cellxgene couples a Python server to a browser-based JavaScript client, letting researchers cross-filter, re-embed, annotate, and test differential expression in datasets of millions of cells.

bioRxiv · Apr 5, 2021 · PreprintSystems Biology✦ In-depth digest

A survey of spiking activity reveals a functional hierarchy of mouse corticothalamic visual areas

Joshua H. Siegle, Xiaoxuan Jia, Séverine Durand, Samuel D. Gale, Corbett Bennett, Nile Graddis, Greggory R. Heller, Tamina K. Ramirez, Hannah Choi, Jennifer Luviano, Peter A. Groblewski, Ruweida Ahmed, Anton S. Arkhipov, Amy Bernard, Yazan N. Billeh, , Christof Koch A

The paper presents a dataset and analysis of spiking activity across multiple mouse visual areas, revealing that functional connectivity mirrors anatomical hierarchy.

Nature · Jan 20, 2021Peer-reviewedNeuroscience

Experience shapes activity dynamics and stimulus coding of VIP inhibitory and excitatory cells in visual cortex

Marina Garrett, Sahar Manavi, Kate Roll, Douglas R. Ollerenshaw, Peter A. Groblewski, Nicholas D. Ponvert, Justin T. Kiggins, Linzy Casal, Kyla D. Mace, Ali Williford, Arielle Leon, Xiaoxuan Jia, Peter Ledochowitsch, Michael A. Buice, Wayne Wakeman, , Shawn R. Olsen

The paper examines how visual experience affects activity dynamics and stimulus coding in excitatory and VIP inhibitory cells in mouse visual cortex during a change detection task.

eLife · Feb 26, 2020Peer-reviewedNeuroscience

Similar visual perception in GCaMP6 transgenic mice despite differences in learning and motivation

Peter A. Groblewski, Douglas R. Ollerenshaw, Justin T. Kiggins, Marina Garrett, Chris Mochizuki, Linzy Casal, Sissy Cross, Kyla D. Mace, Jackie Swapp, Sahar Manavi, Derric Williams, Ştefan Mihalaş, Shawn R. Olsen

The paper compares perceptual decisions across GCaMP6 transgenic mice during a visual task, finding high correlation despite differences in learning and motivation.

bioRxiv · Feb 18, 2020 · PreprintNeuroscience

NWB:N 2.0: An Accessible Data Standard for Neurophysiology

Oliver Rübel, Andrew Tritt, Ben Dichter, Thomas Braun, Nicholas Cain, Nathan G. Clack, Thomas J. Davidson, Maximilian E. Dougherty, Jean‐Christophe Fillion‐Robin, Nile Graddis, Michael Grauer, Justin T. Kiggins, Lawrence Niu, Doruk Ozturk, W. J. Schroeder, , Kristofer E. Bouchard

Version 2.0 of the Neurodata Without Borders neurophysiology format centres on the schema, with an accompanying software stack and community aimed at making recordings easier to reuse.

bioRxiv · Jan 17, 2019 · PreprintNeuroscience