Publications

  1. Goswami D, Pascal B, Kumar R, Edwards DP, and Griffin PR. Structural dynamics and inter domain crosstalk of PR-TBP interaction probed by hydrogen/deuterium exchange Mass Spectrometry. Structure 22, 961-973, 2014.
  2. Singh CK, George J, Nihal M, Sabat G, Kumar R, and Ahmad N. Novel Downstream Molecular Targets of SIRT1 in Melanoma: A Quantitative Proteomics Approach.Oncotarget 5, 1987-1999, 2014.
  3. Simons SS, Edwards DP, and Kumar R. Dynamic Structures of Nuclear Hormone Receptors: New Promises and Challenges. Mol. Endocrinol. 28, 173-82, 2014.
  4. Planey SL, Kumar R, and Arnott JA. Estrogen Receptors (ERα vs. ERβ): Friends or Foes in Human Biology? J. Receptors Signal Trans. 34, 1-5, 2014.
  5. Kumar R, and Khan SH. Intrinsically disordered N-terminal domain of the steroid receptors: a promising target for endocrine-based therapeutics. FASEB J. 28 (1S), 977.1, 2014.
  6. DuMond J, Kumar R, Ramkissoon K, Izumi Y, Thompson EB, Burg M, and Ferraris J. An intrinsically disordered region of the transcription factor, NFAT5, becomes more ordered with an increase in osmolality. FASEB J. 28 (1S), 1182.8, 2014.
  7. Kumar R, Moure CM, Khan SH, Callaway C, Grimm S, Goswami D, Griffin PR, and Edwards DP. Regulation of the structurally dynamic disordered amino-terminal domain of progesterone receptor by protein induced folding. J. Biol. Chem. 288, 30285-30299, 2013.
  8. Singh CK, George J, Kumar R, and Ahmad N. Mechanism of anti-proliferative effects of SIRT1 inhibition in melanoma cells: a proteomics approach. Cancer Res. 73(8), 2509, 2013.
  9. Arnott JA, Kumar R, and Planey SL. Lipophilicity indices for drug development. J. Appl. Biopharma. Pharmacokinetics. 1, 31-36, 2013.
  10. Singh, CK, George J, Nihal M, Sabat G, Kumar R, and Ahmad N. Mechanism of sirtuin inhibition mediated anti-proliferative response in human melanoma cells: A proteomics approach. J. Investigative Dermatology 133 (1), S240-S240, 2013.
  11. Simons SS, and Kumar R. Variable responses by steroid receptors: Intrinsically disordered AF1 is the key. Mol. Cell. Endo. 376, 81-84, 2013.
  12. Khan SH, Lopez-Dee Z, Gutierrez L, Kumar R, and Ling J. Activation of NFkB in breast cancer cells is a novel mechanism of pro-survival activity of glucocorticoids. Cancer Lett. 337, 90-95, 2013.
  13. Planey SL, Kumar R, and Arnott JA. Post-translational modification of transcription factors: mechanisms and potential therapeutic interventions. Current Molecular Pharmacology 6,173-182, 2013.
  14. Shah DS, and Kumar R. Steroid resistance in leukemia. World J. Exp. Med. 3, 21-25,2013.
  15. Khan SH, and Kumar R. Mechanism of a coregulator binding of the glucocorticoid receptor's AF1 domain. Endocrine Rev. 34 (03), 350, 2013.
  16. Khan SH, Awasthi S, Guo C, Goswami D, Ling J, Griffin PR, Simons, SS, and Kumar R.Binding of the amino terminal region of coactivator TIF2 to the intrinsically disordered AF1 domain of the glucocorticoid receptor is accompanied by conformational reorganizations. J. Biol. Chem. 287, 44546-44560, 2012.
  17. Kumar R. Role of androgen receptor polyQ chain elongation in Kennedy’s Disease and use of natural osmolytes as potential therapeutic targets. IUBMB Life 64, 879-884, 2012.
  18. Wang H, Sun X, Zhang Y, Shi L, Nie W, Li S, Kumar R, Savidge TC, Tzipori S, Wang J, and Feng H. A chimeric vaccine prevents primary and recurrent Clostridium difficile infection. Infect Immun. 80, 2678-2688, 2012.
  19. Daniel J. Klionsky DJ, Abdalla FC, Abeliovich H, et al., Kucharczyk R, Kumar A, Kumar R, Kumar S, Kundu M, et al., Zorzano A, Zschocke J, and Zuckerbraun B. Guidelines for the use and interpretation of assays for monitoring autophagy. Autophagy 8, 445-544,2012.
  20. Jun L, and Kumar R. Crosstalk between NFkB and glucocorticoid signaling as a novel target of breast cancer therapy. Cancer Letters 322, 119-126, 2012.
  21. Kumar R, and McEwan IJ. Allosteric modulators of steroid hormone receptors: structural dynamics and gene regulation. Endocrine Reviews 33, 271-299, 2012.
  22. Khan SH, Kumar R, and Ling J. A versatile method to measure the binding to basic proteins by surface plasmon resonance. Anal. Biochem. 421, 2012, 385–390, 2012.
  23. Kumar R, and Thompson EB. Folding of the glucocorticoid receptor N-terminal activation domain: dynamics and regulation. Mol. Cell. Endo. 348, 450-456, 2012.
  24. Khan SH, and Kumar R. Role of intrinsically disordered conformation in AMPK-mediatedphosphorylation of ULK1 and regulation of autophagy. Mol. Biosys. 8, 91–96, 2012.
  25. Khan SH, and Kumar R. The structure and functions of the glucocorticoid receptor's intrinsically disordered activation function-1 (AF1) domain. Endocrine Rev. 33 (03), 539, 2012.
  26. Savidge T, Urvil P, Oezguen N, Braun W, Pinchuk I, Torres A, English R, Wiktorowitz J,Kumar R, Stamler J, and Pothoulakis C. Host S-nitrosylation inhibits clostridial smallmolecule-activated autoprocessing toxins. Nature Medicine 17, 1136-1141,2011.
  27. Garza AM, Khan SH, Carmen MM, Edwards DP, and Kumar R. Binding-folding induced regulation of AF1 transactivation domain of the glucocorticoid receptor by a cofactor that binds to its DNA binding domain. PLoS ONE 6, e25875, 2011.
  28. Zakharov MN, Ulloor J, Bhasin S, Ross JA, Bakhit M, Kumar R, Jameson DM, and Jasuja R. Guanidinium hydrochloride-induced spectral perturbations of 4,4'-dianilino-1,1'-binaphthyl-5,5'-disulfonic acid confound interpretation of data on molten globule. Ana. Biochem. 416, 126-128, 2011.
  29. Zakharov MN, Pillai B, Bhasin S, Ulloor J, Istomin AY, Guo C, Kumar R, and Jasuja R. Dynamics of coregulator induced conformational perturbations in androgen receptor ligand binding domain. Mol. Cell. Endocrinol. 341, 1-8, 2011.
  30. Khan SH, Arnott JA, Atamna H, Ahmad N, and Kumar R (2011). Naturally occurring osmolyte, trehalose induces a functionally active conformation in an intrinsically disordered transactivation function domain (AF1) of the Glucocorticoid Receptor. Cancer Res. 71(8), 4552, 2011.
  31. Khan SH, Ling J, and Kumar R. TBP binding-induced folding of the glucocorticoid receptor AF1 domain facilitates its interaction with steroid receptor coactivator-1. PLos ONE 6, e21939, 2011.
  32. Chandra A, Srivastava RK, Kumar R, Srivastava RN, and Pant AB. The anti-inflammatoryand antibacterial basis of human omental defense: Selective expression of cytokines and antimicrobial peptides. PLoS ONE 6, e20446, 2011.
  33. Khan SH, Arnott JA, and Kumar R. Naturally occurring osmolyte, trehalose induces functional conformation in an intrinsically disordered region of the glucocorticoid receptor.PLoS ONE 6, e19689, 2011.
  34. Ledesma MC, Jung-Hynes B, Schmit TL, Kumar R, and Ahmad N. Selenium and Vitamin E, Status Post-SELECT. Mol. Medicine 17, 134-143, 2011.
  35. Khan SH, Ling J, and Kumar R (2011). Induced folding of the glucocorticoid receptor AF1 domain facilitates its interaction with steroid receptor coactivator-1. Cancer Res. 71(8), 4532, 2011.
  36. Ahmad N, and Kumar R. Steroid hormone receptors in cancer development: A target for cancer therapeutics. Cancer Letters 300, 1-9, 2011.
  37. Kumar R, Atamna H, Khan SH, and Jasuja R. Role of androgen receptor CAG repeat polymorphism in prostate cancer and spinal bulbar muscular atrophy. Life Sci. 88, 565- 571, 2011.
  38. Ndiaye M, Kumar R, and Ahmad N. Resveratrol in cancer management: Where are we and where we go from here? Annals NY Acad. Sci. 1215, 144-149, 2011.
  39. Singh LR, Poddar NK, Dar TA, Kumar R, and Ahmad F. Protein and DNA destabilization by osmolytes: the other side of the coin. Life Sci. 88, 117–125, 2011.
  40. Singh LR, Poddar NK, Dar TA, Kumar R, and Ahmad F. Forty years of osmolyte-inducedprotein folding and stability. J. Ira. Chem. Soc. 8, 1-23, 2011.
  41. Khan SH, Ahmad F, Ahmad N, Flynn DL, and Kumar R. Protein-protein interactions: Principles, techniques, and their potential role in new drug development. J. Biomol. Struct. Dynamics. 28, 929-938, 2011.
  42. Kumar, R, and Atamna H. Therapeutic approaches to delay the onset of Alzheimer’s Disease. J. Aging Res. 2011, 1-11, 2011.
  43. Kumar R, Khan SH, Zakharov MN, and Jasuja R. The Dynamic Structure of the Estrogen Receptor. J. Amino Acids 2011, 1-7, 2011.
  44. Khan SH, and Kumar R. Structure and functions of the N-terminal activation function (AF1) domain of the glucocorticoid receptor. Endo. Rev 32(s), P3-7, 2011.
  45. Khan SH, and Kumar R. Functional consequences of a naturally occurring osmolyte- induced folding of intrinsically disordered AF1 domain of the glucocorticoid receptor. Endo. Rev 32(s), P3-6, 2011.
  46. Wang H, Sun X, Zhang Y, Shi L, Nie W, Li S, Kumar R, Savidge TC, Tzipori S, Wang J, and Feng H. A chimeric vaccine prevents primary and recurrent Clostridium difficile infection. Gastroenterology 140(s), S-103, 2011.
  47. Khan SH, and Kumar R. Osmolyte-induced folding of an intrinsically disordered activation function domain of the glucocorticoid receptor. FASEB J. 25(s), 968.3, 2011.
  48. Kumar R, and Khan SH. Binding-folding induced regulation of the AF1 transactivation domain of the glucocorticoid receptor. FASEB J. 25(s), 968.4, 2011.
  49. Khan SH, Ahmad N, Ahmad F, and Kumar R. Naturally occurring organic osmolytes: From cell physiology to disease prevention. IUBMB Life 62, 891–895, 2010. (Journal Cover Page).
  50. Atamna H, and Kumar R. Potential therapies to prevent mitochondrial dysfunction and malformation of toxic Aβ peptides in Alzheimer’s Disease. J. Alzheimer’s Disease 20,S439-452, 2010.
  51. Garza AS, Khan SH, and Kumar R. Site-specific phosphorylation induces functionally active conformation in the intrinsically disordered N-terminal activation function domain (AF1) of the glucocorticoid receptor. Mol. Cell. Biol. 30, 220-230, 2010. (Selected for Research Highlight).
  52. Kumar R, and Thompson EB. Influence of flanking sequences on signaling between the activation function AF1 and DNA-binding domain of glucocorticoid receptor. Arch. Biochem. Biophys. 496, 140–145, 2010.
  53. Khan SH, Garza AS, Moure CM, Edwards DP, and Kumar R. Binding-folding induced regulation of the glucocorticoid receptor AF1 transactivation domain by a cofactor that binds to its DNA binding domain. FASEB J. 24(s), 857.3, 2010.
  54. Kumar R, Garza AS, and Khan SH. Effects of Site-specific Phosphorylation on the Structure and Functions of the Intrinsically Disordered N-terminal Activation Function (AF1) Domain of the Glucocorticoid Receptor. FASEB J. 24(s), 864.4, 2010.
  55. Salama SA, Kamel MW, Diaz-Arrastia CR, Xu X, Veenstra TD, Salih S, Botting SK, and Kumar R. Effect of TNF-  on estrogen metabolism and endometrial cells: Potential physiological and pathological relevance. Mol. Endocrinol. 23, 124, 2009.
  56. Kumar R. Role of naturally occurring osmolytes in protein folding and stability. Ann. Neurosci. 16(s), 40-41, 2009.
  57. Kumar R. Role of naturally occurring osmolytes on the protein folding and stability.Archives Biochem. Biophys. 491, 1-6, 2009.
  58. Kumar R, and Litwack G. Structure and function relationships of the steroid hormone receptors’ N-terminal transactivation domain. Steroids 74, 877-883, 2009.
  59. Khan SH, and Kumar R. An overview of the importance of conformational flexibility in gene regulation by the transcription factors. J. Biophys. 2009, 210485, 2009.
  60. Garza AS, Ahmad N, and Kumar R. Role of Intrinsically disordered Protein Regions/Domains in Transcriptional Regulation. Life Sci. 84, 189-193, 2009.
  61. 61.Salama SA, Kamel MW, Diaz-Arrastia CR, Xu X, Veenstra TD, Salih S, Botting SK, and Kumar R. Effect of TNF-ά on estrogen metabolism and homeostasis in endometrial cells: A potential relevance to physiological and pathological processes in endometrium. J. Clin. Endocrinol. Metab. 94, 285-93, 2009.
  62. Kumar R. Osmolyte-induced Folding of an Intrinsically Disordered Region of Glucocorticoid Receptor. J. Receptors Signal Trans. 28, 465-474, 2008.
  63. Kumar R, and Calhoun WJ. Differential regulation of the transcriptional activity of the glucocorticoid receptor through site-specific phosphorylation. Biologics: Targets Therapy 2,845–854, 2008.
  64. Jeyabal P, Kumar R, Gangula PR, Micci MA, and Pasricha PJ. Inhibitors of advanced glycation end-products prevent loss of enteric neuronal nitric oxide synthase in diabetic rats. Neurogastro. Motility 253-261, 2008.
  65. Kumar R, and Savidge TC. Enteric neuropathy: NO, SNO in AGEs. OpenGastroenterology J. 2, 11-17, 2008.
  66. Salama AS, Jamaluddin M, Kumar R, Memy HH, and Al-Hendy A. Progesterone regulatescatechol-O-methyltransferase gene expression in breast cancer cells: Distinct effect of progesterone receptor isoforms. J. Steroid Biochem. Mol. Biol. 107, 253-261, 2007.
  67. Kumar R, Serrette JM, Khan SH, Miller AL, and Thompson EB. Differential effects of osmolytes on the induced folding of the glucocorticoid receptor AF1 domain. ArchBiochem. Biophys. 465, 452-460, 2007.
  68. Kumar R, Jeyabal PS, and Pasricha PJ. Role of advanced glycation end products in the pathogenesis of diabetic enteropathy. Gastroenterology 132(s), A113, 2007.
  69. Gangula PR, Micci MA, Winston J, Kumar R, Cao X, and Pasricha PJ. Diabetes induces gender dependent changes in gastric neuronal nitric synthase (nNOS) expression, dimerization and function. Gastroenterology 130(s), A43, 2006.
  70. Copik AJ, Miller AL, Yong Xi, Webb MS, Kumar R, and Thompson EB. Activation function 1 of glucocorticoid receptor binds TATA-binding protein in vitro and in vivo. Mol. Endocrinol. 20, 1218-1230, 2006.
  71. Miller AL, Webb MS, Copik AJ, Wang Y, Johnson BH, Kumar R, and Thompson EB. p38 MAP kinase is a key mediator in glucocorticoid-induced apoptosis of lymphoid cells: Correlation between p38 MAPK activation and site-specific phosphorylation of the human glucocorticoid receptor at Serine 211. Mol. Endocrinol. 19, 1569-1583, 2005.
  72. Kumar R, and Thompson EB. Gene regulation by the glucocorticoid receptor: structure and functions relationship. J. Steroid Biochem. Mol. Biol. 94, 383-394, 2005.
  73. Kumar R, Serrette JM, and Thompson EB. Osmolyte-induced folding enhances tryptic enzyme activity. Arch. Biochem. Biophys. 436, 78-82, 2005.
  74. Thompson EB, and Kumar R. Functional consequences of the dynamic folding of the glucocorticoid receptor N-terminal transcription activating domain (AF1). FEBS J. 272(s),479, 2005.
  75. Kumar R, Volk DE, Li J, Gorenstein DG, Lee JC, and Thompson EB. TBP binding induces structure in the recombinant glucocorticoid receptor AF1 domain. Proc. Natl. Acad. SciUSA 101, 16425-16430, 2004.
  76. Kumar R, Betney R, Li J, Thompson EB, and McEwan IJ. Induced -helix structure in the AF1 of the androgen receptor upon binding transcription factor TFIIF. Biochemistry 43,3008-3013, 2004.
  77. Kumar R, Johnson BH, and Thompson EB. Overview of the structural basis for transcription regulation by nuclear hormone receptors. Essay Biochem. 40, 27-39, 2004.
  78. Kumar R, and Thompson EB. Transactivation functions of the N-terminal domains of nuclear receptors: protein folding and coactivator interactions. Mol. Endocrinol. 17, 1-10,2003.
  79. Aziz MA, Kumar R, and Ahmad N. Cancer chemoprevention by resveratrol: In vitro and in vivo studies and the underlying mechanisms. Int. J. Oncology. 23, 17-28, 2003.
  80. Thompson EB, and Kumar R. DNA binding of nuclear hormone receptors influences their structure and function. Biochem. Biophys. Res. Commun. 306, 1-4, 2003.
  81. Kumar R, Li J, Volk DE, Lee JC, Gorenstein DG, and Thompson EB. Protein:protein interaction induces structure in the recombinant human glucocorticoid receptor transactivation domain. Biophysical J. 84, 338A, 2003.
  82. Kumar R, Lee JC, Bolen DW, and Thompson EB. Role of osmolyte-induced conformation of the glucocorticoid receptor transactivation domain in its interaction with coregulators.FASEB J. 15(s), A527, 2001.
  83. Kumar R, Lee JC, Bolen DW, and Thompson EB. The conformation of the glucocorticoid receptor AF1/tau1 domain induced by osmolyte binds co-regulatory Proteins. J. Biol. Chem. 276, 18146-18152, 2001.
  84. Kumar R, Baskakov IV, Srinivasan G, Bolen DW, Lee JC, and Thompson EB. Inter- domain signaling in a two-domain fragment of the human glucocorticoid receptor. J. Biol.Chem. 274, 24737-24741, 1999.
  85. Baskakov IV, Kumar R, Srinivasan G, Ji Y, Bolen DW, and Thompson EB. Trimethylamine N-oxide-induced cooperative folding of an intrinsically unfoldedtranscription-activating fragment of human glucocorticoid receptor. J. Biol. Chem. 274,10693-10696, 1999.
  86. Baskakov IV, Kumar R, Srinivasan G, Ji YS, Bolen DW, and Thompson EB. TMAO- induced folding of an unfolded glucocorticoid receptor fragment. FASEB J. 13(s), A1486, 1999.
  87. Kumar R, and Thompson EB. The structure of the nuclear hormone receptors. Steroids 64, 310-319, 1999.
  88. Kumar R, Agrawal AK, and Seth PK. Oxidative stress mediated neurotoxicity of cadmium.Toxicol. Lett. 89, 65-69, 1996.
  89. Kumar R, Srivastava S, Agrawal AK, and Seth PK. Alterations in some membrane properties following exposure to manganese. Pharmacol. Toxicol. 79, 47-48, 1996.
  90. Gupta N, Goyal N, Kumar R, Agrawal AK, Seth PK, and Rastogi AK. Membrane characteristics of amastigote like forms of Leshmania Donovani. Tropical Med. Int. Hlth. 1,495-502, 1996.
  91. Kumar R, Agrawal AK, and Seth PK. Free radical generated neurotoxicity of 6- hydroxydopamine. J. Neurochem. 64, 1703-1707, 1995.
  92. Kumar R, Srivastava S, Agrawal AK, and Seth PK. Role of reactive oxygen species in the neurotoxicity of 6-hydroxydopamine. J. Neurochem. 63(s), S21, 1994.
  93. Srivastava S, Agrawal AK, Kumar R, Sethi PPS, and Seth PK. Oxidative stress and platelet function in cerebral thrombosis. J. Neurochem. 63(s), S27, 1994.
  94. Kumar R, Agrawal AK, and Seth PK. Membrane related alterations in rat brain due to manganese. Int. J. Toxicol. Environ. Hlth. 4, 69, 1993.
  95. Kumar R, Agrawal AK, and Seth PK. Alterations in membrane fluidity, intracellular calcium level, lipid peroxidation, reduced glutathione, and phospholipid content in rat brain due to cadmium. Int. J. Toxicol. Environ. Hlth. 3, 91, 1993.
  96. Husain MM, Islam MI, and Kumar R. A viscometric study of polyisobutene-solventinteraction at different temperatures. Asian J. Chem. 5, 1125, 1993.
  97. Husain MM, Islam MI, and Kumar R. Estimation of polymer-solvent interaction parameter K’ for polypropylene in cyclohexane. Asian J. Chem. 5, 769-770, 1993.
  98. Husain MM, and Kumar R. A derivation of Wilkinson’s kinetic equation. Chem. Environ.Research 1, 93-94, 1992.
  99. Miller AL, Johnson BH, Wang Y, Thompson EB, and Kumar R. A naturally occurring molecule, trimethylamine-N-oxide restores dexamethasone sensitivity in steroid-resistantleukemic cells. (In Preparation).
  100. Khan SH and Kumar R. Trehalose-induced folding prevents the aggregation of Amyloid- beta peptide. (In Preparation).
  101. Lopez-Dee Z, Khan SH, , Kumar R. and Ling J. Glucocorticoids differentially regulate gene expression in luminal and basal subtypes of breast cancer. (In Preparation).
  102. Khan SH, Watt K, Kumar R, and McEwan IJ. Trehalose-induced folding of androgen receptor containing polyQ chain extension. (In Preparation).
  103. Garza AS, and Kumar R. Site-specific phosphorylation regulates the structure and functions of the glucocorticoid receptor’s AF1 activation domain. (In Preparation). Invited Book Chapters-
  104. McEwan IJ, and Kumar R. Historical overview of nuclear hormone receptor structure. In “Nuclear Receptors: From Structure to the Clinic”. Chapter 1, Springer Publishers, NY, USA. (In Press).
  105. McEwan IJ, and Kumar R. The glucocorticoid and mineralocorticoid receptors. In “Nuclear Receptors: From Structure to the Clinic”. Chapter 10, Springer Publishers, NY, USA. (In Press).
  106. Khan SH, and Kumar R. Structural analysis of the transcriptional activation domain of the human c-Myc oncogene. In “Protein Structure”, Editor: Lauren M. Haggerty, Nova Science Publishers, Inc, NY. Chapter 4, pp. 1-12, 2011.
  107. Kumar R. Functional significance of intrinsically disordered conformations in activation domains of the transcription factors. In “Protein Folding”, Editor: Eric C. Walters, Nova Science Publishers, Inc, NY. Chapter 18, pp. 1-11, 2011.
  108. Khan SH, and Kumar R. Role of conditional folding of intrinsically disordered domains of the transcription factors. Rec. Res. Dev. Biophys. 5, 371-379, 2006.
  109. Kumar R, Srinivasan G, and Thompson EB. Structure and function of the nuclear hormone receptors. Current Topics Steroid Res. 1, 19-35, 1998.

Patent-

  1. Kumar R, and Pasricha PJ. Thiazolium compounds for treating gastrointestinal complications. US Patent No: WO/2009/023207, 2009.

Books-

  1. Kumar R, and McEwan IJ. Nuclear Receptors: From Structure to the Clinic. Springer Publications, USA (In Press).
  2. Pandey VK, Kumar R, and Ahmad N. Practical Chemistry. First Edition, Alok Prakashan, Lucknow, 1993.

 

Raj Kumar

Professor

 

  • :570-504-9675
  • :570-504-9660
  • DEPARTMENTDepartment of Basic Sciences
    The Common wealth Medical College
  • COUNTRY USA