer chip. Analyst. 2018 Jul 25. PMID: 30043772.
      View in: PubMed
    3. Coggins NB, Stultz J, O'Geen H, Carvajal-Carmona LG, Segal DJ. Author Correction: Methods for Scarless, Selection-Free Generation of Human Cells and Allele-Specific Functional Analysis of Disease-Associated SNPs and Variants of Uncertain Significance. Sci Rep. 2018 Apr 12; 8(1):6140. PMID: 29643450.
      View in: PubMed
    4. O'Geen H, Ren C, Coggins NB, Bates SL, Segal DJ. Unexpected binding behaviors of bacterial Argonautes in human cells cast doubts on their use as targetable gene regulators. PLoS One. 2018; 13(3):e0193818. PMID: 29584750.
      View in: PubMed
    5. Ren C, Adams AN, Pyles B, Bailus BJ, O'Geen H, Segal DJ. In Vivo Applications of Cell-Penetrating Zinc-Finger Transcription Factors. Methods Mol Biol. 2018; 1867:239-251. PMID: 30155828.
      View in: PubMed
    6. Pyles B, Bailus BJ, O'Geen H, Segal DJ. Purified Protein Delivery to Activate an Epigenetically Silenced Allele in Mouse Brain. Methods Mol Biol. 2018; 1767:227-239. PMID: 29524138.
      View in: PubMed
    7. Coggins NB, Stultz J, O'Geen H, Carvajal-Carmona LG, Segal DJ. Methods for Scarless, Selection-Free Generation of Human Cells and Allele-Specific Functional Analysis of Disease-Associated SNPs and Variants of Uncertain Significance. Sci Rep. 2017 Nov 08; 7(1):15044. PMID: 29118424.
      View in: PubMed
    8. Lopez SJ, Dunaway K, Islam MS, Mordaunt C, Vogel Ciernia A, Meguro-Horike M, Horike SI, Segal DJ, LaSalle JM. UBE3A-mediated regulation of imprinted genes and epigenome-wide marks in human neurons. Epigenetics. 2017; 12(11):982-990. PMID: 28925810.
      View in: PubMed
    9. O'Geen H, Ren C, Nicolet CM, Perez AA, Halmai J, Le VM, Mackay JP, Farnham PJ, Segal DJ. dCas9-based epigenome editing suggests acquisition of histone methylation is not sufficient for target gene repression. Nucleic Acids Res. 2017 Sep 29; 45(17):9901-9916. PMID: 28973434.
      View in: PubMed
    10. Fink KD, Deng P, Gutierrez J, Anderson JS, Torrest A, Komarla A, Kalomoiris S, Cary W, Anderson JD, Gruenloh W, Duffy A, Tempkin T, Annett G, Wheelock V, Segal DJ, Nolta JA. Allele-Specific Reduction of the Mutant Huntingtin Allele Using Transcription Activator-Like Effectors in Human Huntington's Disease Fibroblasts. Cell Transplant. 2016; 25(4):677-86. PMID: 26850319.
      View in: PubMed
    11. Tak YG, Hung Y, Yao L, Grimmer MR, Do A, Bhakta MS, O'Geen H, Segal DJ, Farnham PJ. Effects on the transcriptome upon deletion of a distal element cannot be predicted by the size of the H3K27Ac peak in human cells. Nucleic Acids Res. 2016 05 19; 44(9):4123-33. PMID: 26743005; PMCID: PMC4872074.
    12. Bailus BJ, Pyles B, McAlister MM, O'Geen H, Lockwood SH, Adams AN, Nguyen JT, Yu A, Berman RF, Segal DJ. Protein Delivery of an Artificial Transcription Factor Restores Widespread Ube3a Expression in an Angelman Syndrome Mouse Brain. Mol Ther. 2016 Mar; 24(3):548-55. PMID: 26727042; PMCID: PMC4786922.
    13. O'Geen H, Yu AS, Segal DJ. How specific is CRISPR/Cas9 really? Curr Opin Chem Biol. 2015 Dec; 29:72-8. PMID: 26517564; PMCID: PMC4684463 [Available on 12/01/16].
    14. Frank AK, Tran DC, Qu RW, Stohr BA, Segal DJ, Xu L. The Shelterin TIN2 Subunit Mediates Recruitment of Telomerase to Telomeres. PLoS Genet. 2015 Jul; 11(7):e1005410. PMID: 26230315; PMCID: PMC4521702.
    15. O'Geen H, Henry IM, Bhakta MS, Meckler JF, Segal DJ. A genome-wide analysis of Cas9 binding specificity using ChIP-seq and targeted sequence capture. Nucleic Acids Res. 2015 Mar 31; 43(6):3389-404. PMID: 25712100; PMCID: PMC4381059.
    16. Rader C, Segal DJ, Shabat D. Carlos F. Barbas III (1964-2014): Visionary at the interface of chemistry and biology. ACS Chem Biol. 2014 Aug 15; 9(8):1645-6. PMID: 25123302.
      View in: PubMed
    17. Barrilleaux BL, Burow D, Lockwood SH, Yu A, Segal DJ, Knoepfler PS. Miz-1 activates gene expression via a novel consensus DNA binding motif. PLoS One. 2014; 9(7):e101151. PMID: 24983942; PMCID: PMC4077741.
    18. Lockwood SH, Guan A, Yu AS, Zhang C, Zykovich A, Korf I, Rannala B, Segal DJ. The functional significance of common polymorphisms in zinc finger transcription factors. G3 (Bethesda). 2014 Jun 26; 4(9):1647-55. PMID: 24970883; PMCID: PMC4169156.
    19. Johnson LM, Du J, Hale CJ, Bischof S, Feng S, Chodavarapu RK, Zhong X, Marson G, Pellegrini M, Segal DJ, Patel DJ, Jacobsen SE. SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation. Nature. 2014 03 06; 507(7490):124-128. PMID: 24463519; PMCID: PMC3963826.
    20. Lei H, Sun J, Baldwin EP, Segal DJ, Duan Y. Conformational elasticity can facilitate TALE-DNA recognition. Adv Protein Chem Struct Biol. 2014; 94:347-64. PMID: 24629191; PMCID: PMC4334902.
    21. Owens JB, Mauro D, Stoytchev I, Bhakta MS, Kim MS, Segal DJ, Moisyadi S. Transcription activator like effector (TALE)-directed piggyBac transposition in human cells. Nucleic Acids Res. 2013 Oct; 41(19):9197-207. PMID: 23921635.
      View in: PubMed
    22. Segal DJ, Meckler JF. Genome engineering at the dawn of the golden age. Annu Rev Genomics Hum Genet. 2013; 14:135-58. PMID: 23701416.
      View in: PubMed
    23. Vandevenne M, Jacques DA, Artuz C, Nguyen CD, Kwan AH, Segal DJ, Matthews JM, Crossley M, Guss JM, Mackay JP. New insights into DNA recognition by zinc fingers revealed by structural analysis of the oncoprotein ZNF217. J Biol Chem. 2013 Apr 12; 288(15):10616-27. PMID: 23436653; PMCID: PMC3624442.
    24. Meckler JF, Bhakta MS, Kim MS, Ovadia R, Habrian CH, Zykovich A, Yu A, Lockwood SH, Morbitzer R, Elsäesser J, Lahaye T, Segal DJ, Baldwin EP. Quantitative analysis of TALE-DNA interactions suggests polarity effects. Nucleic Acids Res. 2013 Apr; 41(7):4118-28. PMID: 23408851; PMCID: PMC3627578.
    25. Segal DJ. Bacteria herald a new era of gene editing. Elife. 2013 Jan 29; 2:e00563. PMID: 23386979; PMCID: PMC3557904.
    26. Bhakta MS, Henry IM, Ousterout DG, Das KT, Lockwood SH, Meckler JF, Wallen MC, Zykovich A, Yu Y, Leo H, Xu L, Gersbach CA, Segal DJ. Highly active zinc-finger nucleases by extended modular assembly. Genome Res. 2013 Mar; 23(3):530-8. PMID: 23222846; PMCID: PMC3589541.
    27. Segal DJ. Beyond the genome and into the clinic. Genome Med. 2012; 4(10):78. PMID: 23114014; PMCID: PMC3580447.
    28. Shimizu Y, Söllü C, Meckler JF, Adriaenssens A, Zykovich A, Cathomen T, Segal DJ. Adding fingers to an engineered zinc finger nuclease can reduce activity. Biochemistry. 2011 Jun 07; 50(22):5033-41. PMID: 21528840; PMCID: PMC3110833.
    29. Kim MS, Stybayeva G, Lee JY, Revzin A, Segal DJ. A zinc finger protein array for the visual detection of specific DNA sequences for diagnostic applications. Nucleic Acids Res. 2011 Mar; 39(5):e29. PMID: 21134909; PMCID: PMC3061069.
    30. Bhakta MS, Segal DJ. The generation of zinc finger proteins by modular assembly. Methods Mol Biol. 2010; 649:3-30. PMID: 20680825; PMCID: PMC4323424.
    31. Zykovich A, Korf I, Segal DJ. Bind-n-Seq: high-throughput analysis of in vitro protein-DNA interactions using massively parallel sequencing. Nucleic Acids Res. 2009 Dec; 37(22):e151. PMID: 19843614; PMCID: PMC2794170.
    32. Shimizu Y, Bhakta MS, Segal DJ. Restricted spacer tolerance of a zinc finger nuclease with a six amino acid linker. Bioorg Med Chem Lett. 2009 Jul 15; 19(14):3970-2. PMID: 19289279; PMCID: PMC2709702.
    33. Camenisch TD, Brilliant MH, Segal DJ. Critical parameters for genome editing using zinc finger nucleases. Mini Rev Med Chem. 2008 Jun; 8(7):669-76. PMID: 18537722.
      View in: PubMed
    34. Brayer KJ, Kulshreshtha S, Segal DJ. The protein-binding potential of C2H2 zinc finger domains. Cell Biochem Biophys. 2008; 51(1):9-19. PMID: 18286240.
      View in: PubMed
    35. Brayer KJ, Segal DJ. Keep your fingers off my DNA: protein-protein interactions mediated by C2H2 zinc finger domains. Cell Biochem Biophys. 2008; 50(3):111-31. PMID: 18253864.
      View in: PubMed
    36. Cathomen T, Segal DJ, Brondani V, Müller-Lerch F. Generation and functional analysis of zinc finger nucleases. Methods Mol Biol. 2008; 434:277-90. PMID: 18470651.
      View in: PubMed
    37. Szczepek M, Brondani V, Büchel J, Serrano L, Segal DJ, Cathomen T. Structure-based redesign of the dimerization interface reduces the toxicity of zinc-finger nucleases. Nat Biotechnol. 2007 Jul; 25(7):786-93. PMID: 17603476.
      View in: PubMed
    38. Gommans WM, McLaughlin PM, Lindhout BI, Segal DJ, Wiegman DJ, Haisma HJ, van der Zaal BJ, Rots MG. Engineering zinc finger protein transcription factors to downregulate the epithelial glycoprotein-2 promoter as a novel anti-cancer treatment. Mol Carcinog. 2007 May; 46(5):391-401. PMID: 17186549.
      View in: PubMed
    39. Ghosh I, Stains CI, Ooi AT, Segal DJ. Direct detection of double-stranded DNA: Molecular methods and applications for DNA diagnostics. Mol Biosyst. 2006 Nov; 2(11):551-60. PMID: 17216036.
      View in: PubMed
    40. Segal DJ, Crotty JW, Bhakta MS, Barbas CF, Horton NC. Structure of Aart, a designed six-finger zinc finger peptide, bound to DNA. J Mol Biol. 2006 Oct 20; 363(2):405-21. PMID: 16963084.
      View in: PubMed
    41. Stains CI, Furman JL, Segal DJ, Ghosh I. Site-specific detection of DNA methylation utilizing mCpG-SEER. J Am Chem Soc. 2006 Aug 02; 128(30):9761-5. PMID: 16866532.
      View in: PubMed
    42. Ooi AT, Stains CI, Ghosh I, Segal DJ. Sequence-enabled reassembly of beta-lactamase (SEER-LAC): a sensitive method for the detection of double-stranded DNA. Biochemistry. 2006 Mar 21; 45(11):3620-5. PMID: 16533044; PMCID: PMC2688710.
    43. Eberhardy SR, Goncalves J, Coelho S, Segal DJ, Berkhout B, Barbas CF. Inhibition of human immunodeficiency virus type 1 replication with artificial transcription factors targeting the highly conserved primer-binding site. J Virol. 2006 Mar; 80(6):2873-83. PMID: 16501096; PMCID: PMC1395442.
    44. Alwin S, Gere MB, Guhl E, Effertz K, Barbas CF, Segal DJ, Weitzman MD, Cathomen T. Custom zinc-finger nucleases for use in human cells. Mol Ther. 2005 Oct; 12(4):610-7. PMID: 16039907.
      View in: PubMed
    45. Dreier B, Fuller RP, Segal DJ, Lund CV, Blancafort P, Huber A, Koksch B, Barbas CF. Development of zinc finger domains for recognition of the 5'-CNN-3' family DNA sequences and their use in the construction of artificial transcription factors. J Biol Chem. 2005 Oct 21; 280(42):35588-97. PMID: 16107335.
      View in: PubMed
    46. Crotty JW, Etzkorn C, Barbas CF, Segal DJ, Horton NC. Crystallization and preliminary X-ray crystallographic analysis of Aart, a designed six-finger zinc-finger peptide, bound to DNA. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 Jun 01; 61(Pt 6):573-6. PMID: 16511099; PMCID: PMC1952332.
    47. Blancafort P, Segal DJ, Barbas CF. Designing transcription factor architectures for drug discovery. Mol Pharmacol. 2004 Dec; 66(6):1361-71. PMID: 15340042.
      View in: PubMed
    48. Tan W, Zhu K, Segal DJ, Barbas CF, Chow SA. Fusion proteins consisting of human immunodeficiency virus type 1 integrase and the designed polydactyl zinc finger protein E2C direct integration of viral DNA into specific sites. J Virol. 2004 Feb; 78(3):1301-13. PMID: 14722285; PMCID: PMC321411.
    49. Segal DJ, Gonçalves J, Eberhardy S, Swan CH, Torbett BE, Li X, Barbas CF. Attenuation of HIV-1 replication in primary human cells with a designed zinc finger transcription factor. J Biol Chem. 2004 Apr 09; 279(15):14509-19. PMID: 14734553.
      View in: PubMed
    50. Segal DJ, Stege JT, Barbas CF. Zinc fingers and a green thumb: manipulating gene expression in plants. Curr Opin Plant Biol. 2003 Apr; 6(2):163-8. PMID: 12667874.
      View in: PubMed
    51. Segal DJ, Beerli RR, Blancafort P, Dreier B, Effertz K, Huber A, Koksch B, Lund CV, Magnenat L, Valente D, Barbas CF. Evaluation of a modular strategy for the construction of novel polydactyl zinc finger DNA-binding proteins. Biochemistry. 2003 Feb 25; 42(7):2137-48. PMID: 12590603.
      View in: PubMed
    52. Segal DJ. The use of zinc finger peptides to study the role of specific factor binding sites in the chromatin environment. Methods. 2002 Jan; 26(1):76-83. PMID: 12054906.
      View in: PubMed