Webinar & Training Videos

AMP PD Webinar & Training Videos

Welcome to the AMP PD webinar training page. Users can learn more about AMP PD by watching the videos provided.

Videos will play directly on the page and you can interact with the content using the menu located in the footer of the video file (full screen, volume adjustments, enable captions, etc.).

What's on this page:

Introduction to the AMP PD Platform
AMP PD Data Analysis Overview
AMP PD Introduction
Google Cloud Platform (GCP)
BigQuery: Interacting with AMP PD Datasets
Researcher Workbench (Terra)
Working with Official AMP PD Workspaces
NIH STRIDES Cloud Overview
How to Analyze AMP PD Data
Extracellular RNA expression analysis from CSF and Plasma
Variant Aware Alignment on AMP PD RNASeq data
Predictive Models of PD Risk
Determining Polygenic Risk Score
APOE status across AMP PD subjects and cohorts

AMP PD Data Analysis Overview

 

This video provides an overview of the Accelerating Medicines Partnership in Parkinson’s Disease (AMP-PD) Program, a public-private partnership, and how researchers can access and query the AMP PD Knowledge Portal data including clinical, genomics, and transcriptomics using a cloud computing infrastructure.

AMP PD Introduction

 

AMP PD Introduction - Key Concepts

  • Welcome: Webinar agenda and goals
  • Introduction to AMP PD
    • Knowledge Platform Components
  • AMP PD Portal and Portal Resources
    • Register for Access
  • Q&A

Google Cloud Platform (GCP)

Google Cloud Platform (GCP) - Key Concepts

  • Overview of GCP Components
    • Google Cloud Storage
    • BigQuery
    • Google Compute
  • Billable Activities in GCP
  • Tracking & Managing Costs
  • Q&A

BigQuery: Interacting with AMP PD Datasets

 

BigQuery: Interacting with AMP PD Datasets - Key Concepts

  • Dataset permissions (Tier 1 & Tier 2)
    • Accessing Clinical, WGS, and RNA Data
  • Identifying Subjects of Interest
  • Matching Clinical Assessments with Sample Data
  • Exporting Data
  • Q&A

Researcher Workbench (Terra)

 

Researcher Workbench (Terra) - Key Concepts

  • Introduction to the Terra Platform
    • Accessing Data using the Data Explorer
    • Analyzing Data in an Interactive Notebook
    • Running a Workflow
  • Workspaces: Billing and Cost Management
    • Sign-up for a Terra Billing Account
  • Q&A

Working with official AMP PD Workspaces

Working with official AMP PD Workspaces - Key Concepts

  • Navigating AMP PD Workspaces
    • Curated Workspaces
    • Tier 1 & Tier 2 Access
  • How to Link Terra Billing to Your Google Account
    • Create a Google Project in Terra
    • Cloud Cost Reports, Budgets, Alerts, etc.
  • Q&A

NIH STRIDES Cloud Overview

 

 

NIH STRIDES Cloud overview - Key Concepts

  • Use of Cloud for Research
  • STRIDES Benefits to Research Program
  • Onboarding & Enrollment Options
  • Q&A

Extracellular RNA expression analysis from CSF and Plasma

Extracellular RNA expression analysis from CSF and Plasma

  • Elizabeth Hutchens
  • May 25, 2022

Variant Aware Alignment on AMP PD RNASeq data

Variant Aware Alignment on AMP PD RNASeq data

  • Ramiya Sivakumar
  • April 27, 2022

Predictive Models of PD Risk

Predictive Models of PD Risk

  • Ruifeng Hu
  • Jun 8, 2022

Determining Polygenic Risk Score

 

Determining Polygenic Risk Score

  • Mary Markarious
  • Aug 10, 2022
     

APOE status across AMP PD subjects and cohorts

APOE status across AMP PD subjects and cohorts

  • Victoria Dardov
  • May 11, 2022
     

Questions?

If you have any questions, comments, or concerns about the information shared in the webinar training videos or you are unable to access the videos, please email: admin@amp-pd.org.