Economo 2018

This project presents a DataJoint pipeline design for the data accompanying the following paper:

Michael N. Economo, Sarada Viswanathan, Bosiljka Tasic, Erhan Bas, Johan Winnubst, Vilas Menon, Lucas T. Graybuck,Thuc Nghi Nguyen, Kimberly A. Smith, Zizhen Yao, Lihua Wang, Charles R. Gerfen, Jayaram Chandrashekar, Hongkui Zeng, Loren L. Looger & Karel Svoboda. "Distinct descending motor cortex pathways and their roles in movement" (2018) Nature. doi:10.1038/s41586-018-0642-9 [Link]

Gao 2018

DataJoint-NWB conversion project for Gao et al. (2018)

The data consists of extracellular recording at either anterior lateral motor cortex (ALM) or the cerebellar nuclei (CN), while the animal was performing a sensory discrimination task with photo perturbation in the medial deep cerebellar nucleus or ALM.

Zhenyu Gao, Courtney Davis, Alyse M. Thomas, Michael N. Economo, Amada M. Abrego, Karel Svoboda, Chris I. De Zeeuw & Nuo Li. “A cortico-cerebellar loop for motor planning” Nature. doi:10.1038/s41586-018-0633-x [Link]

Li 2015b

DataJoint-NWB conversion project for the imaging dataset (Figure 4) for Li et al. (2015)

The data consists of two-photon imaging data at the anterior lateral motor cortex (ALM). The recordings were performed on mice performing a tactile discrimination task. Both pyramidal tract (PT) neurons and intratelencephalic (IT) neurons were labeled in the recording site.

Nuo Li, Tsai-Wen Chen, Zengcai V. Guo, Charles R. Gerfen & Karel Svoboda. "A motor cortex circuit for motor planning and movement" (2015) Nature. doi:10.1038/nature14178 [Link]

Li-Daie 2015-2016

DataJoint-NWB conversion project for Li et al. (2015) and Li, Daie et al. (2016) paper

Data consists of extracellular recording at the anterior lateral motor cortex (ALM). The recordings were performed on mice performing a tactile discrimination task with and without photoinhibition. Photostimulation was induced during different parts of the task (e.g. sample, delay, response), with varying durations, and at contra, ipsi, or bilateral ALM.

Nuo Li, Tsai-Wen Chen, Zengcai V. Guo, Charles R. Gerfen & Karel Svoboda. "A motor cortex circuit for motor planning and movement" (2015) Nature. doi:10.1038/nature14178 [Link]

Nuo Li, Kayvon Daie, Karel Svoboda & Shaul Druckmann. "Robust neuronal dynamics in premotor cortex during motor planning" (2016) Nature. doi:10.1038/nature17643 [Link]

Inagaki 2018-2019

DataJoint data pipeline associated with Inagaki et al. (2018) and Inagaki et al. (2019) papers

Whole-cell and extracellular recordings of neurons in mouse anterior lateral motor cortex (ALM) in a delay-response task with optogenetic perturbations.

Hidehiko K. Inagaki, Lorenzo Fontolan, Sandro Romani & Karel Svoboda. "Discrete Attractor Dynamics Underlies Persistent Activity in the Frontal Cortex" (2019) Nature. doi:10.1038/s41586-019-0919-7 [Link]

Hidehiko K. Inagaki, Miho Inagaki, Sandro Romani and Karel Svoboda. "Low-Dimensional and Monotonic Preparatory Activity in Mouse Anterior Lateral Motor Cortex" (2018) Jneurosci. doi:10.1523/JNEUROSCI.3152-17.2018 [Link]

Hires-Gutnisky 2015

DataJoint data pipeline associated with Hires, Gutnisky et al. (2015) paper

Data comprises of whole cell recordings from mice’s layer 4 of the somatosensory cortex during active tactile sensation.

Samuel Andrew Hires, Diego A Gutnisky, Jianing Yu, Daniel H O’Connor, and Karel Svoboda. "Low-noise encoding of active touch by layer 4 in the somatosensory cortex" (2015) eLife. doi:10.7554/eLife.06619 [Link]

Guo-Inagaki 2017

DataJoint data pipeline associated with Guo, Inagaki et al. (2017) paper

Data consists of both extracellular and whole-cell recording at the ALM and thalamus regions. The recordings were performed on mice performing tactile discrimination task with and without unilateral photoinhibition.

Zengcai V. Guo, Hidehiko K. Inagaki, Kayvon Daie, Shaul Druckmann, Charles R. Gerfen & Karel Svoboda. "Maintenance of persistent activity in a frontal thalamocortical loop" (2017) Nature. doi:10.1038/nature22324 [Link]

ALM-1

A pipeline for an anterior lateral motor cortex study

Extracellular recordings from anterior lateral motor cortex (ALM) neurons of adult mice performing a tactile decision behavior. Data contributed by Nuo Li in the lab of Karel Svoboda at Janelia Farm.
This is the extracellular neurophysiology data set and behavior data set described in Li, N., Chen, T.W. et al Nature 2015.

SSC-1

Data pipeline for the somatosensory cortex 1

This dataset comprises calcium imaging data from vibrissal S1 in mice performing a pole localization task. Data contributed by Simon Peron in the lab of Karel Svoboda at Janelia Farm.
The data is described in A Cellular Resolution Map of Barrel Cortex Activity during Tactile Behavior. Simon P. Peron, Jeremy Freeman, Vijay Iyer, Caiying Guo, Karel Svoboda. Neuron. 2015 May 6;86(3):783-99. doi: 10.1016/j.neuron.2015.03.027

Visual Stimuli

A datajoint-matlab pipeline for presenting and recording visual stimuli with PsychToolbox

details about Visual Stimuli

RET-1

A pipeline for a retina electrophysiology study

This data set has single-unit neural responses recorded from isolated retina from lab mice (Mus Musculus) using a 61-electrode array in response to various visual stimuli. Recordings were done by Yifeng Zhang in Markus Meister's lab at Harvard University in 2008.
Lefebvre, J.L., Zhang, Y., Meister, M., Wang, X., and Sanes, J.R. (2008) Gamma-Protocadherins regulate neuronal survival but are dispensable for circuit formation in retina. Development 135:4141-4151.