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Selected Publications

Chromatin & Gene Expression Group

  1. Jefferson WN, Chevalier DM, Phelps JY, Cantor AM, Padilla-Banks E, Newbold RR, Archer TK, Kinyamu HK, Williams CJ. Persistently altered epigenetic marks in the mouse uterus after neonatal estrogen exposure. Molecular Endocrinology 2013 27(10):1666-1677.
    [Abstract ]
  2. Annab LA, Bortner CD, Sifre MI, Collins JM, Shah RR, Dixon D, Karimi Kinyamu H, Archer TK. Differential responses to retinoic acid and endocrine disruptor compounds of subpopulations within human embryonic stem cell lines. Differentiation; research in biological diversity 2012 84(4):330-42.[Abstract ]
  3. Burd CJ, Ward JM, Crusselle-Davis VJ, Kissling GE, Phadke D, Shah RR, Archer TK. Analysis of Chromatin Dynamics during Glucocorticoid Receptor Activation. Mol Cell Biol. 2012 May;32(10):1805-17. Epub 2012 Mar 26.[Abstract ]
  4. King HA, Trotter KW, Archer TK. Chromatin remodeling during glucocorticoid receptor regulated transactivation. Biochim Biophys Acta. 2012 Mar 6. [Epub ahead of print][Abstract ]
  5. Zheng X, Dumitru R, Lackford B, Freudenberg JM, Singh AP, Archer TK, Jothi R, Hu G. Cnot1, Cnot2, and Cnot3 Maintain Mouse and Human ES Cell Identity and Inhibit Extraembryonic Differentiation. Stem Cells. 2012 May;30(5):910-22.[Abstract ]
  6. Trotter KW, Archer TK. Assaying chromatin structure and remodeling by restriction enzyme accessibility. Methods Mol Biol. 2012;833:89-102.[Abstract ]
  7. DelBove J, Rosson G, Strobeck M, Chen J, Archer TK, Wang W, Knudsen ES, Weissman BE. Identification of a core member of the SWI/SNF complex, BAF155/SMARCC1, as a human tumor suppressor gene. Epigenetics. 2011 Dec;6(12):1444-53.[Abstract ]
  8. Pham CD, Sims HI, Archer TK, Schnitzler GR. Multiple distinct stimuli increase measured nucleosome occupancy around human promoters. PLoS One. 2011;6(8):e23490. Epub 2011 Aug 11.[Abstract ]
  9. Archer TK. The 26S proteasome: when degradation is just not enough! Biochim Biophys Acta. 2011 Feb;1809(2):65-6. Epub 2010 Dec 2. No abstract available.[Abstract ]
  10. Aoyagi S, Archer TK. Differential glucocorticoid receptor-mediated transcription mechanisms. J Biol Chem. 2011 Feb 11;286(6):4610-9. Epub 2010 Dec 2.[Abstract ]
  11. Keppler BR, Archer TK, Kinyamu HK. Emerging Roles of the 26S Proteasome in Nuclear Hormone Receptor-Regulated Transcription. Biochimica et biophysica acta 1809(2):109-118, 2011.[Abstract ]
  12. Keppler BR, Archer TK. Ubiquitin-dependent and Ubiquitin-independent control of subunit stoichiometry in the SWI/SNF complex. The Journal of biological chemistry 285(46):35665-35674, 2010.[Abstract ]
  13. Walker MP, DiAugustine RP, Zeringue E, Bunger MK, Schmitt M, Archer TK, Richards RG. An Insulin-Like Growth Factor-1 (IGF-1)/Insulin Receptor Substrate-1 (IRS-1) Pathway Stimulates a Mitotic Kinase (cdk1) in the Uterine Epithelium During the Proliferative Response to Estradiol. Journal of Endocrinology 207(2):225-235, 2010.[Abstract ]
  14. Burkhart BA, Ivey ML, Archer TK. Long-term low level glucocorticoid exposure induces persistent repression in chromatin. Molecular and cellular endocrinology 298(1-2):66-75, 2009.[Abstract ]
  15. Hu P, Kinyamu HK, Wang L, Martin J, Archer TK, Teng CT. Estrogen induces estrogen-related receptor alpha gene expression and chromatin structural changes in estrogen receptor (ER)-positive and ER-negative breast cancer cells. The Journal of biological chemistry 283(11):6752-6763, 2008.[Abstract ]
  16. Archer TK, Keppler BR. Chromatin-modifying enzymes as therapeutic targets - Part 1. Expert opinion on therapeutic targets 12(10):1301-1312, 2008.[Abstract ]
  17. Archer TK, Keppler BR. Chromatin-modifying enzymes as therapeutic targets - Part 2. Expert opinion on therapeutic targets 12(11):1457-1467, 2008.[Abstract ]
  18. Burd CJ, Kinyamu HK, Miller FW, Archer TK. UV radiation regulates Mi-2 through protein translation and stability. The Journal of biological chemistry 283(50):34976-34982, 2008.[Abstract ]
  19. Kinyamu HK, Collins JB, Grissom SF, Hebbar PB, Archer TK. Genome wide transcriptional profiling in breast cancer cells reveals distinct changes in hormone receptor target genes and chromatin modifying enzymes after proteasome inhibition. Molecular carcinogenesis 47(11):845-885, 2008.[Abstract ]
  20. Wang Y, Yabuuchi A, McKinney-Freeman S, Ducharme DMK, Ray M, Chawengsaksophak K, Archer TK, Daley GQ. The intrinsic requirement of Cdx-Hox pathway during embryonic hematopoiesis in mouse. Proceedings of the National Academy of Sciences of the United States of America 105(22):7756-7761, 2008.[Abstract ]
  21. Aoyagi S, Archer TK. Dynamics of coactivator recruitment and chromatin modifications during nuclear receptor mediated transcription. Molecular and cellular endocrinology 280(1-2):1-5, 2008.[Abstract ]
  22. Hebbar PB, Archer TK. Altered histone H1 stoichiometry and an absence of nucleosome positioning on transfected DNA. The Journal of biological chemistry 283(8):4595-4601, 2008.[Abstract ]
  23. Trotter KW, Archer TK. The BRG1 transcriptional coregulator. Nuclear receptor signaling 1;6:E004, 2008.[Abstract ]
  24. Trotter KT, Fan H, Ivey ML, Kingston RE, Archer TK. The HSA domain of BRG1 mediates critical interactions required for glucocorticoid receptor-dependent transcriptional activation in vivo. Molecular and cellular biology 28(4):1413-1426, 2008.[Abstract ]
  25. Jefferson WN, Archer TK. Intersection of nuclear receptors and the proteasome on the epigenetic landscape. Environmental and molecular mutagenesis 49(1):83-95, 2008.[Abstract ]
  26. Aoyagi S, Archer TK. Nicotinamide uncouples hormone-dependent chromatin remodeling from transcription complex assembly. Molecular and cellular biology 28(1):30-39, 2008.[Abstract ]
  27. Burkhart BA, Kennett SB, Archer TK. Osmotic stress-dependent repression is mediated by histone H3 phosphorylation and chromatin structure. The Journal of biological chemistry 282(7):4400-4407, 2007.[Abstract ]
  28. Trotter KW, Archer TK. Nuclear receptors and chromatin remodeling machinery. Molecular and cellular endocrinology 265-266:162-7, 2007.[Abstract ]
  29. Hebbar PB, Archer TK. Chromatin-dependent cooperativity between site-specific transcription factors in vivo. The Journal of biological chemistry 282(11):8284-8291, 2007.[Abstract ]
  30. Aoyagi S, Archer TK. Dynamic histone acetylation/deacetylation with progesterone receptor-mediated transcription. Molecular endocrinology (Baltimore, Md.) 21(4):843-856, 2007.[Abstract ]
  31. Kinyamu HK, Archer TK. Proteasome activity modulates chromatin modifications and RNA polymerase II phosphorylation to enhance glucocorticoid receptor mediated transcription. Mol Cell Biol. 2007 Apr 16; PMID: 17438138.[Abstract ]
  32. Trotter KW, Archer TK. Nuclear receptors and chromatin remodeling machinery. Mol Cell Endocrinol. 2007 Feb;265-266:162-7. Epub 2007 Jan 19. PMID: 17240047. [Abstract ]
  33. Aoyagi S, Archer TK. Dynamic histone acetylation/deacetylation with progesterone receptor-mediated transcription. Mol Endocrinol. 2007 Apr;21(4):843-56. Epub 2007 Jan 16. PMID: 17227884.[Abstract ]
  34. Hebbar PB, Archer TK. Chromatin-dependent cooperativity between site-specific transcription factors in vivo. J Biol Chem. 2007 Mar 16;282(11):8284-91. Epub 2006 Dec 23. PMID: 17186943.[Abstract ]
  35. Burkhart BA, Kennett SB, Archer TK. Osmotic stress-dependent repression is mediated by histone H3 phosphorylation and chromatin structure. J Biol Chem. 2007 Feb 16;282(7):4400-7. Epub 2006 Dec 11. PMID: 17158874.[Abstract ]
  36. Wade PA, Archer TK. Epigenetics: environmental instructions for the genome. Environ Health Perspect. 2006 Mar;114(3):A140-1. PMID: 16507439.[Abstract ]
  37. Bhattacharjee RN, Archer TK. Transcriptional silencing of the mouse mammary tumor virus promoter through chromatin remodeling is concomitant with histone H1 phosphorylation and histone H3 hyperphosphorylation at M phase. Virology. 2006 Mar 1;346(1):1-6. Epub 2006 Feb 3. PMID: 16458342.[Abstract ]
  38. Chen J, Kinyamu HK, Archer TK. Changes in Attitude, Changes in Latitude: Nuclear Receptors Remodeling Chromatin to Regulate Transcription. Mol. Endocrinol. 20: 1-13, 2006.[Abstract ]
  39. Kinyamu HK, Chen J, Archer TK. Linking the ubiquitin-proteasome pathway to chromatin remodeling/modification by nuclear receptors. J. Mol. Endocrinol. 34: 281-97, 2005.[Abstract ]
  40. Fan HY, Trotter KW, Archer TK, Kingston RE. Swapping function of two chromatin remodeling complexes. Mol. Cell 17: 805-15, 2005.[Abstract ]
  41. Aoyagi S, Trotter KW, Archer TK. ATP-dependent chromatin remodeling complexes and their role in nuclear receptor-dependent transcription in vivo. Vitam. Horm. 70: 281-307, 2005.[Abstract ]
  42. Burkhart BA, Hebbar PB, Trotter KW, Archer TK. Chromatin-dependent E1A activity modulates NF-kappaB RelA-mediated repression of glucocorticoid receptor-dependent transcription. J. Biol. Chem. 280: 6349-58, 2005.[Abstract ]
  43. Chen J, Archer TK. Regulating SWI/SNF subunit levels via protein-protein interactions and proteasomal degradation: BAF155 and BAF170 limit expression of BAF57. Mol. Cell. Biol. 25: 9016-27, 2005. [Abstract ]
  44. Aoyagi S, Archer TK. Modulating molecular chaperone Hsp90 functions through reversible acetylation. Trends Cell. Biol. 15: 565-7, 2005.[Abstract ]
  45. Butcher DT, Mancini-DiNardo DN, Archer TK, Rodenhiser DI. DNA binding sites for putative methylation boundaries in the unmethylated region of the BRCA1 promoter. Int. J. Cancer 111:669-78, 2004.[Abstract ]
  46. Trotter KW, Archer TK. Reconstitution of glucocorticoid receptor-dependent transcription in vivo. Mol. Cell Biol. 24: 3347-58, 2004.[Abstract ]
  47. Deterding LJ, Banks GC, Tomer KB, Archer TK. Understanding global changes in histone H1 phosphorylation using mass spectrometry. Methods 33: 53-8, 2004.[Abstract ]
  48. Kinyamu HK, Archer TK. Modifying chromatin to permit steroid hormone receptor-dependent transcription. Biochim. Biophys. Acta. 1677: 30-45, 2004. [Abstract ]
  49. Hsiao PW, Fryer CJ, Trotter KW, Wang W, Archer TK.: BAF60a mediates critical interactions between nuclear receptors and the BRG1 chromatin-remodeling complex for transactivation. Mol. Cell Biol. 23: 6210-20, 2003.[Abstract ]
  50. Kinyamu HK, Archer TK. Estrogen receptor-dependent proteasomal degradation of the glucocorticoid receptor is coupled to an increase in mdm2 protein expression. Mol. Cell Biol. 23: 5867-81, 2003.[Abstract ]
  51. Hebbar PB, Archer TK. Chromatin remodeling by nuclear receptors. Chromosoma 111: 495-504, 2003.[Abstract ]
  52. Hebbar PB, Archer TK. Nuclear factor 1 is required for both hormone-dependent chromatin remodeling and transcriptional activation of the mouse mammary tumor virus promoter. Mol. Cell. Biol. 23: 887-98, 2003.[Abstract ]
  53. Wilson MA, Deroo BJ, Ricci AR, Archer TK. The histone deacetylase inhibitor TSA blocks progesterone receptor-mediated transactivation of the MMTV promoter in vivo. J Biol. Chem. 277: 15171-81, 2002. [Abstract ]
  54. Deroo, B.J. and Archer, T.K.: Proteasome inhibitors reduce luciferase and Beta-galactosidase activity in tissue culture cells. J Biol. Chem. 277: 20120-20123, 2002. [Abstract ]
  55. Deroo, B.J., Rentsch, C., Sampath, S., Young, J., DeFranco, D.B. and Archer T.K.: Proteasomal inhibition enhances glucocorticoid receptor transactivation and alters its sub-nuclear trafficking. Mol Cell Biol. 22: 4113-4123, 2002. [Abstract ]
  56. Xing, W. and Archer, T.K.: Upstream stimulatory factors mediate estrogen receptor activity of the cathepsin promoter. Mol. Endo. 12:1310-1321, 1998.[Abstract ]
  57. Hsiao, P-W., Deroo, B.J. and Archer, T.K.: Chromatin remodeling and tissue-selective responses of nuclear hormone receptors. Biochem. Cell Biol. 80: 343-351, 2002. [Abstract ]
  58. Deroo BJ, Archer TK. Differential activation of the IkBa and mouse mammary tumor virus promoters by progesterone and glucocorticoid receptors. J. Steroid Biochem. Mol. Biol. 81: 309-17, 2002.[Abstract ]
  59. Deroo, B.J. and Archer, T.K.: Glucocorticoid receptor-mediated chromatin remodeling in vivo. Oncogene 20:3039-3046, 2001.[Abstract ]
  60. Bhattacharjee, R,N., Banks, G.C., Trotter, K.W., Lee, H-L and Archer, T.K.: Histone H1 phosphorylation by Cdk2 selectively modulates MMTV transcription through chromatin remodeling. Mol. Cell. Biol. 21: 5417-25, 2001.[Abstract ]
  61. DiNardo DN, Butcher DT, Robinson DP, Archer TK, Rodenhiser DI. Functional analysis of CpG methylation in the BRCA1 promoter region. Oncogene 20: 5331-40, 2001. [Abstract ]
  62. Fryer CJ, Archer TK. Analyzing the contributions of chromatin structure in nuclear hormone receptor activated transcription in vivo. Methods In Molecular Biology: Steroid Receptor Methods (Lieberman B, Ed.) 176: 283-96, 2001.[Abstract ]
  63. Deroo BJ, Archer TK. Glucocorticoid receptor activation of the IkBa promoter within chromatin. Mol. Biol. Cell 12: 3365-74, 2001.
  64. Fryer CJ, Kinyamu HK, Rogatsky I, Garabedian MJ, Archer TK. Selective activation of the glucocorticoid receptor by steroid antagonists in human breast cancer and osteosarcoma cells. J. Biol. Chem. 275: 17771-7, 2000.[Abstract ]
  65. Kinyamu HK, Fryer CJ, Horwitz KB, Archer TK. The MMTV promoter adopts distinct chromatin structures in human breast cancer cells with and without glucocorticoid receptor. J. Biol. Chem. 275: 20061-8, 2000.[Abstract ]
  66. Nie Z, Xue Y, Yang D, Zhou S, Deroo BJ, Archer TK, Weidong W. A specificity and targeting subunit of a human SWI/SNF-related chromatin-remodelling complex. Mol. Cell. Biol. 20: 8879-88, 2000.[Abstract ]
  67. Mancini DN, Singh SM, Archer TK, Rodenhiser D. Site-specific DNA methylation in the neurofibromatosis (NF1) promoter interferes with binding of CREB and SP1 transcription factors. Oncogene 18: 4108-19, 1999. [Abstract ]
  68. Archer TK, Ricci AR. Exonuclease III as a probe of chromatin structure in vivo. Methods Enzymol. 304:584-99, 1999.
  69. Darnel AD, Archer TK, Yang K. Regulation of 11-beta-hydroxysteroid dehydrogenase type 2 by steroid hormones and epidermal growth factor in the Ishikawa human endometrial cell line. J. Steroid Biochem. Mol Biol. 70:203-10, 1999.[Abstract ]
  70. Fryer CJ, Nordeen SK, Archer TK. Antiprogestins mediate differential effects on glucocorticoid receptor remodeling of chromatin structure. J. Biol. Chem. 273:1175-83, 1998.[Abstract ]
  71. Watson CE, Archer TK. Chromatin and steroid-receptor-mediated transcription. in: Molecular Biology of Steroid and Nuclear Hormone Receptors. (Freedman, L.P. ed), Ch. 8, Pg. 209-35, Birkhser, Boston, 1998.
  72. Lee H-L, Archer TK. Prolonged glucocorticoid exposure dephosphorylates histone H1 and inactivates the MMTV promoter. EMBO J. 17:1454-66, 1998. [Abstract ]
  73. Mancini DN, Rodenhiser DI, Ainsworth PJ, O'Malley FP, Singh SM, Xing W, Archer TK. CpG methylation within the 5' regulatory region of the BRCA1 gene is tumor specific and includes a putative CREB binding site. Oncogene 16:1161-69, 1998.[Abstract ]
  74. Fryer CJ, Archer TK. Chromatin remodelling of the glucocorticoid receptor requires the BRG1 complex. Nature 393:81-91, 1998.[Abstract ]
  75. Xing W, Archer TK. Upstream stimulatory factors mediate estrogen receptor activity of the cathepsin promoter. Mol. Endocrinol. 12:1310-21, 1998[Abstract ]

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