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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 an introduction to neuroinformatics and its subfields, the content of the short course and future neuroinformatics applications.

Difficulty level: Beginner
Duration: 34:27

In this presentation by the OHBM OpenScienceSIG, Tom Shaw and Steffen Bollmann cover how containers can be useful for running the same software on different platforms and sharing analysis pipelines with other researchers. They demonstrate how to build docker containers from scratch, using Neurodocker, and cover how to use containers on an HPC with singularity.

 

 

Difficulty level: Beginner
Duration: 01:21:59

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

This lecture covers describing and characterizing an input-output relationship.

Difficulty level: Beginner
Duration: 1:35:33

Part 1 of 2 of a tutorial on statistical models for neural data

Difficulty level: Beginner
Duration: 1:45:48
Speaker: : Jonathan Pillow

Part 2 of 2 of a tutorial on statistical models for neural data.

Difficulty level: Beginner
Duration: 1:50:31
Speaker: : Jonathan Pillow

From the retina to the superior colliculus, the lateral geniculate nucleus into primary visual cortex and beyond, this lecture gives a tour of the mammalian visual system highlighting the Nobel-prize winning discoveries of Hubel & Wiesel.

Difficulty level: Beginner
Duration: 56:31
Speaker: : Clay Reid

From Universal Turing Machines to McCulloch-Pitts and Hopfield associative memory networks, this lecture explains what is meant by computation.

Difficulty level: Beginner
Duration: 55:27
Speaker: : Christof Koch

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

Difficulty level: Beginner
Duration: 25:51
Speaker: : Carl Petersen

How does the brain learn? This lecture discusses the roles of development and adult plasticity in shaping functional connectivity.

Difficulty level: Beginner
Duration: 1:08:45
Speaker: : Clay Reid

This lecture provides an introduction to the study of eye-tracking in humans. 

Difficulty level: Beginner
Duration: 34:05
Speaker: : Ulrich Ettinger

In an overview of the structure of the mammalian neocortex, this lecture explains how the mammalian cortex is organized in a hierarchy, describing the columnar principle and canonical microcircuits

Difficulty level: Beginner
Duration: 1:02:02
Speaker: : Clay Reid

The retina has 60 different types of neurons. What are their functions? This lecture explores the definition of cell types and their functions in the mammalian retina.

Difficulty level: Beginner
Duration: 1:07:19
Speaker: : Christof Koch

Optical imaging offers a look inside the working brain. This lecture takes a look at orientation and ocular dominance columns in the visual cortex, and shows how they can be viewed with calcium imaging.

Difficulty level: Beginner
Duration: 26:17
Speaker: : Clay Reid

Functional imaging has led to the discovery of a plethora of visual cortical regions. This lecture introduces functional imaging techniques and their teachings about the visual cortex.

Difficulty level: Beginner
Duration: 1:07:03
Speaker: : Clay Reid

This lecture explains these ideas and explores the task of characterizing neuronal response properties using information theory.

Difficulty level: Beginner
Duration: 1:01:18
Speaker: : Christof Koch

What is color? This lecture explores how color is "made" in the brain and variations of color perception including trichromacy, color blindness in men, tetrachromatic vision in women, and genetic engineering of color perception.

Difficulty level: Beginner
Duration: 1:11:07
Speaker: : Christof Koch