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.
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.
A brief overview of the Python programming language, with an emphasis on tools relevant to data scientists. This lecture was part of the 2018 Neurohackademy, a 2-week hands-on summer institute in neuroimaging and data science held at the University of Washington eScience Institute.
This tutorial was part of the 2018 Neurohackademy, a 2-week hands-on summer institute in neuroimaging and data science held at the University of Washington eScience Institute.
Basic knowledge and comfort with Command Line Interfaces (CLI) is highly beneficial for learning how to use countless neuroscience tools and acquiring programming skills. Furthermore, CLIs are better disposed to reproducibility, automation, concatenation in pipelines, execution on multiple platforms, and remote access.
Ross Markello takes you through this general introduction to the essentials of navigating through a Bash terminal environment. The lesson is based on the Software Carpentries "Introduction to the Shell" and was given in the context of the BrainHack School 2020.
Ross Markello provides an overview of Python applications to data analysis, demonstrating why it has become ubiquitous in data science and neuroscience.
The lesson was given in the context of the BrainHack School 2020.
Introduction to the types of glial cells, homeostasis (influence of cerebral blood flow and influence on neurons), insulation and protection of axons (myelin sheath; nodes of Ranvier), microglia and reactions of the CNS to injury.
Introduction to the principal of anatomical organization of neural systems in the human brain and spinal cord that mediate sensation, integrate signals, and motivate behavior.
This lecture focuses on the comprehension of nociception and pain sensation. It highlights how the somatosensory system and different molecular partners are involved in nociception and how nociception and pain sensation are studied in rodents and humans and the development of pain therapy.
Tutorial describing the basic search and navigation features of the Allen Mouse Brain Atlas
Tutorial describing the basic search and navigation features of the Allen Developing Mouse Brain Atlas
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 and 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.