jonrkarr
Impact-focused visionary & technologist Education | Biology | Simulation | Product Data engineering | Software
StealthSan Francisco, CA
Pinned Repositories
biosimulations
A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results
Biosimulators
Registry of containerized biosimulation tools that support a standard command-line interface
WholeCell
Mycoplasma genitalium whole-cell model
deeporigin-client
Deep Origin CLI and Python client
105528
Effect of riluzole on action potential in cultured human skeletal muscle cells (Wang YJ et al. 2008)
112836
Spike trains in Hodgkin–Huxley model and ISIs of acupuncture manipulations (Wang et al. 2008)
112968
Synchronization by D4 dopamine receptor-mediated phospholipid methylation (Kuznetsova, Deth 2008)
114450
Synergistic inhibitory action of oxcarbazepine on INa and IK (Huang et al. 2008)
datanator
Toolkit for discovering and aggregating data for whole-cell modeling
de_sim
Python-based object-oriented discrete-event simulation tool for complex, data-driven modeling
jonrkarr's Repositories
jonrkarr/112836
Spike trains in Hodgkin–Huxley model and ISIs of acupuncture manipulations (Wang et al. 2008)
jonrkarr/118014
Roles of I(A) and morphology in AP prop. in CA1 pyramidal cell dendrites (Acker and White 2007)
jonrkarr/127022
Control of vibrissa motoneuron firing (Harish and Golomb 2010)
jonrkarr/127355
Prediction for the presence of voltage-gated Ca2+ channels in myelinated central axons (Brown 2003)
jonrkarr/137263
Effect of trp-like current on APs during exposure to sinusoidal voltage (Chen et al. 2010)
jonrkarr/142993
ClC-2 channels regulate neuronal excitability, not intracellular Cl- levels (Ratte & Prescott 2011)
jonrkarr/150217
Reliability of Morris-Lecar neurons with added T, h, and AHP currents (Zeldenrust et al. 2013)
jonrkarr/152292
PreBotzinger Complex inspiratory neuron with NaP and CAN currents (Park and Rubin 2013)
jonrkarr/167714
Hodgkin-Huxley with dynamic ion concentrations (Hubel and Dahlem, 2014)
jonrkarr/182758
Activity patterns in a subthalamopallidal network of the basal ganglia model (Terman et al 2002)
jonrkarr/187213
Anoxic depolarization, recovery: effect of brain regions and extracellular space (Hubel et al. 2016)
jonrkarr/227577
Pallidostriatal projections promote beta oscillations (Corbit, Whalen, et al 2016)
jonrkarr/228337
Nicotinic control of dopamine release in nucleus accumbens (Maex et al. 2014)
jonrkarr/235774
The role of glutamate in neuronal ion homeostasis: spreading depolarization (Hubel et al 2017)
jonrkarr/247694
Simulation of calcium signaling in fine astrocytic processes (Denizot et al 2019)
jonrkarr/249405
A Computational Model of Bidirectional Plasticity Regulation by betaCaMKII (Pinto et al. 2019)
jonrkarr/255569
Persistent Spiking in ACC Neurons (Ratte et al 2018)
jonrkarr/256627
Criticality,degeneracy in injury-induced changes in primary afferent excitability (Ratte et al 2014)
jonrkarr/257608
Respiratory central pattern generator (mammalian brainstem) (Rubin & Smith 2019)
jonrkarr/258234
Inhibitory control of motoneuron excitability (Venugopal et al 2011)
jonrkarr/260730
How adaptation makes low firing rates robust (Sherman & Ha 2017)
jonrkarr/266726
Markovian model for SCN8A-encoded channel (Kuo et al 2020)
jonrkarr/79238
Action potential of striated muscle fiber (Adrian et al 1970)
jonrkarr/83319
Networks of spiking neurons: a review of tools and strategies (Brette et al. 2007)
jonrkarr/97743
Model of DARPP-32 phosphorylation in striatal medium spiny neurons (Lindskog et al. 2006)
jonrkarr/git-filter-repo
Quickly rewrite git repository history (filter-branch replacement)
jonrkarr/libSEDML
SED-ML library based on libSBML
jonrkarr/methylseq
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
jonrkarr/OBOFoundry.github.io
Metadata and website for the Open Bio Ontologies Foundry Ontology Registry
jonrkarr/opencor
OpenCOR is a cross-platform modelling environment, which can be used to organise, edit, simulate and analyse CellML files.