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The Mouse Phenome Database (MPD) provides access to primary experimental trait data, genotypic variation, protocols and analysis tools for mouse genetic studies. Data are contributed by investigators worldwide and represent a broad scope of phenotyping endpoints and disease-related traits in naïve mice and those exposed to drugs, environmental agents or other treatments. MPD ensures rigorous curation of phenotype data and supporting documentation using relevant ontologies and controlled vocabularies. As a repository of curated and integrated data, MPD provides a means to access/re-use baseline data, as well as allows users to identify sensitized backgrounds for making new mouse models with genome editing technologies, analyze trait co-inheritance, benchmark assays in their own laboratories, and many other research applications. MPD’s primary source of funding is NIDA. For this reason, a majority of MPD data is neuro- and behavior-related.

Difficulty level: Beginner
Duration: 55:36
Speaker: : Elissa Chesler

This is the first of two workshops on reproducibility in science, during which participants are introduced to concepts of FAIR and open science. After discussing the definition of and need for FAIR science, participants are walked through tutorials on installing and using Github and Docker, the powerful, open-source tools for versioning and publishing code and software, respectively.

Difficulty level: Intermediate
Duration: 1:20:58

In this lesson, while learning about the need for increased large-scale collaborative science that is transparent in nature, users also are given a tutorial on using Synapse for facilitating reusable and reproducible research. 

Difficulty level: Beginner
Duration: 1:15:12
Speaker: : Abhi Pratap

This lesson contains the first part of the lecture Data Science and Reproducibility. You will learn about the development of data science and what the term currently encompasses, as well as how neuroscience and data science intersect. 

Difficulty level: Beginner
Duration: 32:18
Speaker: : Ariel Rokem

In this second part of the lecture Data Science and Reproducibility, you will learn how to apply the awareness of the intersection between neuroscience and data science (discussed in part one) to an understanding of the current reproducibility crisis in biomedical science and neuroscience. 

Difficulty level: Beginner
Duration: 31:31
Speaker: : Ashley Juavinett

The lecture provides an overview of the core skills and practical solutions required to practice reproducible research.

Difficulty level: Beginner
Duration: 1:25:17
Speaker: : Fernando Perez

This lecture provides an introduction to reproducibility issues within the fields of neuroimaging and fMRI, as well as an overview of tools and resources being developed to alleviate the problem.

Difficulty level: Beginner
Duration: 1:03:07
Speaker: : Russell Poldrack

This lecture provides a historical perspective on reproducibility in science, as well as the current limitations of neuroimaging studies to date. This lecture also lays out a case for the use of meta-analyses, outlining available resources to conduct such analyses. 

Difficulty level: Beginner
Duration: 55:39
Speaker: : Angela Laird

This workshop will introduce reproducible workflows and a range of tools along the themes of organisation, documentation, analysis, and dissemination. 

Difficulty level: Beginner
Duration: 01:28:43
Speaker: :
Course:

Maximize Your Research With Cloud Workspaces is a talk aimed at researchers who are looking for innovative ways to set up and execute their life science data analyses in a collaborative, extensible, open-source cloud environment. This panel discussion is brought to you by MetaCell and scientists from leading universities who share their experiences of advanced analysis and collaborative learning through the Cloud.

 

Difficulty level: Beginner
Duration: 55:43

This brief video provides an introduction to the third session of INCF's Neuroinformatics Assembly 2023, focusing on how to streamling cross-platform data integration in a neuroscientific context. 

Difficulty level: Beginner
Duration: 5:55
Speaker: : Bing-Xing Huo

This talk describes the challenges to sustained operability and success of consortia, why many of these groups flounder after just a few years, and what steps can be taken to mitigate such outcomes. 

Difficulty level: Beginner
Duration: 18:29
Speaker: : Maryann Martone

This talk discusses the BRAIN Initiative Cell Atlas Network (BICAN), taking a look specifically at how this network approaches the design, development, and maintenance of specimen and sequencing library portals. 

Difficulty level: Beginner
Duration: 15:08
Speaker: : GQ Zhang

In this talk, you will hear about the challenges and costs of being FAIR in the many scientific fields, as well as opportunities to transform the ecology of the academic crediting system. 

Difficulty level: Beginner
Duration: 14:56
Speaker: : Zefan Zheng

This brief talk describes the challenge of global data sharing and governance, as well as efforts of the the Brain Research International Data Governance & Exchange (BRIDGE) to develop ready-made workflows to share data globally. 

Difficulty level: Beginner
Duration: 6:47
Speaker: : Kimberly Ray

This talk describes how to use DataLad for your data management and curation techniques  when dealing with animal datasets, which often contain several disparate types of data, including MRI, microscopy, histology, electrocorticography, and behavioral measurements. 

Difficulty level: Beginner
Duration: 3:35

This brief talk covers an analysis technique for multi-band, multi-echo fMRI data, applying a denoising framework which can be used in an automated pipeline.  

Difficulty level: Beginner
Duration: 4:45
Speaker: : David Abbott

This lightning talk describes an automated pipline for positron emission tomography (PET) data. 

Difficulty level: Intermediate
Duration: 7:27

This lecture goes into detailed description of how to process workflows in the virtual research environment (VRE), including approaches for standardization, metadata, containerization, and constructing and maintaining scientific pipelines. 

Difficulty level: Intermediate
Duration: 1:03:55
Speaker: : Patrik Bey

This lesson gives a quick introduction to the rest of this course, Research Workflows for Collaborative Neuroscience

Difficulty level: Beginner
Duration: 3:23
Speaker: : Dimitri Yatsenko