Computational Neuroethology


The goal of the Department of Computational Neuroethology (CNE) is to develop computational models which can predict goal-directed animal behaviors.



Graydon CW, Lieberman EE, Rho N, Briggman KL, Singer JH, Diamond JS. (2018) “Synaptic Transfer between Rod and Cone Pathways Mediated by AII Amacrine Cells in the Mouse Retina”  Curr. Biol. 28, 2739-2751

Tabor KM, Smith TS, Brown M, Bergeron SA, Briggman KL, Burgess HA. (2018) “Presynaptic Inhibition Selectively Gates Auditory Transmission to the Brainstem Startle Circuit” Curr. Biol. 28, 2527-2535

Bae JA, Mu S, Kim JS, Turner NL, Tartavull I, Kemnitz N, Jordan CS, Norton AD, Silversmith WM, Prentki R, Sorek M, David C, Jones DL, Bland D, Sterling ALR, Park J, Briggman KL, Seung HS; Eyewirers.(2018) “Digital museum of retinal ganglion cells with dense anatomy and physiology” Cell 173, 1293-1306

Stabio, M.E., Sabbah, S., Quattrochi, L.E., Ilardi, M.C., Fogerson, P.M., Leyrer, M.L., Kim, M.T., Kim, I., Schiel, M., Renna, J.M., Briggman, K. & Berson, D.M. (2018) “The M5 cell: A color-opponent intrinsically photosensitive retinal ganglion cell” Neuron 97, 150-163 


Sabbah S, Berg D, Papendorp C, Briggman KL, Berson DM (2017) "A Cre mouse line for probing irradiance- and direction-encoding retinal networks" eNeuro 4, .

Sethuramanujam, S., Yao, X., deRosenroll, G., Briggman, K.L., Field, G.D. & Awatramani, G.B. (2017) “'Silent’ NMDA synapses enhance motion sensitivity in a mature retinal circuit” Neuron 96, 1099-1111.e3


Ding, H., Smith, R.G., Poleg-Polsky, A., Diamond, J.S. & Briggman, K. L. (2016) "Species-specific wiring for direction selectivity in the mammalian retina" Nature 535, 105-110 


Hoggarth, A., McLaughlin, A.J., Ronellenfitch, K., Trenholm, S., Vasandani, R., Sethuramanujam, S., Schwab, D., Briggman, K.L. & Awatramani, G. B. (2015) "Specific wiring of distinct amacrine cells in the directionally selective retinal circuit permits independent coding of direction and size" Neuron 86, 276-291  

Pallotto, M., Watkins, P.V., Fubara, B., Singer, J.H. & Briggman, K.L. (2015) "Extracellular space preservation aids the connectomic analysis of neural circuits" eLife 4, e08206 


Grimes, W.N., Hoon, M., Briggman, K.L., Wong, R.O. & Rieke, F. (2014) "Cross-synaptic synchrony and transmission of signal and noise across the mouse retina" eLife 3, e03892 

Mehta, B., Ke, J.B., Zhang, L., Baden, A.D., Markowitz, A.L., Nayak, S., Briggman, K.L., Zenisek, D. & Singer, J.H. (2014) "Global Ca2+ signaling drives ribbon-independent synaptic transmission at rod bipolar cell synapses" J. Neurosci. 34, 6233-6244 


Helmstaedter, M., Briggman, K.L., Turaga, S.C., Jain, V., Seung, H.S. & Denk, W. (2013) "Connectomic reconstruction of the inner plexiform layer in the mouse retina" Nature 500, 168-174 


Andres, B., Koethe, U., Kroeger, T., Helmstaedter, M., Briggman, K.L., Denk, W. & Hamprecht, F.A. (2012) "3D segmentation of SBFSEM images of neuropil by a graphical model over supervoxel boundaries" Med. Image. Anal. 16, 796-805  

Briggman, K.L. & Bock, D.D. (2012) "Volume electron microscopy for neuronal circuit reconstruction" Curr. Opin. Neurobiol. 22, 154-161

Denk, W., Briggman, K.L. & Helmstaedter, M. (2012) "Structural neurobiology: missing link to a mechanistic understanding of neural computation" Nat. Rev. Neurosci. 13, 351-358 


Briggman, K.L. & Euler, T. (2011) "Bulk electroporation and population calcium imaging in the adult mammalian retina" J. Neurophysiol. 105, 2601-2609 

Briggman, K.L., Helmstaedter, M. & Denk, W. (2011) "Wiring specificity in the direction-selectivity circuit of the retina" Nature 471, 183-188  

Helmstaedter, M., Briggman, K.L. & Denk, W. (2011) "High-accuracy neurite reconstruction for high-throughput neuroanatomy" Nat. Neurosci. 14, 1081-1088 

Kleinfeld, D., Bharioke, A., Blinder, P., Bock, D.D., Briggman, K.L., Chklovskii, D.B., Denk, W., Helmstaedter, M., Kaufhold, J.P., Lee, W.C., Meyer, H.S., Micheva, K.D., Oberlaender, M., Prohaska, S., Reid, R.C., Smith, S.J., Takemura, S., Tsai, P.S. & Sakmann, B. (2011) "Large-scale automated histology in the pursuit of connectomes" J. Neurosci. 31, 16125-16138


Turaga, S.C., Murray, J.F., Jain, V., Roth, F., Helmstaedter, M., Briggman, K.L., Denk, W. & Seung, H.s. (2010) "Convolutional networks can learn to generate affinity graphs for image segmentation” Neura. Comput. 22, 511-538


Briggman, K.L. & Kristan, W.B. (2008) "Multifunctional pattern-generating circuits" Ann. Rev. Neurosci. 31, 271-294 

Helmstaedter, M., Briggman, K.L. & Denk, W. (2008) "3D structural imaging of the brain with photons and electrons" Curr. Opin. Neurobiol. 18, 633-641 


Briggman, K.L. & Denk, W. (2006) "Towards neural circuit reconstruction with volume electron microscopy techniques" Curr. Opin. Neurobiol. 16, 562-570 

Briggman, K.L. & Kristan, W.B. (2006) "Imaging dedicated and multifunctional neural circuits generating distinct behaviors" J. Neurosci. 26, 10925-10933


Briggman, K.L., Abarbanel, H.D. & Kristan, W.B. (2005) "Optical imaging of neuronal populations during decision-making" Science 307, 896-901