2025

A bioelectric router for adaptive isochronous neurostimulation enables multipolar bioelectric stimulation from a single source
Sahai E, Hickman J, Denman DJ.
Sci Rep. 2025 Jul 4;15(1)
DOI: 10.1038/s41598-025-07568-4.

Incomplete remyelination via therapeutically enhanced oligodendrogenesis is sufficient to recover visual cortical function
Della-Flora Nunes G, Osso LA, Haynes JA, Conant L, Thornton MA, Stockton ME, Brassell KA, Morris A, Mancha Corchado YI, Gaynes JA, Chavez AR, Woerner MB, MacKenna DA, Alavi A, Danks A, Poleg-Polsky A, Gandhi R, Vivian JA, Denman DJ1, Hughes EG1 1 co-corresponding
Nat Commun 16, 732 (2025)
DOI: 10.1038/s41467-025-56092-6

Deciphering neuronal variability across states reveals dynamic sensory encoding
Akella S, Ledochowitsch P, Siegle JH, Belski H, Denman DD, Buice MA, Durand S, Koch C, Olsen SR, Jia X.
Nat Commun. 2025 Feb 19;16(1):1768
DOI: 10.1038/s41467-025-56733-w

2024

A fully automatic multichannel neural spike sorting algorithm with spike reduction and positional feature
Mohammadi Z, Denman DJ, Klug A, Lei TC
J Neural Eng. 2024 Aug 5;21(4):046039
DOI: 10.1088/1741-2552/ad647d

Subthalamic nucleus synchronization between beta band local field potential and single-unit activity in Parkinson’s disease
Bayman E, Chee K, Mendlen M, Denman DJ, Tien RN, Ojemann S, Kramer DR, Thompson JA.
Physiol Rep. 2024 May;12(9):e16001
DOI: 10.14814/phy2.16001

2021

Survey of spiking in the mouse visual system reveals functional hierarchy
Siegle JH, Jia X, Durand S, Gale S, Bennett C, Graddis N, Heller G, Ramirez TK, Choi H, Luviano JA, Groblewski PA, Ahmed R, Arkhipov A, Bernard A, Billeh YN, Brown D, Buice MA, Cain N, Caldejon S, Casal L, Cho A, Chvilicek M, Cox TC, Dai K, Denman DJ, de Vries SEJ, Dietzman R, Esposito L, Farrell C, Feng D, Galbraith J, Garrett M, Gelfand EC, Hancock N, Harris JA, Howard R, Hu B, Hytnen R, Iyer R, Jessett E, Johnson K, Kato I, Kiggins J, Lambert S, Lecoq J, Ledochowitsch P, Lee JH, Leon A, Li Y, Liang E, Long F, Mace K, Melchior J, Millman D, Mollenkopf T, Nayan C, Ng L, Ngo K, Nguyen T, Nicovich PR, North K, Ocker GK, Ollerenshaw D, Oliver M, Pachitariu M, Perkins J, Reding M, Reid D, Robertson M, Ronellenfitch K, Seid S, Slaughterbeck C, Stoecklin M, Sullivan D, Sutton B, Swapp J, Thompson C, Turner K, Wakeman W, Whitesell JD, Williams D, Williford A, Young R, Zeng H, Naylor S, Phillips JW, Reid RC, Mihalas S, Olsen SR, Koch C.
Nature. 2021 Apr;592(7852):86-92
DOI: 10.1038/s41586-020-03171-x

Reconciling functional differences in populations of neurons recorded with two-photon imaging and electrophysiology
Siegle JH, Ledochowitsch P, Jia X, Millman DJ, Ocker GK, Caldejon S, Casal L, Cho A, Denman DJ, Durand S, Groblewski PA, Heller G, Kato I, Kivikas S, Lecoq J, Nayan C, Ngo K, Nicovich PR, North K, Ramirez TK, Swapp J, Waughman X, Williford A, Olsen SR, Koch C, Buice MA, de Vries SE.
Elife. 2021 Jul 16;10:e69068.
DOI: doi: 10.7554/eLife.69068

2019

Synergistic population encoding and precise coordinated variability across interlaminar ensembles in the early visual system
D. Denman, R.C. Reid
bioRxiv, pp. 812859, Oct. 2019
DOI: 10.1101/812859

Past Work

2018

High-density extracellular probes reveal dendritic backpropagation and facilitate neuron classification
X. Jia, J. Siegle, C. Bennett, S. Gale, D. Denman, C. Koch, and S. Olsen
bioRxiv, pp. 376863, Jul. 2018
DOI: 10.1101/376863

Visual physiology of the Layer 4 cortical circuit in silico
A. Arkhipov, N.W. Gouwens, Y.N. Billeh, S. Gratiy, R. Iyer, Z. Wei, Z. Xu, J. Berg, M. Buice, N. Cain, N. da Costa, S. de Vries, D. Denman, S. Durand, D. Feng, T. Jarsky, J. Lecoq, B. Lee, L. Li, S. Mihalas, G.K. Ocker, S.R. Olsen, R.C. Reid, G. Soler-Llavina, S.A. Sorensen, Q. Wang, J. Waters, M. Scanziani, and C. Koch
bioRxiv, pp. 292839, Mar. 2018
DOI: 10.1101/292839

The songs of silence: Cortical suppression and synchronization by layer-specific activation
D. Denman
Journal of Physiology, Jan. 2018
DOI: 10.1113/JP275797

Mouse color and wavelength-specific luminance contrast sensitivity are non- uniform across visual space
D.J. Denman, J.A. Luviano, D.R. Ollerenshaw, S. Cross, D. Williams, M.A. Buice, S.R. Olsen, and R.C. Reid
eLife, vol. 7, pp. 1–16, Jan. 2018
DOI: 10.7554/eLife.31209

2017

Mouse hue and wavelength-specific luminance contrast sensitivity are non-uniform across visual space.
D.J. Denman, J.A. Luviano, D.R. Ollerenshaw, S. Cross, D. Williams, M.A. Buice, S.R. Olsen, and R.C. Reid
bioRxiv, pp. 174631, Aug. 2017
DOI: doi:10.1101/174631

From Maxwell’s equations to the theory of current-source density analysis
S. Gratiy, G. Halnes, D. Denman, M. Hawrylycz, C. Koch, G. Einevoll, and C. Anastassiou
European Journal of Neuroscience, vol. 45, no. 8, Jan. 2017
DOI: 10.1111/ejn.13534

Fully integrated silicon probes for high-density recording of neural activity
J.J. Jun, N.A. Steinmetz, J.H. Siegle, D.J. Denman, M. Bauza, B. Barbarits, A.K. Lee, C.A. Anastassiou, A. Andrei, Ç. Aydın, S.L. Gratiy, D.A. Gutnisky, M. Häusser, B. Karsh, P. Ledochowitsch, C.M. Lopez, C. Mitelut, S. Musa, M. Okun, M. Pachitariu, J. Putzeys, P.D. Rich, C. Rossant, W.L. Sun, K. Svoboda, M. Carandini, K.D. Harris, C. Koch, J. O ‘keefe, and T.D. Harris
Nature, vol. 551, pp. 232–236, Jan. 2017
DOI: 10.1038/nature24636

Spatial Organization of Chromatic Pathways in the Mouse Dorsal Lateral Geniculate Nucleus
D.J. Denman, J.H. Siegle, C. Koch, R.C. Reid, and T.J. Blanche
Journal of Neuroscience, vol. 37, no. 5, pp. 1102–1116, Jan. 2017
DOI: 10.1523/JNEUROSCI.1742-16.2016

2016

On Parallel Streams through the Mouse Dorsal Lateral Geniculate Nucleus
D.J. Denman and D. Contreras
Frontiers in Neural Circuits, vol. 10, pp. 20, Mar. 2016
DOI: 10.3389/fncir.2016.00020

Inferring cortical function in the mouse visual system through large-scale systems neuroscience
M. Hawrylycz, C. Anastassiou, A. Arkhipov, J. Berg, M. Buice, N. Cain, N.W. Gouwens, S. Gratiy, R. Iyer, J. Hoon Lee, S. Mihalas, C. Mitelut, S. Olsen, R. Clay Reid, C. Teeter, S. de Vries, J. Waters, H. Zeng, C. Koch, and E.M. by Richard Shiffrin
Proceedings of the National Academy of Sciences of the United States of America, Jan. 2016
DOI: 10.1073/pnas.1512901113

2015

Optogenetics in mice performing a visual discrimination task: Measurement and suppression of retinal activation and the resulting behavioral artifact
B. Danskin,D. Denman, M. Valley, D. Ollerenshaw, D. Williams, P. Groblewski, C. Reid, S. Olsen, and J. Waters
PLoS ONE, vol. 10, no. 12, Jan. 2015
DOI: 10.1371/journal.pone.0144760

Closed-loop, ultraprecise, automated craniotomies
N. Pak, J.H. Siegle, J.P. Kinney, D.J. Denman, T.J. Blanche, and E.S. Boyden
Journal of Neurophysiology, vol. 113, no. 10, pp. 3943–3953, Jan. 2015
DOI: 10.1152/jn.01055.2014

Complex Effects on In Vivo Visual Responses by Specific Projections from Mouse Cortical Layer 6 to Dorsal Lateral Geniculate Nucleus
D.J. Denman and D. Contreras
Journal of Neuroscience, vol. 35, no. 25, pp. 9265–9280, Jan. 2015
DOI: 10.1523/JNEUROSCI.0027-15.2015

Ultracompact optoflex neural probes for high-resolution electrophysiology and optogenetic stimulation
M. Chamanzar, D. Denman, T. Blanche, and M. Maharbiz
Proceedings of the IEEE International Conference on Micro Electro Mechanical Systems (MEMS), Jan. 2015
DOI: 10.1109/MEMSYS.2015.7051049

2014

The structure of pairwise correlation in mouse primary visual cortex reveals functional organization in the absence of an orientation map
D.J. Denman and D. Contreras
Cerebral Cortex, Jan. 2014
DOI: 10.1093/cercor/bht128