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Items: 1 to 50 of 137

1.

A data-driven modeling approach to identify disease-specific multi-organ networks driving physiological dysregulation.

Anderson WD, DeCicco D, Schwaber JS, Vadigepalli R.

PLoS Comput Biol. 2017 Jul 21;13(7):e1005627. doi: 10.1371/journal.pcbi.1005627. eCollection 2017 Jul.

2.

Multiscale modeling in the clinic: diseases of the brain and nervous system.

Lytton WW, Arle J, Bobashev G, Ji S, Klassen TL, Marmarelis VZ, Schwaber J, Sherif MA, Sanger TD.

Brain Inform. 2017 Dec;4(4):219-230. doi: 10.1007/s40708-017-0067-5. Epub 2017 May 9. Review.

3.

Single-Cell Transcriptional Analysis Reveals Novel Neuronal Phenotypes and Interaction Networks Involved in the Central Circadian Clock.

Park J, Zhu H, O'Sullivan S, Ogunnaike BA, Weaver DR, Schwaber JS, Vadigepalli R.

Front Neurosci. 2016 Oct 25;10:481. eCollection 2016.

4.

Systemic leukotriene B4 receptor antagonism lowers arterial blood pressure and improves autonomic function in the spontaneously hypertensive rat.

Marvar PJ, Hendy EB, Cruise TD, Walas D, DeCicco D, Vadigepalli R, Schwaber JS, Waki H, Murphy D, Paton JF.

J Physiol. 2016 Oct 15;594(20):5975-5989. doi: 10.1113/JP272065. Epub 2016 Jul 8.

5.

Filling the void: allogeneic myeloid cells for transplantation.

Schwaber JL, Brunck ME, Lévesque JP, Nielsen LK.

Curr Opin Hematol. 2016 Jan;23(1):72-7. doi: 10.1097/MOH.0000000000000205. Review.

PMID:
26554894
6.

Intracellular Information Processing through Encoding and Decoding of Dynamic Signaling Features.

Makadia HK, Schwaber JS, Vadigepalli R.

PLoS Comput Biol. 2015 Oct 22;11(10):e1004563. doi: 10.1371/journal.pcbi.1004563. eCollection 2015 Oct.

7.

Computational modeling of cytokine signaling in microglia.

Anderson WD, Makadia HK, Greenhalgh AD, Schwaber JS, David S, Vadigepalli R.

Mol Biosyst. 2015 Dec;11(12):3332-46. doi: 10.1039/c5mb00488h.

8.

The role of the gut-brain axis in alcohol use disorders.

Gorky J, Schwaber J.

Prog Neuropsychopharmacol Biol Psychiatry. 2016 Feb 4;65:234-41. doi: 10.1016/j.pnpbp.2015.06.013. Epub 2015 Jul 16. Review.

9.

MicroRNA network changes in the brain stem underlie the development of hypertension.

DeCicco D, Zhu H, Brureau A, Schwaber JS, Vadigepalli R.

Physiol Genomics. 2015 Sep;47(9):388-99. doi: 10.1152/physiolgenomics.00047.2015. Epub 2015 Jun 30.

10.

Multiscale model of dynamic neuromodulation integrating neuropeptide-induced signaling pathway activity with membrane electrophysiology.

Makadia HK, Anderson WD, Fey D, Sauter T, Schwaber JS, Vadigepalli R.

Biophys J. 2015 Jan 6;108(1):211-23. doi: 10.1016/j.bpj.2014.11.1851.

11.

Identifying functional gene regulatory network phenotypes underlying single cell transcriptional variability.

Park J, Ogunnaike B, Schwaber J, Vadigepalli R.

Prog Biophys Mol Biol. 2015 Jan;117(1):87-98. doi: 10.1016/j.pbiomolbio.2014.11.004. Epub 2014 Nov 27.

12.

Inputs drive cell phenotype variability.

Park J, Brureau A, Kernan K, Starks A, Gulati S, Ogunnaike B, Schwaber J, Vadigepalli R.

Genome Res. 2014 Jun;24(6):930-41. doi: 10.1101/gr.161802.113. Epub 2014 Mar 26.

13.

Coordinated dynamic gene expression changes in the central nucleus of the amygdala during alcohol withdrawal.

Freeman K, Staehle MM, Vadigepalli R, Gonye GE, Ogunnaike BA, Hoek JB, Schwaber JS.

Alcohol Clin Exp Res. 2013 Jan;37 Suppl 1:E88-100. doi: 10.1111/j.1530-0277.2012.01910.x. Epub 2012 Jul 24.

14.

Integrative gene regulatory network analysis reveals light-induced regional gene expression phase shift programs in the mouse suprachiasmatic nucleus.

Zhu H, Vadigepalli R, Rafferty R, Gonye GE, Weaver DR, Schwaber JS.

PLoS One. 2012;7(5):e37833. doi: 10.1371/journal.pone.0037833. Epub 2012 May 25.

15.

Temporal changes in innate immune signals in a rat model of alcohol withdrawal in emotional and cardiorespiratory homeostatic nuclei.

Freeman K, Brureau A, Vadigepalli R, Staehle MM, Brureau MM, Gonye GE, Hoek JB, Hooper DC, Schwaber JS.

J Neuroinflammation. 2012 May 24;9:97. doi: 10.1186/1742-2094-9-97.

16.

The neuroscience-systems biology disconnect: towards the NeuroPhysiome.

Morris KF, Schwaber JS.

Exp Physiol. 2012 Apr;97(4):452-4. doi: 10.1113/expphysiol.2011.058297. No abstract available.

17.

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.

Freeman K, Staehle MM, Gümüş ZH, Vadigepalli R, Gonye GE, Nichols CN, Ogunnaike BA, Hoek JB, Schwaber JS.

Alcohol Clin Exp Res. 2012 Oct;36(10):1688-700. doi: 10.1111/j.1530-0277.2012.01791.x. Epub 2012 Apr 6.

18.

Adaptive transcriptional dynamics of A2 neurons and central cardiovascular control pathways.

Vadigepalli R, Gonye GE, Paton JF, Schwaber JS.

Exp Physiol. 2012 Apr;97(4):462-8. doi: 10.1113/expphysiol.2011.059790. Epub 2011 Oct 14. Review.

19.

Robust dynamic balance of AP-1 transcription factors in a neuronal gene regulatory network.

Miller GM, Ogunnaike BA, Schwaber JS, Vadigepalli R.

BMC Syst Biol. 2010 Dec 17;4:171. doi: 10.1186/1752-0509-4-171.

20.

A fast carrier chromatin immunoprecipitation method applicable to microdissected tissue samples.

Hao H, Liu H, Gonye G, Schwaber JS.

J Neurosci Methods. 2008 Jul 15;172(1):38-42. doi: 10.1016/j.jneumeth.2008.04.002. Epub 2008 Apr 10.

21.

A prospective study of primary surrogate decision makers' knowledge of intensive care.

Rodriguez RM, Navarrete E, Schwaber J, McKleroy W, Clouse A, Kerrigan SF, Fortman J.

Crit Care Med. 2008 May;36(5):1633-6. doi: 10.1097/CCM.0b013e31816a0784.

PMID:
18434916
22.

Dynamic transcriptomic response to acute hypertension in the nucleus tractus solitarius.

Khan RL, Vadigepalli R, McDonald MK, Rogers RF, Gao GR, Schwaber JS.

Am J Physiol Regul Integr Comp Physiol. 2008 Jul;295(1):R15-27. doi: 10.1152/ajpregu.00152.2008. Epub 2008 Apr 23.

23.

From promoter analysis to transcriptional regulatory network prediction using PAINT.

Gonye GE, Chakravarthula P, Schwaber JS, Vadigepalli R.

Methods Mol Biol. 2007;408:49-68. doi: 10.1007/978-1-59745-547-3_4.

PMID:
18314577
24.

Quantifying gene network connectivity in silico: scalability and accuracy of a modular approach.

Yalamanchili N, Zak DE, Ogunnaike BA, Schwaber JS, Kriete A, Kholodenko BN.

Syst Biol (Stevenage). 2006 Jul;153(4):236-46.

25.

Epidermal growth factor receptor-induced circadian-time-dependent gene regulation in suprachiasmatic nucleus.

Vadigepalli R, Hao H, Miller GM, Liu H, Schwaber JS.

Neuroreport. 2006 Sep 18;17(13):1437-41.

PMID:
16932154
26.

Systems analysis of circadian time-dependent neuronal epidermal growth factor receptor signaling.

Zak DE, Hao H, Vadigepalli R, Miller GM, Ogunnaike BA, Schwaber JS.

Genome Biol. 2006;7(6):R48.

27.
28.

Epidermal growth factor receptor induced Erk phosphorylation in the suprachiasmatic nucleus.

Hao H, Schwaber J.

Brain Res. 2006 May 9;1088(1):45-8. Epub 2006 Apr 21.

PMID:
16630586
29.

Modeling the VPAC2-activated cAMP/PKA signaling pathway: from receptor to circadian clock gene induction.

Hao H, Zak DE, Sauter T, Schwaber J, Ogunnaike BA.

Biophys J. 2006 Mar 1;90(5):1560-71. Epub 2005 Dec 9.

30.

Chronic alcohol exposure alters transcription broadly in a key integrative brain nucleus for homeostasis: the nucleus tractus solitarius.

Covarrubias MY, Khan RL, Vadigepalli R, Hoek JB, Schwaber JS.

Physiol Genomics. 2005 Dec 14;24(1):45-58. Epub 2005 Sep 27.

PMID:
16189278
31.

Continuous-time identification of gene expression models.

Zak DE, Pearson RK, Vadigepalli R, Gonye GE, Schwaber JS, Doyle FJ 3rd.

OMICS. 2003 Winter;7(4):373-86.

PMID:
14683610
33.

PAINT: a promoter analysis and interaction network generation tool for gene regulatory network identification.

Vadigepalli R, Chakravarthula P, Zak DE, Schwaber JS, Gonye GE.

OMICS. 2003 Fall;7(3):235-52.

PMID:
14583114
34.

Neurogenesis of the respiratory pattern: insights from computational modeling.

Rybak IA, Paton JF, Schwaber JS.

Adv Exp Med Biol. 2001;499:165-70. Review. No abstract available.

PMID:
11729872
35.

Scattered-light imaging in vivo tracks fast and slow processes of neurophysiological activation.

Rector DM, Rogers RF, Schwaber JS, Harper RM, George JS.

Neuroimage. 2001 Nov;14(5):977-94.

PMID:
11697930
36.

Analysis and neuronal modeling of the nonlinear characteristics of a local cardiac reflex in the rat.

Vadigepalli R, Doyle FJ 3rd, Schwaber JS.

Neural Comput. 2001 Oct;13(10):2239-71.

PMID:
11570998
37.

Response properties of baroreceptive NTS neurons.

Paton JF, Li YW, Schwaber JS.

Ann N Y Acad Sci. 2001 Jun;940:157-68.

PMID:
11458674
38.

Information theoretic analysis of pulmonary stretch receptor spike trains.

Rogers RF, Runyan JD, Vaidyanathan AG, Schwaber JS.

J Neurophysiol. 2001 Jan;85(1):448-61.

39.

Fas-mediated apoptosis eliminates B cells that acquire self-reactivity during the germinal center response to NP.

Hoch S, Boyd M, Malone B, Gonye G, Schwaber J, Schwaber J.

Cell Immunol. 2000 Aug 1;203(2):103-10.

PMID:
11006008
40.

Engineering a living cell to desired metabolite concentrations and fluxes: pathways with multifunctional enzymes.

Kholodenko BN, Westerhoff HV, Schwaber J, Cascante M.

Metab Eng. 2000 Jan;2(1):1-13.

PMID:
10935931
41.

Computational modeling of the baroreflex arc: nucleus tractus solitarius.

Rogers RF, Rybak IA, Schwaber JS.

Brain Res Bull. 2000 Jan 15;51(2):139-50. Review.

PMID:
10709960
42.
43.

Projections of the dorsal motor nucleus of the vagus to cardiac ganglia of rat atria: an anterograde tracing study.

Cheng Z, Powley TL, Schwaber JS, Doyle FJ 3rd.

J Comp Neurol. 1999 Jul 26;410(2):320-41.

PMID:
10414536
44.

Metabolic design: how to engineer a living cell to desired metabolite concentrations and fluxes.

Kholodenko BN, Cascante M, Hoek JB, Westerhoff HV, Schwaber J.

Biotechnol Bioeng. 1998 Jul 20;59(2):239-47.

PMID:
10099334
45.

A laser confocal microscopic study of vagal afferent innervation of rat aortic arch: chemoreceptors as well as baroreceptors.

Cheng Z, Powley TL, Schwaber JS, Doyle FJ 3rd.

J Auton Nerv Syst. 1997 Dec 3;67(1-2):1-14.

PMID:
9470139
46.

Vagal afferent innervation of the atria of the rat heart reconstructed with confocal microscopy.

Cheng Z, Powley TL, Schwaber JS, Doyle FJ 3rd.

J Comp Neurol. 1997 Apr 28;381(1):1-17.

PMID:
9087415
49.
50.

A neuro-mimetic dynamic scheduling algorithm for control: analysis and applications.

Kwatra HS, Doyle FJ 3rd, Rybak IA, Schwaber JS.

Neural Comput. 1997 Apr 1;9(3):479-502.

PMID:
9097469

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