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 talk gives an overview of the perspectives and FAIR-aligned policies of the academic journal Public Library of Science, better known as PLOS. This journal is a nonprofit, open access publisher empowering researchers to accelerate progress in science.
This lecture gives a tour of what neuroethics is and how it applies to neuroscience and neurotechnology, while also addressing justice concerns within both fields.
This lecture covers the biomedical researcher's perspective on FAIR data sharing and the importance of finding better ways to manage large datasets.
This lecture covers the benefits and difficulties involved when re-using open datasets, and how metadata is important to the process.
This video gives a short introduction to the EBRAINS data sharing platform, why it was developed, and how it contributes to open data sharing.
This video introduces the key principles for data organization and explains how you could make your data FAIR for data sharing on EBRAINS.
This video introduces the importance of writing a Data Descriptor to accompany your dataset on EBRAINS. It gives concrete examples on what information to include and highlights how this makes your data more FAIR.
This video demonstrates how to find, access, and download data on EBRAINS.
KnowledgeSpace (KS) is a data discoverability portal and neuroscience encyclopedia that was developed to make it easier for the neuroscience community to find publicly available datasets that adhere to the FAIR Principles and to provide an integrated view of neuroscience concepts found in Wikipedia and NeuroLex linked with PubMed and 17 of the world's leading neuroscience repositories. In short, KS provides a single point of entry where reseaerchers can search for a neuroscience concept of interest and receive results that include: i. a description of the term found in Wikipedia/NeuroLex, ii. links to publicly available datasets related to the concept of interest, and iii. up-to-date references that support the concept of interests found in PubMed. APIs are available so that developers of other neuroscience research infrastructures can integrate KS components in their infrastructures. If your repository or your favorite repository is not indexed in KS, please contact us.
This lecture provides an introduction to the application of genetic testing in neurodevelopmental disorders.
In this lesson, you will learn about how genetics can contribute to our understanding of psychiatric phenotypes.
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 lesson provides an overview of GeneWeaver, a web application for the integrated cross-species analysis of functional genomics data to find convergent evidence from heterogeneous sources.
This lesson provides a demonstration of GeneWeaver, a system for the integration and analysis of heterogeneous functional genomics data.
This lecture outlines GeneNetwork.org, a group of linked data sets and tools used to study complex networks of genes, molecules, and higher order gene function and phenotypes.
This tutorial shows how to use the UCSC genome browser to find a list of genes in a given genomic region.
This tutorial shows how to find all the single nucleotide polymorphisms (SNPs) upstream from genes using the UCSC Genome Browser.