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Items: 1 to 50 of 244

1.

Multi-Input, Multi-Output Neuronal Mode Network Approach to Modeling the Encoding Dynamics and Functional Connectivity of Neural Systems.

Geng K, Shin DC, Song D, Hampson RE, Deadwyler SA, Berger TW, Marmarelis VZ.

Neural Comput. 2019 Jul;31(7):1327-1355. doi: 10.1162/neco_a_01204. Epub 2019 May 21.

PMID:
31113305
2.

Reconstructing Soil Recovery from Acid Rain in Beech (Fagus sylvatica) Stands of the Vienna Woods as Indicated by Removal of Stemflow and Dendrochemistry.

Türtscher S, Grabner M, Berger TW.

Water Air Soil Pollut. 2019;230(2):30. doi: 10.1007/s11270-018-4065-x. Epub 2019 Jan 22.

3.

Axonal Anatomy Optimizes Spatial Encoding in the Rat Entorhinal-Dentate System: A Computational Study.

Yu GJ, Bouteiller JC, Song D, Berger TW.

IEEE Trans Biomed Eng. 2019 Jan 21. doi: 10.1109/TBME.2019.2894410. [Epub ahead of print]

PMID:
30676938
4.

Decoding Position to Analyze Spatial Information Encoding in a Large-Scale Neuronal Network Model of Rat Dentate Gyrus.

Yu GJ, Bouteiller JC, Song D, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2018 Jul;2018:6137-6140. doi: 10.1109/EMBC.2018.8513576.

5.

Point Process Filtering Estimates of Branching Rate for Neural Dendritic Morphology Generation.

Chou ZZ, Yu GJ, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2018 Jul;2018:5854-5857. doi: 10.1109/EMBC.2018.8513682.

6.

Application of Parylene-Based Flexible Multi-Electrode Array for Recording From Subcortical Brain Regions From Behaving Rats.

Xu H, Hirschberg AW, Scholten K, Meng E, Berger TW, Song D.

Conf Proc IEEE Eng Med Biol Soc. 2018 Jul;2018:4599-4602. doi: 10.1109/EMBC.2018.8513202.

PMID:
30441376
7.

Cholinergic Modulation of CA1 Pyramidal Cells via M1 Muscarinic Receptor Activation: A Computational Study at Physiological and Supraphysiological Levels.

Mergenthal AR, Bouteiller JC, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2018 Jul;2018:1396-1399. doi: 10.1109/EMBC.2018.8512574.

8.

A Closed-Loop Multi-Channel Asynchronous Neurostimulator to Mimic Neural Code for Cognitive Prosthesis.

Elyahoodayan S, Berger TW, Song D.

Conf Proc IEEE Eng Med Biol Soc. 2018 Jul;2018:1388-1391. doi: 10.1109/EMBC.2018.8512497.

PMID:
30440651
9.

Graph-Based Models of Cortical Axons for the Prediction of Neuronal Response to Extracellular Electrical Stimulation.

Bingham CS, Bouteiller JC, Song D, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2018 Jul;2018:1380-1383. doi: 10.1109/EMBC.2018.8512503.

10.

A Glutamatergic Spine Model to Enable Multi-Scale Modeling of Nonlinear Calcium Dynamics.

Hu E, Mergenthal A, Bingham CS, Song D, Bouteiller JM, Berger TW.

Front Comput Neurosci. 2018 Jul 27;12:58. doi: 10.3389/fncom.2018.00058. eCollection 2018.

11.

Model-Based Analysis of Electrode Placement and Pulse Amplitude for Hippocampal Stimulation.

Bingham CS, Loizos K, Yu GJ, Gilbert A, Bouteiller JC, Song D, Lazzi G, Berger TW.

IEEE Trans Biomed Eng. 2018 Oct;65(10):2278-2289. doi: 10.1109/TBME.2018.2791860. Epub 2018 Jan 25.

PMID:
29993519
12.

ASIC Implementation of a Nonlinear Dynamical Model for Hippocampal Prosthesis.

Qiao Z, Han Y, Han X, Xu H, Li WXY, Song D, Berger TW, Cheung RCC.

Neural Comput. 2018 Sep;30(9):2472-2499. doi: 10.1162/neco_a_01107. Epub 2018 Jun 27.

PMID:
29949460
13.

Developing a hippocampal neural prosthetic to facilitate human memory encoding and recall.

Hampson RE, Song D, Robinson BS, Fetterhoff D, Dakos AS, Roeder BM, She X, Wicks RT, Witcher MR, Couture DE, Laxton AW, Munger-Clary H, Popli G, Sollman MJ, Whitlow CT, Marmarelis VZ, Berger TW, Deadwyler SA.

J Neural Eng. 2018 Jun;15(3):036014. doi: 10.1088/1741-2552/aaaed7. Epub 2018 Mar 28.

14.

Designing Patient-Specific Optimal Neurostimulation Patterns for Seizure Suppression.

Sandler RA, Geng K, Song D, Hampson RE, Witcher MR, Deadwyler SA, Berger TW, Marmarelis VZ.

Neural Comput. 2018 May;30(5):1180-1208. doi: 10.1162/NECO_a_01075. Epub 2018 Mar 22.

PMID:
29566356
15.

Evolving Applications, Technological Challenges and Future Opportunities in Neuromodulation: Proceedings of the Fifth Annual Deep Brain Stimulation Think Tank.

Ramirez-Zamora A, Giordano JJ, Gunduz A, Brown P, Sanchez JC, Foote KD, Almeida L, Starr PA, Bronte-Stewart HM, Hu W, McIntyre C, Goodman W, Kumsa D, Grill WM, Walker HC, Johnson MD, Vitek JL, Greene D, Rizzuto DS, Song D, Berger TW, Hampson RE, Deadwyler SA, Hochberg LR, Schiff ND, Stypulkowski P, Worrell G, Tiruvadi V, Mayberg HS, Jimenez-Shahed J, Nanda P, Sheth SA, Gross RE, Lempka SF, Li L, Deeb W, Okun MS.

Front Neurosci. 2018 Jan 24;11:734. doi: 10.3389/fnins.2017.00734. eCollection 2017.

16.

Mechanism-Based and Input-Output Modeling of the Key Neuronal Connections and Signal Transformations in the CA3-CA1 Regions of the Hippocampus.

Geng K, Shin DC, Song D, Hampson RE, Deadwyler SA, Berger TW, Marmarelis VZ.

Neural Comput. 2018 Jan;30(1):149-183. doi: 10.1162/neco_a_01031. Epub 2017 Oct 24.

PMID:
29064783
17.

Chronic multi-region recording from the rat hippocampus in vivo with a flexible Parylene-based multi-electrode array.

Huijing Xu, Weltman A, Scholten K, Meng E, Berger TW, Dong Song.

Conf Proc IEEE Eng Med Biol Soc. 2017 Jul;2017:1716-1719. doi: 10.1109/EMBC.2017.8037173.

PMID:
29060217
18.

Multi-resolution multi-trial sparse classification model for decoding visual memories from hippocampal spikes in human.

Dong Song, Xiwei She, Hampson RE, Deadwyler SA, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2017 Jul;2017:1046-1049. doi: 10.1109/EMBC.2017.8037006.

PMID:
29060053
19.

Acute in vivo testing of a conformal polymer microelectrode array for multi-region hippocampal recordings.

Xu H, Hirschberg AW, Scholten K, Berger TW, Song D, Meng E.

J Neural Eng. 2018 Feb;15(1):016017. doi: 10.1088/1741-2552/aa9451.

20.

Development of a Computational Approach/Model to Explore NMDA Receptors Functions.

Keller AF, Bouteiller JC, Berger TW.

Methods Mol Biol. 2017;1677:291-306. doi: 10.1007/978-1-4939-7321-7_17.

PMID:
28986881
21.

Fractionation of sulfur (S) in beech (Fagus sylvatica) forest soils in relation to distance from the stem base as useful tool for modeling S biogeochemistry.

Hanousek O, Prohaska T, Kulhanek M, Balik J, Tejnecky V, Berger TW.

Model Earth Syst Environ. 2017 Sep;3(3):1065-1079. doi: 10.1007/s40808-017-0353-5. Epub 2017 Aug 9.

22.

Declining atmospheric deposition of heavy metals over the last three decades is reflected in soil and foliage of 97 beech (Fagus sylvatica) stands in the Vienna Woods.

Türtscher S, Berger P, Lindebner L, Berger TW.

Environ Pollut. 2017 Nov;230:561-573. doi: 10.1016/j.envpol.2017.06.080. Epub 2017 Jul 11.

23.

Development of a detailed model of calcium dynamics at the postsynaptic spine of an excitatory synapse.

Hu EY, Bouteiller JC, Dong Song, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:6102-6105. doi: 10.1109/EMBC.2016.7592121.

PMID:
28269645
24.

A flexible parylene probe for in vivo recordings from multiple subregions of the rat hippocampus.

Huijing Xu, Weltman A, Min-Chi Hsiao, Scholten K, Meng E, Berger TW, Dong Song.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:2806-2809. doi: 10.1109/EMBC.2016.7591313.

PMID:
28268901
25.

A large-scale detailed neuronal model of electrical stimulation of the dentate gyrus and perforant path as a platform for electrode design and optimization.

Bingham CS, Loizos K, Gene Yu, Gilbert A, Bouteiller JM, Dong Song, Lazzi G, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:2794-2797. doi: 10.1109/EMBC.2016.7591310.

PMID:
28268898
26.

Monte Carlo validation of spike-timing-dependent plasticity identification from spiking activity.

Robinson BS, Berger TW, Dong Song.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:1624-1627. doi: 10.1109/EMBC.2016.7591024.

PMID:
28268640
27.

Decoding memory features from hippocampal spiking activities using sparse classification models.

Dong Song, Hampson RE, Robinson BS, Marmarelis VZ, Deadwyler SA, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:1620-1623. doi: 10.1109/EMBC.2016.7591023.

PMID:
28268639
28.

A bi-directional communication paradigm between parallel NEURON and an external non-neuron process.

Hendrickson PJ, Bingham C, Dong Song, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:1413-1416. doi: 10.1109/EMBC.2016.7590973.

PMID:
28268591
29.

Place field detection using grid-based clustering in a large-scale computational model of the rat dentate gyrus.

Yu GJ, Dong Song, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:1405-1408. doi: 10.1109/EMBC.2016.7590971.

30.

Sparse Large-Scale Nonlinear Dynamical Modeling of Human Hippocampus for Memory Prostheses.

Song D, Robinson BS, Hampson RE, Marmarelis VZ, Deadwyler SA, Berger TW.

IEEE Trans Neural Syst Rehabil Eng. 2018 Feb;26(2):272-280. doi: 10.1109/TNSRE.2016.2604423. Epub 2016 Aug 30.

31.

Erratum to: Novel diffusive gradients in thin films technique to assess labile sulfate in soil.

Hanousek O, Mason S, Santner J, Chowdhury MM, Berger TW, Prohaska T.

Anal Bioanal Chem. 2017 Feb;409(5):1463. doi: 10.1007/s00216-016-0095-7. Epub 2016 Nov 22. No abstract available.

PMID:
27878314
32.

Erratum to: Diffusive gradients in thin films measurement of sulfur stable isotope variations in labile soil sulfate.

Hanousek O, Santner J, Mason S, Berger TW, Wenzel WW, Prohaska T.

Anal Bioanal Chem. 2017 Feb;409(5):1461. doi: 10.1007/s00216-016-0094-8. Epub 2016 Nov 19. No abstract available.

PMID:
27866255
33.

Sources of errors and uncertainties in the assessment of forest soil carbon stocks at different scales-review and recommendations.

Vanguelova EI, Bonifacio E, De Vos B, Hoosbeek MR, Berger TW, Vesterdal L, Armolaitis K, Celi L, Dinca L, Kjønaas OJ, Pavlenda P, Pumpanen J, Püttsepp Ü, Reidy B, Simončič P, Tobin B, Zhiyanski M.

Environ Monit Assess. 2016 Nov;188(11):630. Epub 2016 Oct 21. Review.

PMID:
27770347
34.

Diffusive gradients in thin films measurement of sulfur stable isotope variations in labile soil sulfate.

Hanousek O, Santner J, Mason S, Berger TW, Wenzel WW, Prohaska T.

Anal Bioanal Chem. 2016 Nov;408(29):8333-8341. Epub 2016 Sep 29. Erratum in: Anal Bioanal Chem. 2017 Feb;409(5):1461.

36.

Identification of Stable Spike-Timing-Dependent Plasticity from Spiking Activity with Generalized Multilinear Modeling.

Robinson BS, Berger TW, Song D.

Neural Comput. 2016 Nov;28(11):2320-2351. doi: 10.1162/NECO_a_00883. Epub 2016 Aug 24.

PMID:
27557101
37.

Novel diffusive gradients in thin films technique to assess labile sulfate in soil.

Hanousek O, Mason S, Santner J, Chowdhury MM, Berger TW, Prohaska T.

Anal Bioanal Chem. 2016 Sep;408(24):6759-67. doi: 10.1007/s00216-016-9801-8. Epub 2016 Aug 4. Erratum in: Anal Bioanal Chem. 2016 Nov 22;:.

38.

A slight recovery of soils from Acid Rain over the last three decades is not reflected in the macro nutrition of beech (Fagus sylvatica) at 97 forest stands of the Vienna Woods.

Berger TW, Türtscher S, Berger P, Lindebner L.

Environ Pollut. 2016 Sep;216:624-635. doi: 10.1016/j.envpol.2016.06.024. Epub 2016 Jun 22.

39.

A cognitive prosthesis for memory facilitation by closed-loop functional ensemble stimulation of hippocampal neurons in primate brain.

Deadwyler SA, Hampson RE, Song D, Opris I, Gerhardt GA, Marmarelis VZ, Berger TW.

Exp Neurol. 2017 Jan;287(Pt 4):452-460. doi: 10.1016/j.expneurol.2016.05.031. Epub 2016 May 24.

40.

A new approach to predict soil temperature under vegetated surfaces.

Dolschak K, Gartner K, Berger TW.

Model Earth Syst Environ. 2015 Dec 1;1(4):32.

41.

Design of a flexible parylene-based multi-electrode array for multi-region recording from the rat hippocampus.

Xu H, Weltman A, Hsiao MC, Scholten K, Meng E, Berger TW, Song D.

Conf Proc IEEE Eng Med Biol Soc. 2015;2015:7139-42. doi: 10.1109/EMBC.2015.7320038.

PMID:
26737938
42.

A million-plus neuron model of the hippocampal dentate gyrus: Dependency of spatio-temporal network dynamics on topography.

Hendrickson PJ, Yu GJ, Song D, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2015;2015:4713-6. doi: 10.1109/EMBC.2015.7319446.

43.

Topography-dependent spatio-temporal correlations in the entorhinal-dentate-CA3 circuit in a large-scale computational model of the Rat Hippocampus.

Yu GJ, Hendrickson PJ, Song D, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2015;2015:3965-8. doi: 10.1109/EMBC.2015.7319262.

44.

Sparse generalized volterra model of human hippocampal spike train transformation for memory prostheses.

Song D, Robinson BS, Hampson RE, Marmarelis VZ, Deadwyler SA, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2015;2015:3961-4. doi: 10.1109/EMBC.2015.7319261.

PMID:
26737161
45.

The volterra functional series is a viable alternative to kinetic models for synaptic modeling--calibration and benchmarking.

Hu EY, Bouteiller JM, Song D, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2015;2015:3291-4. doi: 10.1109/EMBC.2015.7319095.

46.

Estimation of a large-scale generalized Volterra model for neural ensembles with group lasso and local coordinate descent.

Robinson BS, Song D, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2015;2015:2526-9. doi: 10.1109/EMBC.2015.7318906.

PMID:
26736806
47.

A 3-D admittance-level computational model of a rat hippocampus for improving prosthetic design.

Gilbert A, Loizos K, RamRakhyani AK, Hendrickson P, Lazzi G, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2015;2015:2295-8. doi: 10.1109/EMBC.2015.7318851.

48.

A sparse Laguerre-Volterra autoregressive model for seizure prediction in temporal lobe epilepsy.

Pen-Ning Yu, Naiini SA, Heck CN, Liu CY, Dong Song, Berger TW.

Conf Proc IEEE Eng Med Biol Soc. 2016 Aug;2016:1664-1667. doi: 10.1109/EMBC.2016.7591034.

PMID:
28324947
49.
50.

Distributed encoding of spatial and object categories in primate hippocampal microcircuits.

Opris I, Santos LM, Gerhardt GA, Song D, Berger TW, Hampson RE, Deadwyler SA.

Front Neurosci. 2015 Oct 6;9:317. doi: 10.3389/fnins.2015.00317. eCollection 2015.

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