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Last Name
Institution

Rajanikanth Vadigepalli

TitleAssoc Professor
InstitutionThomas Jefferson University
DepartmentPathology
Address1020 Locust St.
Philadelphia PA 19107
Phone215-503-7823

 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. 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.
    View in: PubMed
  2. 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.
    View in: PubMed
  3. 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.
    View in: PubMed
  4. 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.
    View in: PubMed
  5. 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.
    View in: PubMed
  6. 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.
    View in: PubMed
  7. 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.
    View in: PubMed
  8. 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.
    View in: PubMed
  9. 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.
    View in: PubMed
  10. 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.
    View in: PubMed
  11. 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.
    View in: PubMed
  12. 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.
    View in: PubMed
  13. 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.
    View in: PubMed
  14. 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.
    View in: PubMed
  15. 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 modeling. J Physiol. 2014 Nov 10.
    View in: PubMed
  16. 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.
    View in: PubMed
  17. 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.
    View in: PubMed
  18. 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.
    View in: PubMed
  19. 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.
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  20. 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.
    View in: PubMed
  21. 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.
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  22. 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.
    View in: PubMed
  23. 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.
    View in: PubMed
  24. 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.
    View in: PubMed
  25. 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.
    View in: PubMed
  26. 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.
    View in: PubMed
  27. 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.
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  28. 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.
    View in: PubMed
  29. 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.
    View in: PubMed
  30. 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.
    View in: PubMed
  31. 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.
    View in: PubMed
  32. 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.
    View in: PubMed
  33. 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.
    View in: PubMed
  34. 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.
    View in: PubMed
  35. 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.
    View in: PubMed
  36. 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.
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  37. 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.
    View in: PubMed
  38. 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.
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  39. 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.
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  40. 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.
    View in: PubMed
  41. 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.
    View in: PubMed
  42. 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.
    View in: PubMed
  43. 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.
    View in: PubMed
  44. 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.
    View in: PubMed
  45. 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.
    View in: PubMed
  46. 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.
    View in: PubMed
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