Santamaria Lab

One UTSA circle, Department of Biology, University of Texas at San Antonio, San Antonio, TX 78458 Phone: +1 (210) 458-6910



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Stockton D and Santamaria F (2017). Integrating the Allen Brain Institute Cell Types Database into Automated Neuroscience Workflow. Neuroinformatics. DOI: 10.1007/s12021-017-9337-x


Stockton D and Santamaria F (2016). Automating NEURON simulation deployment in cloud resources. Neuroinformatics. DOI: 10.1007/s12021-016-9315-8


Yang Z and Santamaria F (2016) Purkinje cell intrinsic excitability increases after synaptic long term depression. J Neurophysiology. DOI: 10.1152/jn.00369.2016


Mohapatra N, Třnnesen J, Vlachos A, Kuner T, Dealers T, Nägerl UV, Santamaria F, and Jedlicka P (2016) Spines slow down dendritic chloride diffusion and affect short-term ionic plasticity of GABAergic inhibition. Accepted Scientific Reports.


Teka W, Stockton DB, and Santamaria F (2016) Power-law dynamics of membrane conductances increase spiking diversity in a Hodgkin-Huxley model. In press PLoS Computational Biology.


Stockton DB and Santamaria F (2015). NeuroManager: A workflow analysis based simulation management engine for computational neuroscience. Frontiers in Neuroinformatics Vol. 9(24) 10.3389/fninf.2015.00024


Santamaria F. (2015) Cerebellum: Overview. Encyclopedia of Computational Neuroscience. Jung and Jaeger Eds. Springer.


Marinov T and Santamaria F. (2015) Diffusion Equation. Encyclopedia of Computational Neuroscience. Jung and Jaeger Eds. Springer.


Michaelides E and Santamaria F. (2015). Multi-Scale Modeling of Purkinje Cells. Encyclopedia of Computational Neuroscience. Jung and Jaeger Eds. Springer.


Deans H and Santamaria F. (2015). Modeling ion concentrations. Encyclopedia of Computational Neuroscience. Jung and Jaeger Eds. Springer.


Romero VH, Kereselidze Z, Egido W, Michaelides EA, Santamaria F, and Peralta XG. (2014). Nanoparticle assisted photothermal deformation of individual neuronal organelles and cells. Biomedical Optics Express. Vol. 5(11), pp 4002-4012. DOI:


Salinas K, Kereselidze Z, Peralta XG, Santamaria F. (2014). Transient extracellular application of gold nano-stars increases hippocampal neuronal activity. J. of Nanobiotechnology 12(31) DOI:


Teka W, Marinov T, Santamaria, F. (2014). Neuronal Spike Timing Adaptation Described with a Fractional Leaky Integrate-and-Fire Model. PLoS Comput Biol 10(3): e1003526. DOI:


Marinov TM and Santamaria F. (2014) Computational modeling of diffusion in the cerebellum. Prog Mol Biol Transl Sci.123:169-89. DOI:


Marinov T, Ramirez N, Santamaria F. (2013) Fractional integration toolbox. Fractional Calculus and Applied Analysis. Vol 16(3). DOI: 10.2478/s13540-013-0042-7


Santamaria F, Antunes G, and De Schutter E. Breakdown of mass-action laws in biochemical computation. (2012) Computational Systems Neurobiology, La Novere Bhalla Eds.


Kereselidze Z, Romero VH, Peralta XG, Santamaria F. (2012) Gold Nanostar Synthesis with a Silver Seed Mediated Growth Method. Journal of Visualized Experiments. DOI: 10.3791/3570


Santamaria F, Wils S, De Schutter E, Augustine GJ. (2011). The diffusional properties of dendrites depend on the density of dendritic spines. Eur. J. Neurosci. DOI: 10.1111/j.1460-9568.2011.07785.x.

Commentary: Anomalous diffusion imposed by dendritic spines (Commentary on Santamaria et al.) DOI: 10.1111/j.1460-9568.2011.07809.x


Valdez CM, Smith MA, Perry G, Phelyx DF, Santamaria F (2011) Modeling cholesterol metabolism by gene expression profiling in the hippocampus. Mol. Biosyst., DOI:10.1039/C0MB00282H


Santamaria F, Gonzalez J, Augustine GJ, and Ragavachari S. (2010). Quantifying the effects of elastic collisions and non-covalent binding on glutamate receptor trafficking in the post-synaptic density. PLoS Comp. Bio. 6(5):e1000780. doi:10.1371/journal.pcbi.1000780


Coop AD, Cornelis H, and Santamaria F (2010). Dendritic excitability modulates dendritic information processing in a Purkinje cell model. Front. Comput. Neurosci. 4:6. doi:10.3389/fncom.2010.00006.


Valdez CM , Smith MA, Perry G, Phelyx CF, Santamaria F (2010). Cholesterol homeostasis markers are localized to mouse hippocampal pyramidal and granule layers. Hippocampus. doi: 10.1002/hipo.20743.


Augustine GJ, Santamaria F, Wils S, DeSchutter E (2009) Trapping of diffusing molecules by dendritc spines  Journal of Neurochemistry. pp 69-69.


Santamaria F and Bower JM (2008). Theoretical and Computational Neuroscience: Hodgkin-Huxley models. The New Encyclopedia of Neuroscience. Elsevier.


Tanaka K, Khiroug L, Santamaria F, Doi T, Ogasawara H, Ellis-Davies GC, Kawato M, Augustine GJ (2007) Ca2+ requirements for cerebellar long-term synaptic depression: role for a postsynaptic leaky integrator. Neuron 54: 787-800.


Santamaria F, Tripp PG, Bower JM (2007) Feedforward inhibition controls the spread of granule cell-induced Purkinje cell activity in the cerebellar cortex. J Neurophysiol 97: 248-263.


Santamaria F, Wils S, De Schutter E, Augustine GJ (2006) Anomalous diffusion in Purkinje cell dendrites caused by spines. Neuron 52: 635-648.


Santamaria F, Bower JM (2005) Background synaptic activity modulates the response of a modeled purkinje cell to paired afferent input. J Neurophysiol 93: 237-250.


Augustine GJ, Santamaria F, Tanaka K (2003) Local calcium signaling in neurons. Neuron 40: 331-346.


Santamaria F, Jaeger D, De Schutter E, Bower JM (2002) Modulatory effects of parallel fiber and molecular layer interneuron synaptic activity on purkinje cell responses to ascending segment input: a modeling study. J Comput Neurosci 13: 217-235.


Mocanu OD, Oliver J, Santamaria F, Bower JM (2000) Branching point effects on the passive properties of the cerebellar granule cell axon.  Neurocomputing. pp 207-212.


Santamaria F, Marsalek P (1998) Investigating spike backpropagation induced Ca2+ influx in models of hippocampal and cortical pyramidal neurons. Biosystems (48)1-3:147-156.



Wikipedia pages in Spanish:


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Anomalous diffusion (Difusión Anómala)


Long term depression (Depresión a largo plazo)


Fluorescence correlation spectroscopy (Espectroscopia de correlación fluorescente)