Guide to choosing a Theory project#

July 5-23, 2021

Pure theory projects are usually pursued by more advanced students. If your group is relatively new to neuroscience, you should consider doing a dataset project and include a theory component to it.

Every group can bring up and discuss theory projects. We have two example project templates for this that include code. However, a theory project can go in any direction.

Working memory#

Run

View

Working memory

Open In Colab

View the notebook

Motor RNN#

We built on Feulner & Clopath, Plos Computational Biology, 2021 to propose this project. Here we explore how RNN representation dynamics is linked with connectivity structure and task complexity.

Run

View

Motor RNN

Open In Colab

View the notebook

Databases of models#

​ Here is a list of cool databases you might want to use to look for existing models, computational analyses / data processing tools and data. ​

Name

Model?

Analyses?

Data?

Description

BioModels

:+1:

BioModels is a repository of mathematical models of biological and biomedical systems. It hosts a vast selection of existing literature-based physiologically and pharmaceutically relevant mechanistic models in standard formats.

ModelDB

:+1:

ModelDB provides an accessible location for storing and efficiently retrieving computational neuroscience models. A ModelDB entry contains a model’s source code, concise description, and a citation of the article that published it.

Open Source Brain

:+1:

Open Source Brain is a resource for sharing and collaboratively developing computational models of neural systems.

CRCNS

:+1:

:+1:

:+1:

CRCNS Data sharing website is a marketplace and discussion forum for sharing tools and data in neuroscience

EEGbase

:+1:

:+1:

EEGbase is a system for storage, management, sharing and retrieval of EEG/ERP data, metadata, tools and documents related to electrophysiology.

INCF resources

:+1:

:+1:

:+1:

A list of resources endorsed by INCF.

NITRC

:+1:

:+1:

:+1:

NeuroImaging Tools & Resources Collaboratory is an award-winning free web-based resource that offers comprehensive information on an ever expanding scope of neuroinformatics software and data.

Additional resources#

Name

Description

figshare

A database of everything research related that’s openly shared

Google Dataset search

Lets you do a Google search specifically to find datasets

NeuroVault

A public repository of unthresholded statistical maps, parcellations, and atlases of the brain. (MRI and PET)

KnowledgeSpace

A globally-used, community-based, data-driven encyclopedia for neuroscience that links brain research concepts to data, models, and the literature that support them.