Daniel Baugh Institute for Functional Genomics and Computational Biology,
Department of Pathology,
Anatomy,
and Cell Biology,
Daniel Baugh Institute for Functional Genomics and Computational Biology, Department of Pathology, Anatomy, and Cell Biology
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PAINT: a promoter analysis and interaction network generation tool for gene regulatory network identification.
Omics : a journal of integrative biology , 2003 | Pubmed ID: 14583114
Importance of input perturbations and stochastic gene expression in the reverse engineering of genetic regulatory networks: insights from an identifiability analysis of an in silico network.
Genome research Nov, 2003 | Pubmed ID: 14597654
Chronic alcohol exposure alters transcription broadly in a key integrative brain nucleus for homeostasis: the nucleus tractus solitarius.
Physiological genomics Dec, 2005 | Pubmed ID: 16189278
A universal reference sample derived from clone vector for improved detection of differential gene expression.
BMC genomics May, 2006 | Pubmed ID: 16677381
Systems analysis of circadian time-dependent neuronal epidermal growth factor receptor signaling.
Genome biology , 2006 | Pubmed ID: 16784547
Epidermal growth factor receptor-induced circadian-time-dependent gene regulation in suprachiasmatic nucleus.
Neuroreport Sep, 2006 | Pubmed ID: 16932154
Quantifying gene network connectivity in silico: scalability and accuracy of a modular approach.
Systems biology Jul, 2006 | Pubmed ID: 16986625
From promoter analysis to transcriptional regulatory network prediction using PAINT.
Methods in molecular biology (Clifton, N.J.) , 2007 | Pubmed ID: 18314577
Dynamic transcriptomic response to acute hypertension in the nucleus tractus solitarius.
American journal of physiology. Regulatory, integrative and comparative physiology Jul, 2008 | Pubmed ID: 18434436
A fast carrier chromatin immunoprecipitation method applicable to microdissected tissue samples.
Journal of neuroscience methods Jul, 2008 | Pubmed ID: 18502516
Robust dynamic balance of AP-1 transcription factors in a neuronal gene regulatory network.
BMC systems biology Dec, 2010 | Pubmed ID: 21167049
Adaptive transcriptional dynamics of A2 neurons and central cardiovascular control pathways.
Experimental physiology Apr, 2012 | Pubmed ID: 22002872
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 Oct, 2012 | Pubmed ID: 22486438
Temporal changes in innate immune signals in a rat model of alcohol withdrawal in emotional and cardiorespiratory homeostatic nuclei.
Journal of neuroinflammation May, 2012 | Pubmed ID: 22626265
Integrative gene regulatory network analysis reveals light-induced regional gene expression phase shift programs in the mouse suprachiasmatic nucleus.
PloS one , 2012 | Pubmed ID: 22662235
Coordinated dynamic gene expression changes in the central nucleus of the amygdala during alcohol withdrawal.
Alcoholism, clinical and experimental research Jan, 2013 | Pubmed ID: 22827539
Multiscale model of dynamic neuromodulation integrating neuropeptide-induced signaling pathway activity with membrane electrophysiology.
Biophysical journal Jan, 2015 | Pubmed ID: 25564868
MicroRNA network changes in the brain stem underlie the development of hypertension.
Physiological genomics Sep, 2015 | Pubmed ID: 26126791
The role of the gut-brain axis in alcohol use disorders.
Progress in neuro-psychopharmacology & biological psychiatry Feb, 2016 | Pubmed ID: 26188287
Computational modeling of cytokine signaling in microglia.
Molecular bioSystems Dec, 2015 | Pubmed ID: 26440115
Intracellular Information Processing through Encoding and Decoding of Dynamic Signaling Features.
PLoS computational biology Oct, 2015 | Pubmed ID: 26491963
Systemic leukotriene B receptor antagonism lowers arterial blood pressure and improves autonomic function in the spontaneously hypertensive rat.
The Journal of physiology 10, 2016 | Pubmed ID: 27230966
Single-Cell Transcriptional Analysis Reveals Novel Neuronal Phenotypes and Interaction Networks Involved in the Central Circadian Clock.
Frontiers in neuroscience , 2016 | Pubmed ID: 27826225
A data-driven modeling approach to identify disease-specific multi-organ networks driving physiological dysregulation.
PLoS computational biology Jul, 2017 | Pubmed ID: 28732007
Single-Cell Glia and Neuron Gene Expression in the Central Amygdala in Opioid Withdrawal Suggests Inflammation With Correlated Gut Dysbiosis.
Frontiers in neuroscience , 2019 | Pubmed ID: 31333398
A Comprehensive Integrated Anatomical and Molecular Atlas of Rat Intrinsic Cardiac Nervous System.
iScience Jun, 2020 | Pubmed ID: 32460006
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 , 2020 | Pubmed ID: 32477043
Investigating the Effects of Brainstem Neuronal Adaptation on Cardiovascular Homeostasis.
Frontiers in neuroscience , 2020 | Pubmed ID: 32508573
Similarities in alcohol and opioid withdrawal syndromes suggest common negative reinforcement mechanisms involving the interoceptive antireward pathway.
Neuroscience and biobehavioral reviews 06, 2021 | Pubmed ID: 33647322
Input-output signal processing plasticity of vagal motor neurons in response to cardiac ischemic injury.
iScience Mar, 2021 | Pubmed ID: 33665562
Systemic Immune Bias Delineates Malignant Astrocytoma Survival Cohorts.
Journal of immunology (Baltimore, Md. : 1950) 04, 2021 | Pubmed ID: 33685995
Mapping the little brain at the heart by an interdisciplinary systems biology team.
iScience May, 2021 | Pubmed ID: 34113808
A single cell transcriptomics map of paracrine networks in the intrinsic cardiac nervous system.
iScience Jul, 2021 | Pubmed ID: 34337356
3D single cell scale anatomical map of sex-dependent variability of the rat intrinsic cardiac nervous system.
iScience Jul, 2021 | Pubmed ID: 34355144
Single Cell Scale Neuronal and Glial Gene Expression and Putative Cell Phenotypes and Networks in the Nucleus Tractus Solitarius in an Alcohol Withdrawal Time Series.
Frontiers in systems neuroscience , 2021 | Pubmed ID: 34867221
1Daniel Baugh Institute for Functional Genomics and Computational Biology, Department of Pathology, Anatomy, and Cell Biology, Thomas Jefferson University,
2Sidney Kimmel Medical College, Thomas Jefferson University,
3Department of Psychiatry and Behavioral Sciences, Stanford University School of Medicine
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