Funded Work

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Depth-Specific Organization of Cortical Inhibitory Neurons

Felipe Yáñez

Developing new analysis methods to uncover the relationships between cortical depth and properties of cortical inhibitory neurons, across species and cortical areas, using publicly-available datasets

Field
  • Neuroscience
Funding Period
  • 2024
Program
  • NeuroData Discovery
  • Open Data in Neuroscience
Institution
  • Max Planck Institute for Neurobiology of Behavior

Enhancing Interoperability, UI and Documentation of MOOSE

Upinder Singh Bhalla

Enhance the Multiscale Object-Oriented Simulation Environment (MOOSE) software package and support outreach and training activities to make computational modeling more globally accessible

Field
  • Neuroscience
Funding Period
  • 2024-2025
Program
  • Neuro Open Source Software
  • Open Data in Neuroscience
Institution
  • National Centre for Biological Sciences, Bengaluru, India
Collaborators
  • Chan Zuckerberg Initiative
  • Wellcome Trust

Next-Generation Movement Monitoring with the DeepLabCut Ecosystem

Mackenzie Mathis

Enhance DeepLabCut with generative AI (AmadeusGPT) and expand the DeepLabCut AI Residency program

Field
  • Neuroscience
Funding Period
  • 2024-2025
Program
  • Neuro Open Source Software
  • Open Data in Neuroscience
Institution
  • Swiss Federal Institute of Technology Lausanne
Collaborators
  • Chan Zuckerberg Initiative
  • Wellcome Trust

NWB GUIDE: An Open Source Software Solution for Data Conversion

Ryan Ly

Develop an open source software application to facilitate converting data into the Neurodata Without Borders (NWB) format using best practices for data and metadata structures

Field
  • Neuroscience
Funding Period
  • 2023
Program
  • Neuro Open Source Software
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • Lawrence Berkeley National Laboratory

Identification and Characterization of Neuronal Ensembles

Ricardo Velázquez Contreras

Develop a data pipeline to characterize neuronal population activity and ensemble properties to understand how sensory stimuli and behaviors are representated across brain regions

Field
  • Neuroscience
Funding Period
  • 2023
Program
  • NeuroData Discovery
  • Open Data in Neuroscience
Institution
  • National Autonomous University of Mexico

Building an NWB Module for Holographic Photostimulation

Mark Histed, Adam Thomas

Develop a software extension to integrate holographic photostimulation data into a data standard and integrate into two-photon image analysis packages

Field
  • Neuroscience
Funding Period
  • 2023
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • National Institute of Mental Health

Extending NWB to Capture Deep Brain Stimulation Datasets

Chi Wang Ip

Develop a software extension to manage data and metadata from deep brain stimulation experiments

Field
  • Neuroscience
Funding Period
  • 2023
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • University Hospital of Würzburg

Using Automated Metadata Extraction to Convert a Multimodel Dataset into NWB

Philip Tovote, Dennis Segebarth

Develop automated extraction tool to retrieve stored metadata as part of a pipeline to standardize a multi-modal dataset

Field
  • Neuroscience
Funding Period
  • 2023
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • University Hospital of Würzburg

Converting Marmoset Intracellular Electrophysiology Datasets into NWB

Chenggang Chen

Develop a software extension to convert marmoset intracellular electrophysiology datasets into a data standard suitable for public access

Field
  • Neuroscience
Funding Period
  • 2023
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • Johns Hopkins University

Tools and Standards for Single-Cell Modeling in Neuroscience

Sarah Keating

Develop tools and open standards to create advanced, multiscale models of neuronal cells through the COmputational Modeling in Biology NEtwork (COMBINE) initiative

Field
  • Neuroscience
Funding Period
  • 2022-2023
Program
  • Neuro Open Source Software
  • Open Data in Neuroscience
Institution
  • University College London

AqNWB: Enabling Acquisition of Neurophysiology Data in NWB

Oliver Rübel

Develop an open C/C++ API for data acquisition for the Neurodata Without Borders (NWB) data standard

Field
  • Neuroscience
Funding Period
  • 2022-2023
Program
  • Neuro Open Source Software
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • Lawrence Berkeley National Laboratory

Clearmap: Open Source Software for the Analysis of Cleared Tissue

Christoph Kirst

Advance functionality and accessibility of ClearMap software, to analyze large volumetric data from the brain

Field
  • Neuroscience
Funding Period
  • 2022-2023
Program
  • Neuro Open Source Software
  • Open Data in Neuroscience
Institution
  • University of California, San Francisco

Pareto Optimality to Define Brain State Topology

Sarah Ruediger

Combine and analyze publicly available data to understand principles that shape neuronal activity across species, and gain insight into population dynamics of complex neuronal circuits

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • NeuroData Discovery
  • Open Data in Neuroscience
Institution
  • University College London

Mapping Functional Networks to Behavioral States

Tzu-Chi Yen

Develop an open source computational pipeline for constructing functional neural networks, in collaboration with Yi-Yun Ho (Massachusetts Institute of Technology)

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • NeuroData Discovery
  • Open Data in Neuroscience
Institution
  • University of Colorado, Boulder

NWB Database for Cortical Connections

Lauri Nurminen

Create a Neurodata Without Borders (NWB) database to share data for optogenetic perturbation of recurrent cortical connections

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • University of Houston

NWB for Neuronal Tracing

Kurt Haas

Expand the Neurodata Without Borders (NWB) ecosytem to include the open source 4D neuron tracing software package Dynamo

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • University of British Columbia

Bringing NWB to Brain-Computer Interface datasets

Christian Herff

Establish a data standard for existing brain-computer interface frameworks and datasets

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • Maastricht University

Bringing NWB to the BirdSong Toolbox

Vikash Gilja, Daril Brown

Extend an open source software toolbox used for songbird neurophysiology analysis, BirdSong, to support Neurodata Without Borders (NWB)

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • University of California, San Diego

NWB Pipeline for Human Single Neuron Recordings

Johannes Sarnthein, Ece Boran

Create a pipeline to convert single-unit data from working memory tasks into the Neurodata Without Borders (NWB) data standard

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • Neurodata without Borders
  • Open Data in Neuroscience
Institution
  • University of Zurich

Graph-Driven Neuronal Networks

Noga Mudrik and Adam Charles

Develop a computational model to uncover the variability of neural circuits across experimental trials, tasks and conditions, and apply this framework to publicly-available datasets

Field
  • Neuroscience
Funding Period
  • 2022
Program
  • NeuroData Discovery
  • Open Data in Neuroscience
Institution
  • Johns Hopkins University