This video demonstrates each required step for preprocessing T1w anatomical data in brainlife.io.
This lesson delves into the human nervous system and the immense cellular, connectomic, and functional sophistication therein.
This lecture provides an 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, highlighting how the somatosensory system and different molecular partners are involved in nociception.
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.
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.
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.
This module covers some basic anatomy such as the brain’s major divisions (brainstem, cerebellum, cerebrum), the cerebral lobes (frontal, temporal, parietal, and occipital), the central and peripheral nervous systems, theories of cognition, and brain orientation terms.
While the previous lesson in the Neuro4ML course dealt with the mechanisms involved in individual synapses, this lesson discusses how synapses and their neurons' firing patterns may change over time.
This lecture provides an introduction to the study of eye-tracking in humans.
This lesson continues with the second workshop on reproducible science, focusing on additional open source tools for researchers and data scientists, such as the R programming language for data science, as well as associated tools like RStudio and R Markdown. Additionally, users are introduced to Python and iPython notebooks, Google Colab, and are given hands-on tutorials on how to create a Binder environment, as well as various containers in Docker and Singularity.
This lesson contains both a lecture and a tutorial component. The lecture (0:00-20:03 of YouTube video) discusses both the need for intersectional approaches in healthcare as well as the impact of neglecting intersectionality in patient populations. The lecture is followed by a practical tutorial in both Python and R on how to assess intersectional bias in datasets. Links to relevant code and data are found below.
This is a hands-on tutorial on PLINK, the open source whole genome association analysis toolset. The aims of this tutorial are to teach users how to perform basic quality control on genetic datasets, as well as to identify and understand GWAS summary statistics.
This is a tutorial on using the open-source software PRSice to calculate a set of polygenic risk scores (PRS) for a study sample. Users will also learn how to read PRS into R, visualize distributions, and perform basic association analyses.
This lesson is an overview of transcriptomics, from fundamental concepts of the central dogma and RNA sequencing at the single-cell level, to how genetic expression underlies diversity in cell phenotypes.
This is a tutorial introducing participants to the basics of RNA-sequencing data and how to analyze its features using Seurat.
This tutorial demonstrates how to perform cell-type deconvolution in order to estimate how proportions of cell-types in the brain change in response to various conditions. While these techniques may be useful in addressing a wide range of scientific questions, this tutorial will focus on the cellular changes associated with major depression (MDD).
This is a tutorial on how to simulate neuronal spiking in brain microcircuit models, as well as how to analyze, plot, and visualize the corresponding data.
In this third and final hands-on tutorial from the Research Workflows for Collaborative Neuroscience workshop, you will learn about workflow orchestration using open source tools like DataJoint and Flyte.
In this hands-on session, you will learn how to explore and work with DataLad datasets, containers, and structures using Jupyter notebooks.