Parkinson’s Progression Markers initiative - PowerPoint Presentation

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Parkinson’s Progression Markers initiative

Informatics Core

Arthur Toga

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Informatics CoreSupporting the informatics needs of the study

Data integration

Customized data ingress/egress flows

Investigator ready datasetsBiostats datasetsBiologics datasetsSecure data repositoryBroad data sharing and dissemination effortComprehensive public-facing website

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PPMI @ LONI

http://www.ppmi-info.org

/

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Study Information

Data Access

Investigator Resources

Data Sharing Tools

Biospecimen

Requests

Cell Line Requests

Publications

Data Acquisition PPMI Repository

ppmi@loni

Imaging Core (IND)

Quality Control

Image Pre-processing

Clinical Core (CTCC)

Quality Control

Study Management

Image

Acquisition

Clinical Data

Acquisition

Biological Acquisition

Biorepository

Core (IUSM)

Sample Storage / Quality Assessment

Inventory

Biological Samples

Biosample

Analysts (Various)

Results

Sample-Subject Relinking

Genetic Samples

Genetics Investigators

File QC & Organization

Results

FOUND

Substudy

Data Collection

FOUND Sub Study (UCSF)

Enrollment status

Self-reported

Dx

Survey data

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Downloadable Datasets

*Internal datasets support the data quality/management needs of core project managers and team leads.

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Available Images

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Recent AdditionsIntegration of data from FOUND

Enrollment status

Self-reported health status (coming soon)

Risk factors questionnaire (coming soon)Gait & arm swing data

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New Biospecimen Analysis Results

Project#

Project Name

123

Blood biomarker for Parkinson's disease

124

Total alpha-

synuclein

measurements in longitudinal CSF samples from de novo PD, Control, SWEDD, Prodromal and Genetic Cohorts

125A-beta, tau, and p-tau measurements in longitudinal CSF samples from de novo PD, Control, SWEDD, Prodromal and Genetic Cohorts 129Miro1, a Biomarker for Parkinson's Disease 130

The role of cell-free mitochondrial DNA in neurodegenerative disease

134Hemoglobin measurements in longitudinal CSF samples from de novo PD, Control, SWEDD, Prodromal and Genetic Cohorts 138

Hemoglobin Biospecimen Analysis

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Biospecimen Results

Results for 1,004 unique participants

Majority of subjects data have been used in 3 different analyses

12 subjects’ data have been used in 17 different analyses

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Data Use Applications

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11

Over 1.9 million data downloads

download activity

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New Genetic DataNeuroX

SNP Data for Prodromal and Genetic Cohorts

WGS hg38 aligned data

24 Cohort Variants PLINK files74 sets of final report TXT filesDNA Methylation ProfilingRaw idat filesCell Normalization dataCell Composition data

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Whole Genome/Exome

Data Sharing

“

Exome on a Disk” loaner drivesTotal requests: 17BAM file requests: 10FASTQ file requests: 14Whole Genome dataRequests for hs37d5

aligned

FASTQ file requests: 3

New: hg38 aligned data

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PPMI-Info Website UpdatesCell Line Inventory & Requests

Updated CRFs & Documents

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The Global

Alzheimer’s Association

Interactive Network

A Portal to Alzheimer’s Disease Research Data

Connecting Scientists Worldwide

Powered by the

Laboratory of

Neuro

Imaging

www.gaain.org

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Federated database system funded by the Alzheimer’s Association

Global participation of Data Partners who host a GAAIN client at their location

GAAIN clients interact with a central hub at LONI which aggregates query results for visualization

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Architecture Addresses Data Partner Concerns

Data Partners have a

variety of study information

and use

different

conventions

for describing their data.

Data can be

cached in computer memory, but are never written to disk

- protecting data ownership and privacy.

Investigators can query and

visualize harmonized Alzheimer’s disease data.

Data are mapped

to the GAAIN common data model.

MAPPED DATA

GAAIN SERVERS

GAAIN PORTAL

PARTNER DATA

(Data Partners can switch

ON/OFF if they wish to suspend communication with the GAAIN servers.)

on

off

DATA

EXPORT

MAPPING

TOOL

DATA PARTNER CLIENT

(A stand-alone client that sits at the Data Partner’s location.)

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Our Data Partners

GAAIN is in various stages of on-boarding over 80 global Data Partners.

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GAAIN Data

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Difficult to combine data across domains

GAAIN Scoreboard

A front-end tool to

showcase the subject counts

in GAAIN

of a unique search

. It is publicly available

without a GAAIN account

.

GAAIN Inte

R

rogator

A

powerful

interface to

study relationships of variables in self-defined study cohorts

across multiple sources. Access to the Interrogator

requires

a GAAIN Investigator Account

.GAAIN Cohort Scout

A user-friendly tool to illustrate the breadth of variables in GAAIN and provides the option to share results. It is publicly available

without a GAAIN account.

Search Data in GAAIN

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Interrogator: Exploration

Each research study has its own data set.

Explore variables shared by a

Data Partner

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Interrogator: Create Cohorts

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Interrogator: Pool Data Across Studies

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Interrogator: Review Results

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Contact GAAIN Data Partners

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Keywords:

Human Fidelity,

HuFi

, Virtual Reality, Mixed Reality

How can we track all the senses including proprioception and transfer that data to third party elements for them to have identical sensibilities?

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Keywords:

Mind upload, Singularity,

Future of death

My research will focus on the upload of mind and how people are wrongly convinced that one day we will live forever inside the computers.