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Lecture on functional brain parcellations and a set of tutorials on bootstrap agregation of stable clusters (BASC) for fMRI brain parcellation which were part of the 2019 Neurohackademy, a 2-week hands-on summer institute in neuroimaging and data science held at the University of Washington eScience Institute.

Difficulty level: Advanced
Duration: 50:28
Speaker: : Pierre Bellec
Course:

Neuronify is an educational tool meant to create intuition for how neurons and neural networks behave. You can use it to combine neurons with different connections, just like the ones we have in our brain, and explore how changes on single cells lead to behavioral changes in important networks. Neuronify is based on an integrate-and-fire model of neurons. This is one of the simplest models of neurons that exist. It focuses on the spike timing of a neuron and ignores the details of the action potential dynamics. These neurons are modeled as simple RC circuits. When the membrane potential is above a certain threshold, a spike is generated and the voltage is reset to its resting potential. This spike then signals other neurons through its synapses.

Neuronify aims to provide a low entry point to simulation-based neuroscience.

Difficulty level: Beginner
Duration: 01:25
Speaker: : Neuronify

This lecture covers structured data, databases, federating neuroscience-relevant databases, ontologies. 

Difficulty level: Beginner
Duration: 1:30:45
Speaker: : Maryann Martone

Since their introduction in 2016, the FAIR data principles have gained increasing recognition and adoption in global neuroscience.  FAIR defines a set of high-level principles and practices for making digital objects, including data, software, and workflows, Findable, Accessible,  Interoperable, and Reusable.  But FAIR is not a specification;  it leaves many of the specifics up to individual scientific disciplines to define.  INCF has been leading the way in promoting, defining, and implementing FAIR data practices for neuroscience.  We have been bringing together researchers, infrastructure providers, industry, and publishers through our programs and networks.  In this session, we will hear some perspectives on FAIR neuroscience from some of these stakeholders who have been working to develop and use FAIR tools for neuroscience.  We will engage in a discussion on questions such as:  how is neuroscience doing with respect to FAIR?  What have been the successes?  What is currently very difficult? Where does neuroscience need to go?

 

This lecture covers FAIR atlases, from their background, their construction, and how they can be created in line with the FAIR principles.

Difficulty level: Beginner
Duration: 14:24
Speaker: : Heidi Kleven

Introductory presentation on how data science can help with scientific reproducibility.

Difficulty level: Beginner
Duration:
Speaker: : Michel Dumontier

As models in neuroscience have become increasingly complex, it has become more difficult to share all aspects of models and model analysis, hindering model accessibility and reproducibility. In this session, we will discuss existing resources for promoting FAIR data and models in computational neuroscience, their impact on the field, and the remaining barriers. This lecture covers how FAIR practices affect personalized data models, including workflows, challenges, and how to improve these practices.

Difficulty level: Beginner
Duration: 13:16
Speaker: : Kelly Shen

As models in neuroscience have become increasingly complex, it has become more difficult to share all aspects of models and model analysis, hindering model accessibility and reproducibility. In this session, we will discuss existing resources for promoting FAIR data and models in computational neuroscience, their impact on the field, and the remaining barriers. This lecture covers how to make modeling workflows FAIR by working through a practical example, dissecting the steps within the workflow, and detailing the tools and resources used at each step.

Difficulty level: Beginner
Duration: 15:14

The ionic basis of the action potential, including the Hodgkin Huxley model. 

Difficulty level: Beginner
Duration: 28:29
Speaker: : Carl Petersen

Introduction to the course Cellular Mechanisms of Brain Function.

Difficulty level: Beginner
Duration: 12:20
Speaker: : Carl Petersen

The ionic basis of the action potential, including the Hodgkin Huxley model. 

Difficulty level: Beginner
Duration: 28:29
Speaker: : Carl Petersen

Introduction to the course Cellular Mechanisms of Brain Function.

Difficulty level: Beginner
Duration: 12:20
Speaker: : Carl Petersen

Ion channels and the movement of ions across the cell membrane.

Difficulty level: Beginner
Duration: 28:08
Speaker: : Carl Petersen

Spatiotemporal dynamics of the membrane potential.

Difficulty level: Beginner
Duration: 19:14
Speaker: : Carl Petersen

Action potentials, and biophysics of voltage-gated ion channels.

Difficulty level: Beginner
Duration: 27:47
Speaker: : Carl Petersen

Voltage-gating kinetics of sodium and potassium channels.

Difficulty level: Beginner
Duration: 19:20
Speaker: : Carl Petersen

The ionic basis of the action potential, including the Hodgkin Huxley model.

Difficulty level: Beginner
Duration: 28:29
Speaker: : Carl Petersen

Action potential initiation and propagation.

Difficulty level: Beginner
Duration: 23:16
Speaker: : Carl Petersen

Neurotransmitter release in the presynaptic specialization.

Difficulty level: Beginner
Duration: 21:36
Speaker: : Carl Petersen

Synaptic modulation through diffusing neurotransmitters.

Difficulty level: Beginner
Duration: 23:00
Speaker: : Carl Petersen

Glutamatergic transmission.

Difficulty level: Beginner
Duration: 28:53
Speaker: : Carl Petersen