Skip to main content

The Allen Mouse Brain Atlas is a genome-wide, high-resolution atlas of gene expression throughout the adult mouse brain. This tutorial describes the basic search and navigation features of the Allen Mouse Brain Atlas.

Difficulty level: Beginner
Duration: 6:40

The Allen Developing Mouse Brain Atlas is a detailed atlas of gene expression across mouse brain development. This tutorial describes the basic search and navigation features of the Allen Developing Mouse Brain Atlas.

Difficulty level: Beginner
Duration: 6:35
Speaker: : Unknown

This tutorial demonstrates how to use the differential search feature of the Allen Mouse Brain Atlas to find gene markers for different regions of the brain, as well as to visualize this gene expression in three-dimensional space. Differential search is also available for the Allen Developing Mouse Brain Atlas and the Allen Human Brain Atlas.

Difficulty level: Beginner
Duration: 6:31
Speaker: : Unknown

The Virtual Brain (TVB) is an open-source, multi-scale, multi-modal brain simulation platform. In this lesson, you get introduced to brain simulation in general and to TVB in particular. This lesson also presents the newest approaches for clinical applications of TVB - that is, for stroke, epilepsy, brain tumors, and Alzheimer’s disease - and show how brain simulation can improve diagnostics, therapy, and understanding of neurological disease.

Difficulty level: Beginner
Duration: 1:35:08
Speaker: : Petra Ritter

This lesson explains the mathematics of neural mass models and their integration to a coupled network. You will also learn about bifurcation analysis, an important technique in the understanding of non-linear systems and as a fundamental method in the design of brain simulations. Lastly, the application of the described mathematics is demonstrated in the exploration of brain stimulation regimes.

Difficulty level: Beginner
Duration: 1:49:24
Speaker: : Andreas Spiegler

In this lesson, the simulation of a virtual epileptic patient is presented as an example of advanced brain simulation as a translational approach to deliver improved clinical results. You will learn about the fundamentals of epilepsy, as well as the concepts underlying epilepsy simulation. By using an iPython notebook, the detailed process of this approach is explained step by step. In the end, you are able to perform simple epilepsy simulations your own.

Difficulty level: Beginner
Duration: 1:28:53
Speaker: : Julie Courtiol

This lesson introduces the practical usage of The Virtual Brain (TVB) in its graphical user interface and via python scripts. In the graphical user interface, you are guided through its data repository, simulator, phase plane exploration tool, connectivity editor, stimulus generator, and the provided analyses. The implemented iPython notebooks of TVB are presented, and since they are public, can be used for further exploration of TVB. 

Difficulty level: Beginner
Duration: 1:12:24
Speaker: : Paul Triebkorn

In this lesson you will learn how to simulate seizure events and epilepsy in The Virtual Brain. We will look at the paper On the Nature of Seizure Dynamics, which describes a new local model called the Epileptor, and apply this same model in The Virtual Brain. This is part 1 of 2 in a series explaining how to use the Epileptor. In this part, we focus on setting up the parameters.

Difficulty level: Beginner
Duration: 4:44
Speaker: : Paul Triebkorn

In this lesson, you will hear about the current challenges regarding data management, as well as policies and resources aimed to address them. 

Difficulty level: Beginner
Duration: 18:13
Speaker: : Mojib Javadi

Research Resource Identifiers (RRIDs) are ID numbers assigned to help researchers cite key resources (e.g., antibodies, model organisms, and software projects) in biomedical literature to improve the transparency of research methods.

Difficulty level: Beginner
Duration: 1:01:36
Speaker: : Maryann Martone

This lecture provides an overview of successful open-access projects aimed at describing complex neuroscientific models, and makes a case for expanded use of resources in support of reproducibility and validation of models against experimental data.

Difficulty level: Beginner
Duration: 1:00:39
Speaker: : Sharon Crook

This lesson provides a demonstration of GeneWeaver, a system for the integration and analysis of heterogeneous functional genomics data.

Difficulty level: Beginner
Duration: 25:53
Speaker: :

This lesson introduces the EEGLAB toolbox, as well as motivations for its use.

Difficulty level: Beginner
Duration: 15:32
Speaker: : Arnaud Delorme

In this lesson, you will learn about the biological activity which generates and is measured by the EEG signal.

Difficulty level: Beginner
Duration: 6:53
Speaker: : Arnaud Delorme

This lesson goes over the characteristics of EEG signals when analyzed in source space (as opposed to sensor space). 

Difficulty level: Beginner
Duration: 10:56
Speaker: : Arnaud Delorme

This lesson describes the development of EEGLAB as well as to what extent it is used by the research community.

Difficulty level: Beginner
Duration: 6:06
Speaker: : Arnaud Delorme

This lesson provides instruction as to how to build a processing pipeline in EEGLAB for a single participant. 

Difficulty level: Beginner
Duration: 9:20
Speaker: :

Whereas the previous lesson of this course outlined how to build a processing pipeline for a single participant, this lesson discusses analysis pipelines for multiple participants simultaneously. 

Difficulty level: Beginner
Duration: 10:55
Speaker: : Arnaud Delorme

In addition to outlining the motivations behind preprocessing EEG data in general, this lesson covers the first step in preprocessing data with EEGLAB, importing raw data. 

Difficulty level: Beginner
Duration: 8:30
Speaker: : Arnaud Delorme

Continuing along the EEGLAB preprocessing pipeline, this tutorial walks users through how to import data events as well as EEG channel locations.

Difficulty level: Beginner
Duration: 11:53
Speaker: : Arnaud Delorme