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Rajanikanth Vadigepalli - Publications

Affiliations: 
Thomas Jefferson University, Philadelphia, PA, United States 
 2001 University of Delaware, Newark, DE, United States 
Website:
https://www.jefferson.edu/university/jmc/departments/pathology/faculty/vadigepalli.html
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40 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Manchel A, Mahadevan R, Bataller R, Hoek JB, Vadigepalli R. Genome-Scale Metabolic Modeling Reveals Sequential Dysregulation of Glutathione Metabolism in Livers from Patients with Alcoholic Hepatitis. Metabolites. 12. PMID 36557195 DOI: 10.3390/metabo12121157  0.456
2020 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. Frontiers in Neuroscience. 14: 375. PMID 32477043 DOI: 10.3389/Fnins.2020.00375  0.302
2020 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. Journal of Visualized Experiments : Jove. PMID 32202523 DOI: 10.3791/60612  0.32
2020 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, ... ... Vadigepalli R, et al. Inflammation-associated suppression of metabolic gene networks in acute and chronic liver disease. Archives of Toxicology. PMID 31919559 DOI: 10.1007/S00204-019-02630-3  0.312
2018 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 Systems Biology. 12: 86. PMID 30285726 DOI: 10.1186/S12918-018-0605-7  0.361
2018 Achanta S, Verma A, Srivastava A, Nilakantan H, Hoek JB, Vadigepalli R. Single cell gene expression analysis identifies chronic alcoholmediated shift in hepatocyte molecular states after partial hepatectomy. Gene Expression. PMID 30189915 DOI: 10.3727/105221618X15361728786767  0.312
2018 Belorkar A, Vadigepalli R, Wong L. SPSNet: subpopulation-sensitive network-based analysis of heterogeneous gene expression data. Bmc Systems Biology. 12: 28. PMID 29560831 DOI: 10.1186/S12918-018-0538-1  0.334
2017 Anderson WD, DeCicco D, Schwaber JS, Vadigepalli R. A data-driven modeling approach to identify disease-specific multi-organ networks driving physiological dysregulation. Plos Computational Biology. 13: e1005627. PMID 28732007 DOI: 10.1371/Journal.Pcbi.1005627  0.362
2016 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. Frontiers in Neuroscience. 10: 481. PMID 27826225 DOI: 10.3389/Fnins.2016.00481  0.312
2016 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. Scientific Reports. 6: 31623. PMID 27530599 DOI: 10.1038/Srep31623  0.307
2016 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. 17: 260. PMID 27012785 DOI: 10.1186/S12864-016-2492-X  0.303
2016 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-κB genome-wide promoter binding during liver regeneration. Molecular Biosystems. 12: 1037-56. PMID 26847025 DOI: 10.1039/C5Mb00740B  0.3
2015 Makadia HK, Schwaber JS, Vadigepalli R. Intracellular Information Processing through Encoding and Decoding of Dynamic Signaling Features. Plos Computational Biology. 11: e1004563. PMID 26491963 DOI: 10.1371/Journal.Pcbi.1004563  0.313
2015 Cook DJ, Patra B, Kuttippurathu L, Hoek JB, Vadigepalli R. A novel, dynamic pattern-based analysis of NF-κB binding during the priming phase of liver regeneration reveals switch-like functional regulation of target genes. Frontiers in Physiology. 6: 189. PMID 26217230 DOI: 10.3389/Fphys.2015.00189  0.31
2015 DeCicco D, Zhu H, Brureau A, Schwaber JS, Vadigepalli R. MicroRNA network changes in the brain stem underlie the development of hypertension. Physiological Genomics. 47: 388-99. PMID 26126791 DOI: 10.1152/Physiolgenomics.00047.2015  0.329
2015 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. The Journal of Physiology. 593: 365-83. PMID 25630259 DOI: 10.1113/Jphysiol.2014.284109  0.309
2015 Park J, Ogunnaike B, Schwaber J, Vadigepalli R. Identifying functional gene regulatory network phenotypes underlying single cell transcriptional variability. Progress in Biophysics and Molecular Biology. 117: 87-98. PMID 25433230 DOI: 10.1016/J.Pbiomolbio.2014.11.004  0.365
2014 Park J, Brureau A, Kernan K, Starks A, Gulati S, Ogunnaike B, Schwaber J, Vadigepalli R. Inputs drive cell phenotype variability. Genome Research. 24: 930-41. PMID 24671852 DOI: 10.1101/Gr.161802.113  0.318
2013 Schwaber JS, Vadigepalli R. Dynamic Transcriptomics: Transcriptomic Discovery of a Biological Multiple-Input Multiple-Output Heart Control Mechanism Ifac Proceedings Volumes. 46: 1-5. DOI: 10.3182/20131216-3-In-2044.00070  0.314
2012 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. 7: e37833. PMID 22662235 DOI: 10.1371/Journal.Pone.0037833  0.317
2012 Freeman K, Staehle MM, Gümüş 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. Alcoholism, Clinical and Experimental Research. 36: 1688-700. PMID 22486438 DOI: 10.1111/J.1530-0277.2012.01791.X  0.306
2012 Vadigepalli R, Gonye GE, Paton JF, Schwaber JS. Adaptive transcriptional dynamics of A2 neurons and central cardiovascular control pathways. Experimental Physiology. 97: 462-8. PMID 22002872 DOI: 10.1113/Expphysiol.2011.059790  0.333
2010 Miller GM, Ogunnaike BA, Schwaber JS, Vadigepalli R. Robust dynamic balance of AP-1 transcription factors in a neuronal gene regulatory network. Bmc Systems Biology. 4: 171. PMID 21167049 DOI: 10.1186/1752-0509-4-171  0.337
2009 Narasimhan S, Rengaswamy R, Vadigepalli R. Structural properties of gene regulatory networks: definitions and connections. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 6: 158-70. PMID 19179709 DOI: 10.1109/Tcbb.2007.70231  0.319
2008 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. 9: 527. PMID 18990226 DOI: 10.1186/1471-2164-9-527  0.319
2008 Khan RL, Vadigepalli R, McDonald MK, Rogers RF, Gao GR, Schwaber JS. Dynamic transcriptomic response to acute hypertension in the nucleus tractus solitarius. American Journal of Physiology. Regulatory, Integrative and Comparative Physiology. 295: R15-27. PMID 18434436 DOI: 10.1152/Ajpregu.00152.2008  0.363
2007 Gonye GE, Chakravarthula P, Schwaber JS, Vadigepalli R. From promoter analysis to transcriptional regulatory network prediction using PAINT. Methods in Molecular Biology (Clifton, N.J.). 408: 49-68. PMID 18314577 DOI: 10.1007/978-1-59745-547-3_4  0.324
2007 Vadigepalli R, Khan RL, McDonald MK, Schwaber JS. Analysis of transcriptional regulation underlying central neural control mechanisms in acute hypertension The Faseb Journal. 21. DOI: 10.1096/Fasebj.21.5.A465-A  0.308
2005 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. Physiological Genomics. 24: 45-58. PMID 16189278 DOI: 10.1152/Physiolgenomics.00184.2005  0.318
2005 Keller MA, Addya S, Vadigepalli R, Ponte CM, Banini B, Delgrosso K, Surrey S. Transcriptome Analysis of Human Hematopoietic Progenitor Cells during In Vitro Erythroid Differentiation. Blood. 106: 1750-1750. DOI: 10.1182/Blood.V106.11.1750.1750  0.32
2005 Zak DE, Vadigepalli R, Gonye GE, Doyle FJ, Schwaber JS, Ogunnaike BA. Unconventional systems analysis problems in molecular biology: A case study in gene regulatory network modeling Computers and Chemical Engineering. 29: 547-563. DOI: 10.1016/J.Compchemeng.2004.08.016  0.471
2004 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. Physiological Genomics. 19: 117-30. PMID 15252187 DOI: 10.1152/Physiolgenomics.00028.2004  0.309
2003 Zak DE, Pearson RK, Vadigepalli R, Gonye GE, Schwaber JS, Doyle FJ. Continuous-time identification of gene expression models. Omics : a Journal of Integrative Biology. 7: 373-86. PMID 14683610 DOI: 10.1089/153623103322637689  0.512
2003 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 : a Journal of Integrative Biology. 7: 235-52. PMID 14583114 DOI: 10.1089/153623103322452378  0.34
2003 Vadigepalli R, Doyle F. A distributed state estimation and control algorithm for plantwide processes Ieee Transactions On Control Systems Technology. 11: 119-127. DOI: 10.1109/Tcst.2002.806462  0.47
2003 Vadigepalli R, Doyle FJ. Structural analysis of large-scale systems for distributed state estimation and control applications Control Engineering Practice. 11: 895-905. DOI: 10.1016/S0967-0661(02)00284-8  0.476
2001 Vadigepalli R, Doyle FJ, Schwaber JS. Analysis and neuronal modeling of the nonlinear characteristics of a local cardiac reflex in the rat. Neural Computation. 13: 2239-71. PMID 11570998 DOI: 10.1162/089976601750541796  0.46
2001 Vadigepalli R, Gatzke EP, Doyle FJ. Robust Control of a Multivariable Experimental Four-Tank System Industrial & Engineering Chemistry Research. 40: 1916-1927. DOI: 10.1021/Ie000381P  0.675
2001 Vadigepalli R, Doyle FJ. A multi-rate distributed estimation and control algorithm for large scale processes Ifac Proceedings Volumes. 34: 263-268. DOI: 10.1016/S1474-6670(17)33834-X  0.455
2000 Doyle F, Meadows E, Gatzke E, Vadigepalli R, Mahadevan K, Whitmyre G, Troutman K, Stoole G, Rickards P. Innovative Control Education Using a 4-Tank Experiment and The WWW Ifac Proceedings Volumes. 33: 325-330. DOI: 10.1016/S1474-6670(17)37883-7  0.669
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