Rajanikanth Vadigepalli

TitleProfessor
InstitutionThomas Jefferson University
DepartmentPathology
Address1020 Locust St.
Philadelphia PA 19107
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    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. Hanna P, Dacey MJ, Brennan J, Moss A, Robbins S, Achanta S, Biscola NP, Swid MA, Rajendran PS, Mori S, Hadaya JE, Smith EH, Peirce SG, Chen J, Havton LA, Cheng ZJ, Vadigepalli R, Schwaber J, Lux RL, Efimov I, Tompkins JD, Hoover DB, Ardell JL, Shivkumar K. Innervation and Neuronal Control of the Mammalian Sinoatrial Node a Comprehensive Atlas. Circ Res. 2021 Apr 30; 128(9):1279-1296. PMID: 33629877.
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    2. Gorky J, Moss A, Balycheva M, Vadigepalli R, Schwaber JS. Input-output signal processing plasticity of vagal motor neurons in response to cardiac ischemic injury. iScience. 2021 Mar 19; 24(3):102143. PMID: 33665562.
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    3. Massey V, Parrish A, Argemi J, Moreno M, Mello A, García-Rocha M, Altamirano J, Odena G, Dubuquoy L, Louvet A, Martinez C, Adrover A, Affò S, Morales-Ibanez O, Sancho-Bru P, Millán C, Alvarado-Tapias E, Morales-Arraez D, Caballería J, Mann J, Cao S, Sun Z, Shah V, Cameron A, Mathurin P, Snider N, Villanueva C, Morgan TR, Guinovart J, Vadigepalli R, Bataller R. INTEGRATED MULTI-OMICS REVEALS GLUCOSE USE REPROGRAMMING AND IDENTIFIES A NOVEL HEXOKINASE IN ALCOHOLIC HEPATITIS. Gastroenterology. 2020 Dec 09. PMID: 33309778.
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    4. Erdemir A, Mulugeta L, Ku JP, Drach A, Horner M, Morrison TM, Peng GCY, Vadigepalli R, Lytton WW, Myers JG. Credible practice of modeling and simulation in healthcare: ten rules from a multidisciplinary perspective. J Transl Med. 2020 09 29; 18(1):369. PMID: 32993675.
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    5. Chen J, Argemi J, Odena G, Xu MJ, Cai Y, Massey V, Parrish A, Vadigepalli R, Altamirano J, Cabezas J, Gines P, Caballeria J, Snider N, Sancho-Bru P, Akira S, Rusyn I, Gao B, Bataller R. Hepatic lipocalin 2 promotes liver fibrosis and portal hypertension. Sci Rep. 2020 09 23; 10(1):15558. PMID: 32968110.
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    6. Achanta S, Gorky J, Leung C, Moss A, Robbins S, Eisenman L, Chen J, Tappan S, Heal M, Farahani N, Huffman T, England S, Cheng ZJ, Vadigepalli R, Schwaber JS. A Comprehensive Integrated Anatomical and Molecular Atlas of Rat Intrinsic Cardiac Nervous System. iScience. 2020 Jun 26; 23(6):101140. PMID: 32460006.
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    7. Park JH, Gorky J, Ogunnaike B, Vadigepalli R, Schwaber JS. Investigating the Effects of Brainstem Neuronal Adaptation on Cardiovascular Homeostasis. Front Neurosci. 2020; 14:470. PMID: 32508573.
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    8. Staehle MM, O'Sullivan S, Vadigepalli R, Kernan KF, Gonye GE, Ogunnaike BA, Schwaber JS. Diurnal Patterns of Gene Expression in the Dorsal Vagal Complex and the Central Nucleus of the Amygdala - Non-rhythm-generating Brain Regions. Front Neurosci. 2020; 14:375. PMID: 32477043.
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    9. O'Sullivan SJ, Reyes BAS, Vadigepalli R, Van Bockstaele EJ, Schwaber JS. Combining Laser Capture Microdissection and Microfluidic qPCR to Analyze Transcriptional Profiles of Single Cells: A Systems Biology Approach to Opioid Dependence. J Vis Exp. 2020 Mar 08; (157). PMID: 32202523.
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    10. Campos G, Schmidt-Heck W, De Smedt J, Widera A, Ghallab A, Pütter L, González D, Edlund K, Cadenas C, Marchan R, Guthke R, Verfaillie C, Hetz C, Sachinidis A, Braeuning A, Schwarz M, Weiß TS, Banhart BK, Hoek J, Vadigepalli R, Willy J, Stevens JL, Hay DC, Hengstler JG, Godoy P. Inflammation-associated suppression of metabolic gene networks in acute and chronic liver disease. Arch Toxicol. 2020 Jan 09. PMID: 31919559.
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    11. Furuya S, Argemi J, Uehara T, Katou Y, Fouts DE, Schnabl B, Dubuquoy L, Belorkar A, Vadigepalli R, Kono H, Bataller R, Rusyn I. A Novel Mouse Model of Acute-on-Chronic Cholestatic Alcoholic Liver Disease: A Systems Biology Comparison With Human Alcoholic Hepatitis. Alcohol Clin Exp Res. 2019 Nov 10. PMID: 31710124.
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    12. O'Sullivan SJ, Malahias E, Park J, Srivastava A, Reyes BAS, Gorky J, Vadigepalli R, Van Bockstaele EJ, Schwaber JS. Single-Cell Glia and Neuron Gene Expression in the Central Amygdala in Opioid Withdrawal Suggests Inflammation With Correlated Gut Dysbiosis. Front Neurosci. 2019; 13:665. PMID: 31333398.
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    13. Verma BK, Subramaniam P, Vadigepalli R. Model-based virtual patient analysis of human liver regeneration predicts critical perioperative factors controlling the dynamic mode of response to resection. BMC Syst Biol. 2019 Jan 16; 13(1):9. PMID: 30651095.
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    14. Verma A, Antony AN, Ogunnaike BA, Hoek JB, Vadigepalli R. Causality Analysis and Cell Network Modeling of Spatial Calcium Signaling Patterns in Liver Lobules. Front Physiol. 2018; 9:1377. PMID: 30337879.
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    15. Cook D, Achanta S, Hoek JB, Ogunnaike BA, Vadigepalli R. Cellular network modeling and single cell gene expression analysis reveals novel hepatic stellate cell phenotypes controlling liver regeneration dynamics. BMC Syst Biol. 2018 Oct 03; 12(1):86. PMID: 30285726.
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    16. Achanta S, Verma A, Srivastava A, Nilakantan H, Hoek JB, Vadigepalli R. Single cell gene expression analysis identifies chronic alcohol-mediated shift in hepatocyte molecular states after partial hepatectomy. Gene Expr. 2018 Sep 06. PMID: 30189915.
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    17. Verma BK, Subramaniam P, Vadigepalli R. Modeling the Dynamics of Human Liver Failure Post Liver Resection. Processes (Basel). 2018 Aug; 6(8). PMID: 31131255.
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    18. Mulugeta L, Drach A, Erdemir A, Hunt CA, Horner M, Ku JP, Myers JG, Vadigepalli R, Lytton WW. Credibility, Replicability, and Reproducibility in Simulation for Biomedicine and Clinical Applications in Neuroscience. Front Neuroinform. 2018; 12:18. PMID: 29713272.
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    19. Belorkar A, Vadigepalli R, Wong L. SPSNet: subpopulation-sensitive network-based analysis of heterogeneous gene expression data. BMC Syst Biol. 2018 Mar 19; 12(Suppl 2):28. PMID: 29560831.
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    20. Vadigepalli R, Hoek JB. Alcohol and epigenetic regulation: Do the products of alcohol metabolism drive epigenetic control of gene expression in alcohol-related disorders? Alcohol Clin Exp Res. 2018 Mar 13. PMID: 29532481.
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    21. Anderson WD, Greenhalgh AD, Takwale A, David S, Vadigepalli R. Novel Influences of IL-10 on CNS Inflammation Revealed by Integrated Analyses of Cytokine Networks and Microglial Morphology. Front Cell Neurosci. 2017; 11:233. PMID: 28855862.
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    22. Anderson WD, DeCicco D, Schwaber JS, Vadigepalli R. A data-driven modeling approach to identify disease-specific multi-organ networks driving physiological dysregulation. PLoS Comput Biol. 2017 Jul; 13(7):e1005627. PMID: 28732007.
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    23. Anderson WD, Vadigepalli R. Modeling cytokine regulatory network dynamics driving neuroinflammation in central nervous system disorders. Drug Discov Today Dis Models. 2016; 19:59-67. PMID: 28947907.
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    24. Kuttippurathu L, Patra B, Cook D, Hoek JB, Vadigepalli R. Pattern analysis uncovers a chronic ethanol-induced disruption of the switch-like dynamics of C/EBP-ß and C/EBP-a genome-wide binding during liver regeneration. Physiol Genomics. 2016 Nov 4; physiolgenomics.00097.2016. PMID: 27815535.
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    25. Park J, Zhu H, O'Sullivan S, Ogunnaike BA, Weaver DR, Schwaber JS, Vadigepalli R. Single-Cell Transcriptional Analysis Reveals Novel Neuronal Phenotypes and Interaction Networks Involved in the Central Circadian Clock. Front Neurosci. 2016; 10:481. PMID: 27826225.
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    26. Juskeviciute E, Dippold RP, Antony AN, Swarup A, Vadigepalli R, Hoek JB. Inhibition of miR-21 rescues liver regeneration after partial hepatectomy in ethanol-fed rats. Am J Physiol Gastrointest Liver Physiol. 2016 Nov 01; 311(5):G794-G806. PMID: 27634014.
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    27. Boxman J, Sagy N, Achanta S, Vadigepalli R, Nachman I. Integrated live imaging and molecular profiling of embryoid bodies reveals a synchronized progression of early differentiation. Sci Rep. 2016; 6:31623. PMID: 27530599.
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    28. Marvar PJ, Hendy EB, Cruise TD, Walas D, DeCicco D, Vadigepalli R, Schwaber JS, Waki H, Murphy D, Paton JF. Systemic leukotriene B4 receptor antagonism lowers arterial blood pressure and improves autonomic function in the spontaneously hypertensive rat. J Physiol. 2016 Oct 15; 594(20):5975-5989. PMID: 27230966.
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    29. Romeo C, Weber MC, Zarei M, DeCicco D, Chand SN, Lobo AD, Winter JM, Sawicki JA, Sachs JN, Meisner-Kober N, Yeo CJ, Vadigepalli R, Tykocinski ML, Brody JR. HuR Contributes to TRAIL Resistance by Restricting Death Receptor 4 Expression in Pancreatic Cancer Cells. Mol Cancer Res. 2016 Jul; 14(7):599-611. PMID: 27053682.
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    30. Verma A, Makadia H, Hoek JB, Ogunnaike BA, Vadigepalli R. Computational Modeling of Spatiotemporal Ca(2+) Signal Propagation Along Hepatocyte Cords. IEEE Trans Biomed Eng. 2016 Oct; 63(10):2047-55. PMID: 27076052.
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    31. Kuttippurathu L, Juskeviciute E, Dippold RP, Hoek JB, Vadigepalli R. A novel comparative pattern analysis approach identifies chronic alcohol mediated dysregulation of transcriptomic dynamics during liver regeneration. BMC Genomics. 2016; 17(1):260. PMID: 27012785.
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    32. Kuttippurathu L, Patra B, Hoek JB, Vadigepalli R. A novel comparative pattern count analysis reveals a chronic ethanol-induced dynamic shift in immediate early NF-?B genome-wide promoter binding during liver regeneration. Mol Biosyst. 2016 Feb 23; 12(3):1037-56. PMID: 26847025.
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    33. Anderson WD, Makadia HK, Vadigepalli R. Erratum to: Molecular variability elicits a tunable switch with discrete neuromodulatory response phenotypes. J Comput Neurosci. 2016 Feb; 40(1):83. PMID: 26791519.
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    34. Anderson WD, Makadia HK, Vadigepalli R. Molecular variability elicits a tunable switch with discrete neuromodulatory response phenotypes. J Comput Neurosci. 2016 Feb; 40(1):65-82. PMID: 26621106.
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    35. Anderson WD, Makadia HK, Greenhalgh AD, Schwaber JS, David S, Vadigepalli R. Computational modeling of cytokine signaling in microglia. Mol Biosyst. 2015 Nov 10; 11(12):3332-46. PMID: 26440115.
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    36. Cook D, Ogunnaike BA, Vadigepalli R. Systems analysis of non-parenchymal cell modulation of liver repair across multiple regeneration modes. BMC Syst Biol. 2015; 9(1):71. PMID: 26493454.
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    37. Makadia HK, Schwaber JS, Vadigepalli R. Intracellular Information Processing through Encoding and Decoding of Dynamic Signaling Features. PLoS Comput Biol. 2015 Oct; 11(10):e1004563. PMID: 26491963.
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    38. Nilakantan H, Kuttippurathu L, Parrish A, Hoek JB, Vadigepalli R. In Vivo Zonal Variation and Liver Cell-Type Specific NF-?B Localization after Chronic Adaptation to Ethanol and following Partial Hepatectomy. PLoS One. 2015; 10(10):e0140236. PMID: 26452159.
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    39. Cook DJ, Patra B, Kuttippurathu L, Hoek JB, Vadigepalli R. A novel, dynamic pattern-based analysis of NF-?B binding during the priming phase of liver regeneration reveals switch-like functional regulation of target genes. Front Physiol. 2015; 6:189. PMID: 26217230.
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    40. DeCicco D, Zhu H, Brureau A, Schwaber JS, Vadigepalli R. MicroRNA network changes in the brain stem underlie the development of hypertension. Physiol Genomics. 2015 Sep; 47(9):388-99. PMID: 26126791.
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    41. Correnti JM, Cook D, Aksamitiene E, Swarup A, Ogunnaike B, Vadigepalli R, Hoek JB. Adiponectin fine-tuning of liver regeneration dynamics revealed through cellular network modelling. J Physiol. 2015 Jan 15; 593(2):365-83. PMID: 25630259.
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    42. Makadia HK, Anderson WD, Fey D, Sauter T, Schwaber JS, Vadigepalli R. Multiscale model of dynamic neuromodulation integrating neuropeptide-induced signaling pathway activity with membrane electrophysiology. Biophys J. 2015 Jan 6; 108(1):211-23. PMID: 25564868.
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    43. Park J, Ogunnaike B, Schwaber J, Vadigepalli R. Identifying functional gene regulatory network phenotypes underlying single cell transcriptional variability. Prog Biophys Mol Biol. 2015 Jan; 117(1):87-98. PMID: 25433230.
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    44. Park J, Brureau A, Kernan K, Starks A, Gulati S, Ogunnaike B, Schwaber J, Vadigepalli R. Inputs drive cell phenotype variability. Genome Res. 2014 Jun; 24(6):930-41. PMID: 24671852.
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    45. Telesco SE, Vadigepalli R, Radhakrishnan R. Molecular modeling of ErbB4/HER4 kinase in the context of the HER4 signaling network helps rationalize the effects of clinically identified HER4 somatic mutations on the cell phenotype. Biotechnol J. 2013 Dec; 8(12):1452-64. PMID: 24318637.
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    46. Sánchez-Alvarez R, Gayen S, Vadigepalli R, Anni H. Ethanol diverts early neuronal differentiation trajectory of embryonic stem cells by disrupting the balance of lineage specifiers. PLoS One. 2013; 8(5):e63794. PMID: 23724002.
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    47. Ogony JW, Malahias E, Vadigepalli R, Anni H. Ethanol alters the balance of sox2, oct4, and nanog expression in distinct subpopulations during differentiation of embryonic stem cells. Stem Cells Dev. 2013 Aug 1; 22(15):2196-210. PMID: 23470161.
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    48. Solomides CC, Evans BJ, Navenot JM, Vadigepalli R, Peiper SC, Wang ZX. MicroRNA Profiling in Lung Cancer Reveals New Molecular Markers for Diagnosis. Acta Cytol. 2012; 56(6):645-54. PMID: 23207443.
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    49. Buraschi S, Neill T, Owens RT, Iniguez LA, Purkins G, Vadigepalli R, Evans B, Schaefer L, Peiper SC, Wang ZX, Iozzo RV. Decorin protein core affects the global gene expression profile of the tumor microenvironment in a triple-negative orthotopic breast carcinoma xenograft model. PLoS One. 2012; 7(9):e45559. PMID: 23029096.
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    50. Freeman K, Staehle MM, Vadigepalli R, Gonye GE, Ogunnaike BA, Hoek JB, Schwaber JS. Coordinated dynamic gene expression changes in the central nucleus of the amygdala during alcohol withdrawal. Alcohol Clin Exp Res. 2013 Jan; 37 Suppl 1:E88-E100. PMID: 22827539.
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    51. Dippold RP, Vadigepalli R, Gonye GE, Patra B, Hoek JB. Chronic Ethanol Feeding Alters miRNA Expression Dynamics During Liver Regeneration. Alcohol Clin Exp Res. 2013 Jan; 37 Suppl 1:E59-69. PMID: 22823254.
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    52. Dippold RP, Vadigepalli R, Gonye GE, Hoek JB. Chronic ethanol feeding enhances miR-21 induction during liver regeneration while inhibiting proliferation in rats. Am J Physiol Gastrointest Liver Physiol. 2012 Sep 15; 303(6):G733-43. PMID: 22790595.
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    53. Schneider JS, Anderson DW, Talsania K, Mettil W, Vadigepalli R. Effects of developmental lead exposure on the hippocampal transcriptome: influences of sex, developmental period, and lead exposure level. Toxicol Sci. 2012 Sep; 129(1):108-25. PMID: 22641619.
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    54. Zhu H, Vadigepalli R, Rafferty R, Gonye GE, Weaver DR, Schwaber JS. Integrative gene regulatory network analysis reveals light-induced regional gene expression phase shift programs in the mouse suprachiasmatic nucleus. PLoS One. 2012; 7(5):e37833. PMID: 22662235.
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    55. Freeman K, Brureau A, Vadigepalli R, Staehle MM, Brureau MM, Gonye GE, Hoek JB, Hooper DC, Schwaber JS. Temporal changes in innate immune signals in a rat model of alcohol withdrawal in emotional and cardiorespiratory homeostatic nuclei. J Neuroinflammation. 2012; 9:97. PMID: 22626265.
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    56. Freeman K, Staehle MM, Gümüs ZH, Vadigepalli R, Gonye GE, Nichols CN, Ogunnaike BA, Hoek JB, Schwaber JS. Rapid temporal changes in the expression of a set of neuromodulatory genes during alcohol withdrawal in the dorsal vagal complex: molecular evidence of homeostatic disturbance. Alcohol Clin Exp Res. 2012 Oct; 36(10):1688-700. PMID: 22486438.
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    57. Vadigepalli R, Gonye GE, Paton JF, Schwaber JS. Adaptive transcriptional dynamics of A2 neurons and central cardiovascular control pathways. Exp Physiol. 2012 Apr; 97(4):462-8. PMID: 22002872.
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    58. Schneider JS, Anderson DW, Sonnenahalli H, Vadigepalli R. Sex-based differences in gene expression in hippocampus following postnatal lead exposure. Toxicol Appl Pharmacol. 2011 Oct 15; 256(2):179-90. PMID: 21864555.
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    59. Miller GM, Ogunnaike BA, Schwaber JS, Vadigepalli R. Robust dynamic balance of AP-1 transcription factors in a neuronal gene regulatory network. BMC Syst Biol. 2010; 4:171. PMID: 21167049.
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    60. Narasimhan S, Rengaswamy R, Vadigepalli R. Structural properties of gene regulatory networks: definitions and connections. IEEE/ACM Trans Comput Biol Bioinform. 2009 Jan-Mar; 6(1):158-70. PMID: 19179709.
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    61. Juskeviciute E, Vadigepalli R, Hoek JB. Temporal and functional profile of the transcriptional regulatory network in the early regenerative response to partial hepatectomy in the rat. BMC Genomics. 2008; 9:527. PMID: 18990226.
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    62. Pratt CH, Vadigepalli R, Chakravarthula P, Gonye GE, Philp NJ, Grunwald GB. Transcriptional regulatory network analysis during epithelial-mesenchymal transformation of retinal pigment epithelium. Mol Vis. 2008; 14:1414-28. PMID: 18682805.
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    63. Khan RL, Vadigepalli R, McDonald MK, Rogers RF, Gao GR, Schwaber JS. Dynamic transcriptomic response to acute hypertension in the nucleus tractus solitarius. Am J Physiol Regul Integr Comp Physiol. 2008 Jul; 295(1):R15-27. PMID: 18434436.
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    64. Saban R, Simpson C, Vadigepalli R, Memet S, Dozmorov I, Saban MR. Bladder inflammatory transcriptome in response to tachykinins: neurokinin 1 receptor-dependent genes and transcription regulatory elements. BMC Urol. 2007; 7:7. PMID: 17519035.
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    65. Gonye GE, Chakravarthula P, Schwaber JS, Vadigepalli R. From promoter analysis to transcriptional regulatory network prediction using PAINT. Methods Mol Biol. 2007; 408:49-68. PMID: 18314577.
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    66. Vadigepalli R, Hao H, Miller GM, Liu H, Schwaber JS. Epidermal growth factor receptor-induced circadian-time-dependent gene regulation in suprachiasmatic nucleus. Neuroreport. 2006 Sep 18; 17(13):1437-41. PMID: 16932154.
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    67. Keller MA, Addya S, Vadigepalli R, Banini B, Delgrosso K, Huang H, Surrey S. Transcriptional regulatory network analysis of developing human erythroid progenitors reveals patterns of coregulation and potential transcriptional regulators. Physiol Genomics. 2006 Dec 13; 28(1):114-28. PMID: 16940433.
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    68. Saban MR, Hellmich HL, Turner M, Nguyen NB, Vadigepalli R, Dyer DW, Hurst RE, Centola M, Saban R. The inflammatory and normal transcriptome of mouse bladder detrusor and mucosa. BMC Physiol. 2006; 6:1. PMID: 16420690.
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    69. Zak DE, Hao H, Vadigepalli R, Miller GM, Ogunnaike BA, Schwaber JS. Systems analysis of circadian time-dependent neuronal epidermal growth factor receptor signaling. Genome Biol. 2006; 7(6):R48. PMID: 16784547.
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    70. Covarrubias MY, Khan RL, Vadigepalli R, Hoek JB, Schwaber JS. Chronic alcohol exposure alters transcription broadly in a key integrative brain nucleus for homeostasis: the nucleus tractus solitarius. Physiol Genomics. 2005 Dec 14; 24(1):45-58. PMID: 16189278.
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    71. Addya S, Keller MA, Delgrosso K, Ponte CM, Vadigepalli R, Gonye GE, Surrey S. Erythroid-induced commitment of K562 cells results in clusters of differentially expressed genes enriched for specific transcription regulatory elements. Physiol Genomics. 2004 Sep 16; 19(1):117-30. PMID: 15252187.
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    72. Vadigepalli R, Chakravarthula P, Zak DE, Schwaber JS, Gonye GE. PAINT: a promoter analysis and interaction network generation tool for gene regulatory network identification. OMICS. 2003; 7(3):235-52. PMID: 14583114.
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    73. Zak DE, Pearson RK, Vadigepalli R, Gonye GE, Schwaber JS, Doyle FJ. Continuous-time identification of gene expression models. OMICS. 2003; 7(4):373-86. PMID: 14683610.
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    74. Vadigepalli R, Doyle FJ, Schwaber JS. Analysis and neuronal modeling of the nonlinear characteristics of a local cardiac reflex in the rat. Neural Comput. 2001 Oct; 13(10):2239-71. PMID: 11570998.
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