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Last Name
Institution

Mitzi I. Kuroda, Ph.D.

TitleProfessor of Genetics
InstitutionHarvard Medical School
DepartmentGenetics
AddressHarvard Medical School
NRB, Rm. 0168
77 Avenue Louis Pasteur
Boston MA 02115
Phone617/525-4520
Fax617/525-4522
Other Positions
TitleProfessor of Medicine
InstitutionBrigham and Women's Hospital
DepartmentMedicine


 Bibliographic 
 selected publications
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Ferrari F, Plachetka A, Alekseyenko AA, Jung YL, Ozsolak F, Kharchenko PV, Park PJ, Kuroda MI. "Jump start and gain" model for dosage compensation in Drosophila based on direct sequencing of nascent transcripts. Cell Rep. 2013 Nov 14; 5(3):629-36.
    View in: PubMed
  2. Alekseyenko AA, Ellison CE, Gorchakov AA, Zhou Q, Kaiser VB, Toda N, Walton Z, Peng S, Park PJ, Bachtrog D, Kuroda MI. Conservation and de novo acquisition of dosage compensation on newly evolved sex chromosomes in Drosophila. Genes Dev. 2013 Apr 15; 27(8):853-8.
    View in: PubMed
  3. Wang CI, Alekseyenko AA, Leroy G, Elia AE, Gorchakov AA, Britton LM, Elledge SJ, Kharchenko PV, Garcia BA, Kuroda MI. Chromatin proteins captured by ChIP-mass spectrometry are linked to dosage compensation in Drosophila. Nat Struct Mol Biol. 2013 Feb; 20(2):202-9.
    View in: PubMed
  4. Riddle NC, Jung YL, Gu T, Alekseyenko AA, Asker D, Gui H, Kharchenko PV, Minoda A, Plachetka A, Schwartz YB, Tolstorukov MY, Kuroda MI, Pirrotta V, Karpen GH, Park PJ, Elgin SC. Enrichment of HP1a on Drosophila chromosome 4 genes creates an alternate chromatin structure critical for regulation in this heterochromatic domain. PLoS Genet. 2012 Sep; 8(9):e1002954.
    View in: PubMed
  5. Larschan E, Soruco MM, Lee OK, Peng S, Bishop E, Chery J, Goebel K, Feng J, Park PJ, Kuroda MI. Identification of chromatin-associated regulators of MSL complex targeting in Drosophila dosage compensation. PLoS Genet. 2012; 8(7):e1002830.
    View in: PubMed
  6. Schwartz YB, Linder-Basso D, Kharchenko PV, Tolstorukov MY, Kim M, Li HB, Gorchakov AA, Minoda A, Shanower G, Alekseyenko AA, Riddle NC, Jung YL, Gu T, Plachetka A, Elgin SC, Kuroda MI, Park PJ, Savitsky M, Karpen GH, Pirrotta V. Nature and function of insulator protein binding sites in the Drosophila genome. Genome Res. 2012 Nov; 22(11):2188-98.
    View in: PubMed
  7. Bateman JR, Larschan E, D'Souza R, Marshall LS, Dempsey KE, Johnson JE, Mellone BG, Kuroda MI. A genome-wide screen identifies genes that affect somatic homolog pairing in Drosophila. G3 (Bethesda). 2012 Jul; 2(7):731-40.
    View in: PubMed
  8. Alekseyenko AA, Ho JW, Peng S, Gelbart M, Tolstorukov MY, Plachetka A, Kharchenko PV, Jung YL, Gorchakov AA, Larschan E, Gu T, Minoda A, Riddle NC, Schwartz YB, Elgin SC, Karpen GH, Pirrotta V, Kuroda MI, Park PJ. Sequence-specific targeting of dosage compensation in Drosophila favors an active chromatin context. PLoS Genet. 2012; 8(4):e1002646.
    View in: PubMed
  9. Simon MD, Wang CI, Kharchenko PV, West JA, Chapman BA, Alekseyenko AA, Borowsky ML, Kuroda MI, Kingston RE. The genomic binding sites of a noncoding RNA. Proc Natl Acad Sci U S A. 2011 Dec 20; 108(51):20497-502.
    View in: PubMed
  10. Larschan E, Bishop EP, Kharchenko PV, Core LJ, Lis JT, Park PJ, Kuroda MI. X chromosome dosage compensation via enhanced transcriptional elongation in Drosophila. Nature. 2011 Mar 3; 471(7336):115-8.
    View in: PubMed
  11. Strukov YG, Sural TH, Kuroda MI, Sedat JW. Evidence of activity-specific, radial organization of mitotic chromosomes in Drosophila. PLoS Biol. 2011; 9(1):e1000574.
    View in: PubMed
  12. Roy S, Ernst J, Kharchenko PV, Kheradpour P, Negre N, Eaton ML, Landolin JM, Bristow CA, Ma L, Lin MF, Washietl S, Arshinoff BI, Ay F, Meyer PE, Robine N, Washington NL, Di Stefano L, Berezikov E, Brown CD, Candeias R, Carlson JW, Carr A, Jungreis I, Marbach D, Sealfon R, Tolstorukov MY, Will S, Alekseyenko AA, Artieri C, Booth BW, Brooks AN, Dai Q, Davis CA, Duff MO, Feng X, Gorchakov AA, Gu T, Henikoff JG, Kapranov P, Li R, MacAlpine HK, Malone J, Minoda A, Nordman J, Okamura K, Perry M, Powell SK, Riddle NC, Sakai A, Samsonova A, Sandler JE, Schwartz YB, Sher N, Spokony R, Sturgill D, van Baren M, Wan KH, Yang L, Yu C, Feingold E, Good P, Guyer M, Lowdon R, Ahmad K, Andrews J, Berger B, Brenner SE, Brent MR, Cherbas L, Elgin SC, Gingeras TR, Grossman R, Hoskins RA, Kaufman TC, Kent W, Kuroda MI, Orr-Weaver T, Perrimon N, Pirrotta V, Posakony JW, Ren B, Russell S, Cherbas P, Graveley BR, Lewis S, Micklem G, Oliver B, Park PJ, Celniker SE, Henikoff S, Karpen GH, Lai EC, MacAlpine DM, Stein LD, White KP, Kellis M. Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science. 2010 Dec 24; 330(6012):1787-97.
    View in: PubMed
  13. Riddle NC, Minoda A, Kharchenko PV, Alekseyenko AA, Schwartz YB, Tolstorukov MY, Gorchakov AA, Jaffe JD, Kennedy C, Linder-Basso D, Peach SE, Shanower G, Zheng H, Kuroda MI, Pirrotta V, Park PJ, Elgin SC, Karpen GH. Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin. Genome Res. 2011 Feb; 21(2):147-63.
    View in: PubMed
  14. Kharchenko PV, Alekseyenko AA, Schwartz YB, Minoda A, Riddle NC, Ernst J, Sabo PJ, Larschan E, Gorchakov AA, Gu T, Linder-Basso D, Plachetka A, Shanower G, Tolstorukov MY, Luquette LJ, Xi R, Jung YL, Park RW, Bishop EP, Canfield TK, Sandstrom R, Thurman RE, MacAlpine DM, Stamatoyannopoulos JA, Kellis M, Elgin SC, Kuroda MI, Pirrotta V, Karpen GH, Park PJ. Comprehensive analysis of the chromatin landscape in Drosophila melanogaster. Nature. 2011 Mar 24; 471(7339):480-5.
    View in: PubMed
  15. Egelhofer TA, Minoda A, Klugman S, Lee K, Kolasinska-Zwierz P, Alekseyenko AA, Cheung MS, Day DS, Gadel S, Gorchakov AA, Gu T, Kharchenko PV, Kuan S, Latorre I, Linder-Basso D, Luu Y, Ngo Q, Perry M, Rechtsteiner A, Riddle NC, Schwartz YB, Shanower GA, Vielle A, Ahringer J, Elgin SC, Kuroda MI, Pirrotta V, Ren B, Strome S, Park PJ, Karpen GH, Hawkins RD, Lieb JD. An assessment of histone-modification antibody quality. Nat Struct Mol Biol. 2011 Jan; 18(1):91-3.
    View in: PubMed
  16. Peng S, Kuroda MI, Park PJ. Quantized correlation coefficient for measuring reproducibility of ChIP-chip data. BMC Bioinformatics. 2010; 11:399.
    View in: PubMed
  17. Gorchakov AA, Alekseyenko AA, Kharchenko P, Park PJ, Kuroda MI. Long-range spreading of dosage compensation in Drosophila captures transcribed autosomal genes inserted on X. Genes Dev. 2009 Oct 1; 23(19):2266-71.
    View in: PubMed
  18. Gelbart ME, Larschan E, Peng S, Park PJ, Kuroda MI. Drosophila MSL complex globally acetylates H4K16 on the male X chromosome for dosage compensation. Nat Struct Mol Biol. 2009 Aug; 16(8):825-32.
    View in: PubMed
  19. Gelbart ME, Kuroda MI. Drosophila dosage compensation: a complex voyage to the X chromosome. Development. 2009 May; 136(9):1399-410.
    View in: PubMed
  20. Sural TH, Peng S, Li B, Workman JL, Park PJ, Kuroda MI. The MSL3 chromodomain directs a key targeting step for dosage compensation of the Drosophila melanogaster X chromosome. Nat Struct Mol Biol. 2008 Dec; 15(12):1318-25.
    View in: PubMed
  21. Alekseyenko AA, Peng S, Larschan E, Gorchakov AA, Lee OK, Kharchenko P, McGrath SD, Wang CI, Mardis ER, Park PJ, Kuroda MI. A sequence motif within chromatin entry sites directs MSL establishment on the Drosophila X chromosome. Cell. 2008 Aug 22; 134(4):599-609.
    View in: PubMed
  22. Park SW, Kuroda MI, Park Y. Regulation of histone H4 Lys16 acetylation by predicted alternative secondary structures in roX noncoding RNAs. Mol Cell Biol. 2008 Aug; 28(16):4952-62.
    View in: PubMed
  23. Larschan E, Alekseyenko AA, Gortchakov AA, Peng S, Li B, Yang P, Workman JL, Park PJ, Kuroda MI. MSL complex is attracted to genes marked by H3K36 trimethylation using a sequence-independent mechanism. Mol Cell. 2007 Oct 12; 28(1):121-33.
    View in: PubMed
  24. Peng S, Alekseyenko AA, Larschan E, Kuroda MI, Park PJ. Normalization and experimental design for ChIP-chip data. BMC Bioinformatics. 2007; 8:219.
    View in: PubMed
  25. Bai X, Larschan E, Kwon SY, Badenhorst P, Kuroda MI. Regional control of chromatin organization by noncoding roX RNAs and the NURF remodeling complex in Drosophila melanogaster. Genetics. 2007 Jul; 176(3):1491-9.
    View in: PubMed
  26. Yang PK, Kuroda MI. Noncoding RNAs and intranuclear positioning in monoallelic gene expression. Cell. 2007 Feb 23; 128(4):777-86.
    View in: PubMed
  27. Alekseyenko AA, Larschan E, Lai WR, Park PJ, Kuroda MI. High-resolution ChIP-chip analysis reveals that the Drosophila MSL complex selectively identifies active genes on the male X chromosome. Genes Dev. 2006 Apr 1; 20(7):848-57.
    View in: PubMed
  28. Larschan E, Alekseyenko AA, Lai WR, Park PJ, Kuroda MI. MSL complex associates with clusters of actively transcribed genes along the Drosophila male X chromosome. Cold Spring Harb Symp Quant Biol. 2006; 71:385-94.
    View in: PubMed
  29. Park Y, Oh H, Meller VH, Kuroda MI. Variable splicing of non-coding roX2 RNAs influences targeting of MSL dosage compensation complexes in Drosophila. RNA Biol. 2005 Oct-Dec; 2(4):157-64.
    View in: PubMed
  30. Hamada FN, Park PJ, Gordadze PR, Kuroda MI. Global regulation of X chromosomal genes by the MSL complex in Drosophila melanogaster. Genes Dev. 2005 Oct 1; 19(19):2289-94.
    View in: PubMed
  31. Bai X, Alekseyenko AA, Kuroda MI. Sequence-specific targeting of MSL complex regulates transcription of the roX RNA genes. EMBO J. 2004 Jul 21; 23(14):2853-61.
    View in: PubMed
  32. Oh H, Bone JR, Kuroda MI. Multiple classes of MSL binding sites target dosage compensation to the X chromosome of Drosophila. Curr Biol. 2004 Mar 23; 14(6):481-7.
    View in: PubMed
  33. Alekseyenko AA, Kuroda MI. Molecular biology. Filling gaps in genome organization. Science. 2004 Feb 20; 303(5661):1148-9.
    View in: PubMed
  34. Oh H, Bai X, Park Y, Bone JR, Kuroda MI. Targeting dosage compensation to the X chromosome of Drosophila males. Cold Spring Harb Symp Quant Biol. 2004; 69:81-8.
    View in: PubMed
  35. Demakova OV, Kotlikova IV, Gordadze PR, Alekseyenko AA, Kuroda MI, Zhimulev IF. The MSL complex levels are critical for its correct targeting to the chromosomes in Drosophila melanogaster. Chromosoma. 2003 Oct; 112(3):103-15.
    View in: PubMed
  36. Stuckenholz C, Meller VH, Kuroda MI. Functional redundancy within roX1, a noncoding RNA involved in dosage compensation in Drosophila melanogaster. Genetics. 2003 Jul; 164(3):1003-14.
    View in: PubMed
  37. Kelley RL, Kuroda MI. The Drosophila roX1 RNA gene can overcome silent chromatin by recruiting the male-specific lethal dosage compensation complex. Genetics. 2003 Jun; 164(2):565-74.
    View in: PubMed
  38. Oh H, Park Y, Kuroda MI. Local spreading of MSL complexes from roX genes on the Drosophila X chromosome. Genes Dev. 2003 Jun 1; 17(11):1334-9.
    View in: PubMed
  39. Park Y, Mengus G, Bai X, Kageyama Y, Meller VH, Becker PB, Kuroda MI. Sequence-specific targeting of Drosophila roX genes by the MSL dosage compensation complex. Mol Cell. 2003 Apr; 11(4):977-86.
    View in: PubMed
  40. Park Y, Kelley RL, Oh H, Kuroda MI, Meller VH. Extent of chromatin spreading determined by roX RNA recruitment of MSL proteins. Science. 2002 Nov 22; 298(5598):1620-3.
    View in: PubMed
  41. Meller VH, Kuroda MI. Sex and the single chromosome. Adv Genet. 2002; 46:1-24.
    View in: PubMed
  42. Park Y, Kuroda MI. Epigenetic aspects of X-chromosome dosage compensation. Science. 2001 Aug 10; 293(5532):1083-5.
    View in: PubMed
  43. Kageyama Y, Mengus G, Gilfillan G, Kennedy HG, Stuckenholz C, Kelley RL, Becker PB, Kuroda MI. Association and spreading of the Drosophila dosage compensation complex from a discrete roX1 chromatin entry site. EMBO J. 2001 May 1; 20(9):2236-45.
    View in: PubMed
  44. Pasquinelli AE, Reinhart BJ, Slack F, Martindale MQ, Kuroda MI, Maller B, Hayward DC, Ball EE, Degnan B, Müller P, Spring J, Srinivasan A, Fishman M, Finnerty J, Corbo J, Levine M, Leahy P, Davidson E, Ruvkun G. Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA. Nature. 2000 Nov 2; 408(6808):86-9.
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  45. Kelley RL, Kuroda MI. The role of chromosomal RNAs in marking the X for dosage compensation. Curr Opin Genet Dev. 2000 Oct; 10(5):555-61.
    View in: PubMed
  46. Kelley RL, Kuroda MI. Noncoding RNA genes in dosage compensation and imprinting. Cell. 2000 Sep 29; 103(1):9-12.
    View in: PubMed
  47. Meller VH, Gordadze PR, Park Y, Chu X, Stuckenholz C, Kelley RL, Kuroda MI. Ordered assembly of roX RNAs into MSL complexes on the dosage-compensated X chromosome in Drosophila. Curr Biol. 2000 Feb 10; 10(3):136-43.
    View in: PubMed
  48. Stuckenholz C, Kageyama Y, Kuroda MI. Guilt by association: non-coding RNAs, chromosome-specific proteins and dosage compensation in Drosophila. Trends Genet. 1999 Nov; 15(11):454-8.
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  49. Kelley RL, Meller VH, Gordadze PR, Roman G, Davis RL, Kuroda MI. Epigenetic spreading of the Drosophila dosage compensation complex from roX RNA genes into flanking chromatin. Cell. 1999 Aug 20; 98(4):513-22.
    View in: PubMed
  50. Kuroda MI, Kelley RL. Sex and repression. Science. 1999 Jun 11; 284(5421):1787-8.
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  51. Chang KA, Kuroda MI. Modulation of MSL1 abundance in female Drosophila contributes to the sex specificity of dosage compensation. Genetics. 1998 Oct; 150(2):699-709.
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  52. Copps K, Richman R, Lyman LM, Chang KA, Rampersad-Ammons J, Kuroda MI. Complex formation by the Drosophila MSL proteins: role of the MSL2 RING finger in protein complex assembly. EMBO J. 1998 Sep 15; 17(18):5409-17.
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  53. Rastelli L, Kuroda MI. An analysis of maleless and histone H4 acetylation in Drosophila melanogaster spermatogenesis. Mech Dev. 1998 Feb; 71(1-2):107-17.
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  54. Lyman LM, Copps K, Rastelli L, Kelley RL, Kuroda MI. Drosophila male-specific lethal-2 protein: structure/function analysis and dependence on MSL-1 for chromosome association. Genetics. 1997 Dec; 147(4):1743-53.
    View in: PubMed
  55. Kuroda MI, Meller VH. Transient Xist-ence. Cell. 1997 Oct 3; 91(1):9-11.
    View in: PubMed
  56. Lee CG, Chang KA, Kuroda MI, Hurwitz J. The NTPase/helicase activities of Drosophila maleless, an essential factor in dosage compensation. EMBO J. 1997 May 15; 16(10):2671-81.
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  57. Kelley RL, Wang J, Bell L, Kuroda MI. Sex lethal controls dosage compensation in Drosophila by a non-splicing mechanism. Nature. 1997 May 8; 387(6629):195-9.
    View in: PubMed
  58. Meller VH, Wu KH, Roman G, Kuroda MI, Davis RL. roX1 RNA paints the X chromosome of male Drosophila and is regulated by the dosage compensation system. Cell. 1997 Feb 21; 88(4):445-57.
    View in: PubMed
  59. Kuroda MI, Villeneuve AM. Promiscuous chromosomal proteins: complexes about sex. Science. 1996 Dec 6; 274(5293):1633-4.
    View in: PubMed
  60. Bone JR, Kuroda MI. Dosage compensation regulatory proteins and the evolution of sex chromosomes in Drosophila. Genetics. 1996 Oct; 144(2):705-13.
    View in: PubMed
  61. Richter L, Bone JR, Kuroda MI. RNA-dependent association of the Drosophila maleless protein with the male X chromosome. Genes Cells. 1996 Mar; 1(3):325-36.
    View in: PubMed
  62. Kelley RL, Kuroda MI. Equality for X chromosomes. Science. 1995 Dec 8; 270(5242):1607-10.
    View in: PubMed
  63. Rastelli L, Richman R, Kuroda MI. The dosage compensation regulators MLE, MSL-1 and MSL-2 are interdependent since early embryogenesis in Drosophila. Mech Dev. 1995 Oct; 53(2):223-33.
    View in: PubMed
  64. Kelley RL, Solovyeva I, Lyman LM, Richman R, Solovyev V, Kuroda MI. Expression of msl-2 causes assembly of dosage compensation regulators on the X chromosomes and female lethality in Drosophila. Cell. 1995 Jun 16; 81(6):867-77.
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  65. Lavender JS, Birley AJ, Palmer MJ, Kuroda MI, Turner BM. Histone H4 acetylated at lysine 16 and proteins of the Drosophila dosage compensation pathway co-localize on the male X chromosome through mitosis. Chromosome Res. 1994 Sep; 2(5):398-404.
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  66. Palmer MJ, Richman R, Richter L, Kuroda MI. Sex-specific regulation of the male-specific lethal-1 dosage compensation gene in Drosophila. Genes Dev. 1994 Mar 15; 8(6):698-706.
    View in: PubMed
  67. Bone JR, Lavender J, Richman R, Palmer MJ, Turner BM, Kuroda MI. Acetylated histone H4 on the male X chromosome is associated with dosage compensation in Drosophila. Genes Dev. 1994 Jan; 8(1):96-104.
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  68. Palmer MJ, Mergner VA, Richman R, Manning JE, Kuroda MI, Lucchesi JC. The male-specific lethal-one (msl-1) gene of Drosophila melanogaster encodes a novel protein that associates with the X chromosome in males. Genetics. 1993 Jun; 134(2):545-57.
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  69. Gorman M, Kuroda MI, Baker BS. Regulation of the sex-specific binding of the maleless dosage compensation protein to the male X chromosome in Drosophila. Cell. 1993 Jan 15; 72(1):39-49.
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  70. Kuroda, MI, Palmer MJ, Lucchesi JC. X chromosome dosage compensation in Drosophila. Seminars in Dev. Biol. 1993; 4:107-116.
  71. Kuroda MI, Kernan MJ, Kreber R, Ganetzky B, Baker BS. The maleless protein associates with the X chromosome to regulate dosage compensation in Drosophila. Cell. 1991 Sep 6; 66(5):935-47.
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  72. Kernan MJ, Kuroda MI, Kreber R, Baker BS, Ganetzky B. napts, a mutation affecting sodium channel activity in Drosophila, is an allele of mle, a regulator of X chromosome transcription. Cell. 1991 Sep 6; 66(5):949-59.
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  73. Gollnick P, Ishino S, Kuroda MI, Henner DJ, Yanofsky C. The mtr locus is a two-gene operon required for transcription attenuation in the trp operon of Bacillus subtilis. Proc Natl Acad Sci U S A. 1990 Nov; 87(22):8726-30.
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  74. Kuroda MI, Henner D, Yanofsky C. cis-acting sites in the transcript of the Bacillus subtilis trp operon regulate expression of the operon. J Bacteriol. 1988 Jul; 170(7):3080-8.
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  75. Kuroda MI, Shimotsu H, Henner DJ, Yanofsky C. Regulatory elements common to the Bacillus pumilus and Bacillus subtilis trp operons. J Bacteriol. 1986 Sep; 167(3):792-8.
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  76. Shimotsu H, Kuroda MI, Yanofsky C, Henner DJ. Novel form of transcription attenuation regulates expression the Bacillus subtilis tryptophan operon. J Bacteriol. 1986 May; 166(2):461-71.
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  77. Kuroda MI, Yanofsky C. Evidence for the transcript secondary structures predicted to regulate transcription attenuation in the trp operon. J Biol Chem. 1984 Oct 25; 259(20):12838-43.
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  78. Kuroda MI, Yanofsky C. Correction of the nucleotide sequence of the Citrobacter freundii tryptophan operon regulatory region. J Bacteriol. 1984 Sep; 159(3):1063-4.
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  79. Stroynowski I, Kuroda M, Yanofsky C. Transcription termination in vitro at the tryptophan operon attenuator is controlled by secondary structures in the leader transcript. Pro. Natl. Acad. Sci. USA. 1983; 80:2206-2210.
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