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    James Posakony

    TitleProfessor
    SchoolUniversity of California, San Diego
    DepartmentCell and Developmental Biology
    Address9500 Gilman Drive #0349
    CA La Jolla 92093
    Phone858-534-6300
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      Collapse Research 
      Collapse Research Activities and Funding
      Functional Architecture of Developmental Cis-Regulatory Modules
      NIH/NIGMS R01GM120377May 15, 2017 - Feb 28, 2021
      Role: Principal Investigator
      THE NOTCH SIGNALING PATHWAY: STRUCTURE AND MECHANISM
      NIH/NIGMS R01GM075270Aug 1, 2005 - Jul 31, 2010
      Role: Principal Investigator
      Cell Fate--The Specification/Differentiation Interface
      NIH/NIGMS R01GM062279Jul 1, 2001 - Jun 30, 2005
      Role: Principal Investigator
      Molecular Genetics of Sensory Organ Development
      NIH/NIGMS R01GM046993Feb 1, 1992 - Jun 30, 2016
      Role: Principal Investigator
      TRANSCRIPTIONAL CONTROL IN EMBRYONIC PATTERN FORMATION
      NIH/NIGMS R01GM041100Aug 1, 1988 - Jul 31, 1994
      Role: Principal Investigator
      THE REGULATED EXPRESSION OF THE DROSOPHILA ADH GENE
      NIH/NIGMS R01GM035246Aug 1, 1985 - Jul 31, 1988
      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.
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      1. Smith AF, Posakony J, Rebeiz M. Automated tools for comparative sequence analysis of genic regions using the GenePalette application. Dev Biol. 2017 Sep 01; 429(1):158-164. PMID: 28673819.
        View in: PubMed
      2. Miller SW, Rebeiz M, Atanasov JE, Posakony J. Neural precursor-specific expression of multiple Drosophila genes is driven by dual enhancer modules with overlapping function. Proc Natl Acad Sci U S A. 2014 Dec 2; 111(48):17194-9. PMID: 25404315.
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      3. Liu F, Posakony J. An enhancer composed of interlocking submodules controls transcriptional autoregulation of suppressor of hairless. Dev Cell. 2014 Apr 14; 29(1):88-101. PMID: 24735880.
        View in: PubMed
      4. Liu F, Posakony J. Role of architecture in the function and specificity of two Notch-regulated transcriptional enhancer modules. PLoS Genet. 2012 Jul; 8(7):e1002796. PMID: 22792075.
        View in: PubMed
      5. Rebeiz M, Castro B, Liu F, Yue F, Posakony J. Ancestral and conserved cis-regulatory architectures in developmental control genes. Dev Biol. 2012 Feb 15; 362(2):282-94. PMID: 22185795.
        View in: PubMed
      6. Hirono K, Margolis JS, Posakony J, Doe CQ. Identification of hunchback cis-regulatory DNA conferring temporal expression in neuroblasts and neurons. Gene Expr Patterns. 2012 Jan-Feb; 12(1-2):11-7. PMID: 22033538.
        View in: PubMed
      7. Nègre N, Brown CD, Ma L, Bristow CA, Miller SW, Wagner U, Kheradpour P, Eaton ML, Loriaux P, Sealfon R, Li Z, Ishii H, Spokony RF, Chen J, Hwang L, Cheng C, Auburn RP, Davis MB, Domanus M, Shah PK, Morrison CA, Zieba J, Suchy S, Senderowicz L, Victorsen A, Bild NA, Grundstad AJ, Hanley D, MacAlpine DM, Mannervik M, Venken K, Bellen H, White R, Gerstein M, Russell S, Grossman RL, Ren B, Posakony J, Kellis M, White KP. A cis-regulatory map of the Drosophila genome. Nature. 2011 Mar 24; 471(7339):527-31. PMID: 21430782.
        View in: PubMed
      8. Zhou D, Udpa N, Gersten M, Visk DW, Bashir A, Xue J, Frazer KA, Posakony J, Subramaniam S, Bafna V, Haddad GG. Experimental selection of hypoxia-tolerant Drosophila melanogaster. Proc Natl Acad Sci U S A. 2011 Feb 8; 108(6):2349-54. PMID: 21262834.
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      9. Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science. 2010 Dec 24; 330(6012):1787-97. PMID: 21177974.
        View in: PubMed
      10. Rebeiz M, Miller SW, Posakony J. Notch regulates numb: integration of conditional and autonomous cell fate specification. Development. 2011 Jan; 138(2):215-25. PMID: 21148185.
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      11. Fontana JR, Posakony J. Both inhibition and activation of Notch signaling rely on a conserved Neuralized-binding motif in Bearded proteins and the Notch ligand Delta. Dev Biol. 2009 Sep 15; 333(2):373-85. PMID: 19580805.
        View in: PubMed
      12. Miller SW, Avidor-Reiss T, Polyanovsky A, Posakony J. Complex interplay of three transcription factors in controlling the tormogen differentiation program of Drosophila mechanoreceptors. Dev Biol. 2009 May 15; 329(2):386-99. PMID: 19232522.
        View in: PubMed
      13. Tsai YC, Yao JG, Chen PH, Posakony J, Barolo S, Kim J, Sun YH. Upd/Jak/STAT signaling represses wg transcription to allow initiation of morphogenetic furrow in Drosophila eye development. Dev Biol. 2007 Jun 15; 306(2):760-71. PMID: 17498684.
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      14. Ocorr K, Reeves NL, Wessells RJ, Fink M, Chen HS, Akasaka T, Yasuda S, Metzger JM, Giles W, Posakony J, Bodmer R. KCNQ potassium channel mutations cause cardiac arrhythmias in Drosophila that mimic the effects of aging. Proc Natl Acad Sci U S A. 2007 Mar 6; 104(10):3943-8. PMID: 17360457.
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      15. Castro B, Barolo S, Bailey AM, Posakony J. Lateral inhibition in proneural clusters: cis-regulatory logic and default repression by Suppressor of Hairless. Development. 2005 Aug; 132(15):3333-44. PMID: 15975935.
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      16. Rebeiz M, Stone T, Posakony J. An ancient transcriptional regulatory linkage. Dev Biol. 2005 May 15; 281(2):299-308. PMID: 15893980.
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      17. Reeves N, Posakony J. Genetic programs activated by proneural proteins in the developing Drosophila PNS. Dev Cell. 2005 Mar; 8(3):413-25. PMID: 15737936.
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      18. Rebeiz M, Posakony J. GenePalette: a universal software tool for genome sequence visualization and analysis. Dev Biol. 2004 Jul 15; 271(2):431-8. PMID: 15223345.
        View in: PubMed
      19. Barolo S, Castro B, Posakony J. New Drosophila transgenic reporters: insulated P-element vectors expressing fast-maturing RFP. Biotechniques. 2004 Mar; 36(3):436-40, 442. PMID: 15038159.
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      20. Barolo S, Stone T, Bang AG, Posakony J. Default repression and Notch signaling: Hairless acts as an adaptor to recruit the corepressors Groucho and dCtBP to Suppressor of Hairless. Genes Dev. 2002 Aug 1; 16(15):1964-76. PMID: 12154126.
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      21. Rebeiz M, Reeves NL, Posakony J. SCORE: a computational approach to the identification of cis-regulatory modules and target genes in whole-genome sequence data. Site clustering over random expectation. Proc Natl Acad Sci U S A. 2002 Jul 23; 99(15):9888-93. PMID: 12107285.
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      22. Barolo S, Posakony J. Three habits of highly effective signaling pathways: principles of transcriptional control by developmental cell signaling. Genes Dev. 2002 May 15; 16(10):1167-81. PMID: 12023297.
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      23. Barolo S, Walker RG, Polyanovsky AD, Freschi G, Keil T, Posakony J. A notch-independent activity of suppressor of hairless is required for normal mechanoreceptor physiology. Cell. 2000 Dec 8; 103(6):957-69. PMID: 11136980.
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      24. Barolo S, Carver LA, Posakony J. GFP and beta-galactosidase transformation vectors for promoter/enhancer analysis in Drosophila. Biotechniques. 2000 Oct; 29(4):726, 728, 730, 732. PMID: 11056799.
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      25. Lai EC, Bodner R, Posakony J. The enhancer of split complex of Drosophila includes four Notch-regulated members of the bearded gene family. Development. 2000 Aug; 127(16):3441-55. PMID: 10903170.
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      26. Lai EC, Bodner R, Kavaler J, Freschi G, Posakony J. Antagonism of notch signaling activity by members of a novel protein family encoded by the bearded and enhancer of split gene complexes. Development. 2000 Jan; 127(2):291-306. PMID: 10603347.
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      27. Nellesen DT, Lai EC, Posakony J. Discrete enhancer elements mediate selective responsiveness of enhancer of split complex genes to common transcriptional activators. Dev Biol. 1999 Sep 1; 213(1):33-53. PMID: 10452845.
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      28. Kavaler J, Fu W, Duan H, Noll M, Posakony J. An essential role for the Drosophila Pax2 homolog in the differentiation of adult sensory organs. Development. 1999 May; 126(10):2261-72. PMID: 10207150.
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      29. Posakony J. Birds on a wire and tiling the inner ear. Nat Genet. 1999 Mar; 21(3):253-4. PMID: 10080171.
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      30. Lai EC, Burks C, Posakony J. The K box, a conserved 3' UTR sequence motif, negatively regulates accumulation of enhancer of split complex transcripts. Development. 1998 Oct; 125(20):4077-88. PMID: 9735368.
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      31. Lai EC, Posakony J. Regulation of Drosophila neurogenesis by RNA:RNA duplexes? Cell. 1998 Jun 26; 93(7):1103-4. PMID: 9657143.
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      32. Lai EC, Posakony J. The Bearded box, a novel 3' UTR sequence motif, mediates negative post-transcriptional regulation of Bearded and Enhancer of split Complex gene expression. Development. 1997 Dec; 124(23):4847-56. PMID: 9428421.
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      33. Leviten MW, Lai EC, Posakony J. The Drosophila gene Bearded encodes a novel small protein and shares 3' UTR sequence motifs with multiple Enhancer of split complex genes. Development. 1997 Oct; 124(20):4039-51. PMID: 9374401.
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      34. Leviten MW, Posakony J. Gain-of-function alleles of Bearded interfere with alternative cell fate decisions in Drosophila adult sensory organ development. Dev Biol. 1996 Jun 15; 176(2):264-83. PMID: 8660866.
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      35. Gho M, Lecourtois M, Géraud G, Posakony J, Schweisguth F. Subcellular localization of Suppressor of Hairless in Drosophila sense organ cells during Notch signalling. Development. 1996 Jun; 122(6):1673-82. PMID: 8674407.
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      36. Bang AG, Bailey AM, Posakony J. Hairless promotes stable commitment to the sensory organ precursor cell fate by negatively regulating the activity of the Notch signaling pathway. Dev Biol. 1995 Dec; 172(2):479-94. PMID: 8612965.
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      37. Bailey AM, Posakony J. Suppressor of hairless directly activates transcription of enhancer of split complex genes in response to Notch receptor activity. Genes Dev. 1995 Nov 1; 9(21):2609-22. PMID: 7590239.
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      38. Margolis JS, Borowsky ML, Steingrímsson E, Shim CW, Lengyel JA, Posakony J. Posterior stripe expression of hunchback is driven from two promoters by a common enhancer element. Development. 1995 Sep; 121(9):3067-77. PMID: 7555732.
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      39. Schweisguth F, Nero P, Posakony J. The sequence similarity of the Drosophila suppressor of hairless protein to the integrase domain has no functional significance in vivo. Dev Biol. 1994 Dec; 166(2):812-4. PMID: 7813798.
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      40. Van Doren M, Bailey AM, Esnayra J, Ede K, Posakony J. Negative regulation of proneural gene activity: hairy is a direct transcriptional repressor of achaete. Genes Dev. 1994 Nov 15; 8(22):2729-42. PMID: 7958929.
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      41. Singson A, Leviten MW, Bang AG, Hua XH, Posakony J. Direct downstream targets of proneural activators in the imaginal disc include genes involved in lateral inhibitory signaling. Genes Dev. 1994 Sep 1; 8(17):2058-71. PMID: 7958878.
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      42. Schweisguth F, Posakony J. Antagonistic activities of Suppressor of Hairless and Hairless control alternative cell fates in the Drosophila adult epidermis. Development. 1994 Jun; 120(6):1433-41. PMID: 8050354.
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      43. Margolis JS, Borowsky M, Shim CW, Posakony J. A small region surrounding the distal promoter of the hunchback gene directs maternal expression. Dev Biol. 1994 Jun; 163(2):381-8. PMID: 8200478.
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      44. Posakony J. Nature versus nurture: asymmetric cell divisions in Drosophila bristle development. Cell. 1994 Feb 11; 76(3):415-8. PMID: 8313463.
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      45. Flegel WA, Singson AW, Margolis JS, Bang AG, Posakony J, Murre C. Dpbx, a new homeobox gene closely related to the human proto-oncogene pbx1 molecular structure and developmental expression. Mech Dev. 1993 May; 41(2-3):155-61. PMID: 8100142.
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      46. Van Doren M, Powell PA, Pasternak D, Singson A, Posakony J. Spatial regulation of proneural gene activity: auto- and cross-activation of achaete is antagonized by extramacrochaetae. Genes Dev. 1992 Dec; 6(12B):2592-605. PMID: 1340471.
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      47. Bang AG, Posakony J. The Drosophila gene Hairless encodes a novel basic protein that controls alternative cell fates in adult sensory organ development. Genes Dev. 1992 Sep; 6(9):1752-69. PMID: 1516831.
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      48. Schweisguth F, Posakony J. Suppressor of Hairless, the Drosophila homolog of the mouse recombination signal-binding protein gene, controls sensory organ cell fates. Cell. 1992 Jun 26; 69(7):1199-212. PMID: 1617730.
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      49. Van Doren M, Ellis HM, Posakony J. The Drosophila extramacrochaetae protein antagonizes sequence-specific DNA binding by daughterless/achaete-scute protein complexes. Development. 1991 Sep; 113(1):245-55. PMID: 1764999.
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      50. Bang AG, Hartenstein V, Posakony J. Hairless is required for the development of adult sensory organ precursor cells in Drosophila. Development. 1991 Jan; 111(1):89-104. PMID: 2015800.
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      51. Hartenstein V, Posakony J. A dual function of the Notch gene in Drosophila sensillum development. Dev Biol. 1990 Nov; 142(1):13-30. PMID: 2227090.
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      52. Ellis HM, Spann DR, Posakony J. extramacrochaetae, a negative regulator of sensory organ development in Drosophila, defines a new class of helix-loop-helix proteins. Cell. 1990 Apr 6; 61(1):27-38. PMID: 1690604.
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      53. Hartenstein V, Posakony J. Sensillum development in the absence of cell division: the sensillum phenotype of the Drosophila mutant string. Dev Biol. 1990 Mar; 138(1):147-58. PMID: 2106460.
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      54. Hartenstein V, Posakony J. Development of adult sensilla on the wing and notum of Drosophila melanogaster. Development. 1989 Oct; 107(2):389-405. PMID: 2517255.
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      55. Oro AE, Ong ES, Margolis JS, Posakony J, McKeown M, Evans RM. The Drosophila gene knirps-related is a member of the steroid-receptor gene superfamily. Nature. 1988 Dec 1; 336(6198):493-6. PMID: 2848202.
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      56. Posakony J, Fischer JA, Maniatis T. Identification of DNA sequences required for the regulation of Drosophila alcohol dehydrogenase gene expression. Cold Spring Harb Symp Quant Biol. 1985; 50:515-20. PMID: 3007005.
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      57. Roberts JW, Grula JW, Posakony J, Hudspeth R, Davidson EH, Britten RJ. Comparison of sea urchin and human mtDNA: evolutionary rearrangement. Proc Natl Acad Sci U S A. 1983 Aug; 80(15):4614-8. PMID: 6308631.
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      58. Goldberg DA, Posakony J, Maniatis T. Correct developmental expression of a cloned alcohol dehydrogenase gene transduced into the Drosophila germ line. Cell. 1983 Aug; 34(1):59-73. PMID: 6309412.
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      59. Posakony J, Flytzanis CN, Britten RJ, Davidson EH. Interspersed sequence organization and developmental representation of cloned poly(A) RNAs from sea urchin eggs. J Mol Biol. 1983 Jun 25; 167(2):361-89. PMID: 6191038.
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      60. Cabrera CV, Jacobs HT, Posakony J, Grula JW, Roberts JW, Britten RJ, Davidson EH. Transcripts of three mitochondrial genes in the RNA of sea urchin eggs and embryos. Dev Biol. 1983 Jun; 97(2):500-5. PMID: 6189753.
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      61. Jacobs HT, Posakony J, Grula JW, Roberts JW, Xin JH, Britten RJ, Davidson EH. Mitochondrial DNA sequences in the nuclear genome of Strongylocentrotus purpuratus. J Mol Biol. 1983 Apr 25; 165(4):609-32. PMID: 6687903.
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      62. Davidson EH, Posakony J. Repetitive sequence transcripts in development. Nature. 1982 Jun 24; 297(5868):633-5. PMID: 6178032.
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      63. Scheller RH, McAllister LB, Crain WR, Durica DS, Posakony J, Thomas TL, Britten RJ, Davidson EH. Organization and expression of multiple actin genes in the sea urchin. Mol Cell Biol. 1981 Jul; 1(7):609-28. PMID: 9279375.
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      64. Thomas TL, Posakony J, Anderson DM, Britten RJ, Davidson EH. Molecular structure of maternal RNA. Chromosoma. 1981; 84(3):319-35. PMID: 6173173.
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      65. Efstratiadis A, Posakony J, Maniatis T, Lawn RM, O'Connell C, Spritz RA, DeRiel JK, Forget BG, Weissman SM, Slightom JL, Blechl AE, Smithies O, Baralle FE, Shoulders CC, Proudfoot NJ. The structure and evolution of the human beta-globin gene family. Cell. 1980 Oct; 21(3):653-68. PMID: 6985477.
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      66. Moore GP, Costantini FD, Posakony J, Davidson EH, Britten RJ. Evolutionary conservation of repetitive sequence expression in sea urchin egg RNA's. Science. 1980 May 30; 208(4447):1046-8. PMID: 6154974.
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      67. Crews S, Ojala D, Posakony J, Nishiguchi J, Attardi G. Nucleotide sequence of a region of human mitochondrial DNA containing the precisely identified origin of replication. Nature. 1979 Jan 18; 277(5693):192-8. PMID: 551247.
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