CONP Portal | Dataset
Ontario Neurodegenerative Disease Research Initiative (ONDRI): Foundational Study Baseline Data - Release 1
|Is About:||Homo sapiens|
|Acknowledges:||Ontario Brain Institute, Ontario Neurodegenerative Disease Research Initiative participants, their study partners, and their families, Government of Ontario, The Temerty Family Foundation, Participating hospital and research institute foundations, including the Baycrest Foundation, Bruyère Research Institute, Centre for Addiction and Mental Health Foundation, London Health Sciences Foundation, McMaster University Faculty of Health Sciences, Ottawa Brain and Mind Research Institute, Queen's University Faculty of Health Sciences, Providence Care (Kingston), Sunnybrook Health Sciences Foundation, St. Michael's Hospital, the Thunder Bay Regional Health Sciences Centre, the University of Ottawa Faculty of Medicine, and the Windsor/Essex County ALS Association.|
|Other Dates:||Start Date: 2014-07-07 00:00:00 -- End Date: 2018-03-31 00:00:00|
Dataset README information
Ontario Neurodegenerative Disease Research Initiative (ONDRI): Foundational Study Tabular Baseline Data - Release 1
Dr. Mario Masellis, Dr. Douglas Munoz, Dr. Michael Strong, Dr. Richard Swartz, ONDRI study team
ONDRI’s Foundational Study includes data from 520 people living with Alzheimer’s disease, mild cognitive impairment, Parkinson’s disease, amyotrophic lateral sclerosis, frontotemporal dementia, or cerebrovascular disease, along with their care partners. Detailed clinical, cognitive, genetic, gait, balance, eye tracking, retinal imaging, and neuroimaging assessments were performed that enable multi-modality within- and cross-disease analyses. Data were collected from 2014-18; then standardized, cleaned, and curated to facilitate open access and sharing.
126 Alzheimer's/mild cognitive impairment participants
53 Frontotemporal lobar degeneration participants
40 Amyotrophic Lateral Sclerosis (ALS) participants
140 Parkinson's disease participants
161 Cerebrovascular disease participants
Data organization and file format
DATA (required): Contains all participant data. All data is in csv for this data release.
DICT (required): Explanation of all the variables and range of values found in the DATA file.
MISSING (required if there are any participants that do not have sufficient data in the DATA file; otherwise, not required): Information about missing participants and general reasons they are not included in the DATA file.
README (required): A summary of what files are present in a data package and a short description of each file.
METHODS (optional): a document detailing methods or techniques used to gather data. These files are in the .pdf format.
SUP (optional): Supplementary document containing any additional information that is not conveyed in other files in a data package. These files can be either in the .csv or .txt format.
To gain access to Brain-CODE Controlled Data Release data, Study Investigators will submit requests via Data Release Portals at www.braincode.ca. These requests will be reviewed by the Brain-CODE Data Access Committee and the Brain-CODE Steering Committee. Learn more about these Committees in the Brain-CODE Governance Policy (https://braininstitute.ca/docs/Brain-CODE-Governance-Policy-version-FINAL.pdf).
Multisite Comparison of MRI Defacing Software Across Multiple Cohorts
Athena E. Theyers et al., February 2021
Improved Segmentation of the Intracranial and Ventricular Volumes in Populations with Cerebrovascular Lesions and Atrophy Using 3D CNNs
Emmanuel E. Ntiri et al., February 2021
Ontario Neurodegenerative Disease Research Initiative (ONDRI): Structural MRI Methods and Outcome Measures
Joel Ramirez et al., August 2020
The Quality Assurance and Quality Control Protocol for Neuropsychological Data Collection and Curation in the Ontario Neurodegenerative Disease Research Initiative (ONDRI) Study
Paula M. McLaughlin et al., May 2020
Comparison of quality control methods for automated diffusion tensor imaging analysis pipelines
Seyyed M. H. Haddad et al., January 2020
The utility of multivariate outlier detection techniques for data quality evaluation in large studies: an application within the ONDRI Project.
Kelly M. Sunderland et al., May 2019
Validation of Optical Coherence Tomography Retinal Segmentation in Neurodegenerative Disease
Bryan M. Wong et al., September 2019
Brain-CODE: A Secure Neuroinformatics Platform for Management, Federation, Sharing and Analysis of Multi-Dimensional Neuroscience Data
Anthony L. Vaccarino et al., May 2018
Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
Allison A. Dilliott et al., April 2018
The Canadian Dementia Imaging Protocol: Harmonizing National Cohorts
Duchesne et al., September 2018
Motor phenotype in neurodegenerative disorders: Gait and balance platform study design protocol for the Ontario Neurodegenerative Research Initiative (ONDRI)
Manuel Montero-Odasso et al., July 2017
The Ontario Neurodegenerative Disease Research Initiative (ONDRI)
Sali M. K. Farhan et al., March 2017
Mechanisms of saccade suppression revealed in the anti-saccade task
Brian C. Coe and Douglas P Munoz, February 2017
The ONDRISeq panel: custom-designed next-generation sequencing of genes related to neurodegeneration
Sali M K Farhan, Allison A Dilliott, et al., September 2016
Mutation analysis of patients with Neurodegenerative disorders using NeuroX array
Mahdi Ghani, Anthony E. Lang, et al., September 2014
Optimizing preprocessing and analysis pipelines for single‐subject fMRI. I. Standard temporal motion and physiological noise correction methods
Nathan Churchill et al., March 2012
Abiramy Uthirakumaran, Agessandro Abrahao, Alanna Black, Alicia Peltsch, Alisia Southwell, Allison Dilliott, Andrew Frank, Angela Roberts, Angela Troyer, Anthony Lang, Anthony Vaccarino, Athena Theyers, Ayman Hassan, Barry Greenberg, Ben Cornish, Bill McIlroy, Brian Coe, Brian Levine, Brian Tan, Bruce Pollock, Carmela Tartaglia, Carmen Balian, Catarina Downey, Chris Hudson, Christen Shoesmith, Christine Sato, Christopher Scott, Connie Marras, Corinne Fischer, Courtney Berezuk, Dale Corbett, Dallas Seitz, Dar Dowlatshahi, David Breen, David Grimes, David Munoz, David Tang-Wai, Demetrios Sahlas, Dennis Bulman, Derek Beaton, Di Yu, Don Brien, Donna Kwan, Douglas Munoz, Ed Margolin, Efrem Mandelcorn, Ekaterina Rogaeva, Elena Leontieva, Elizabeth Finger, Faryan Tayyari, Frederico Pieruccini-Faria, Gustavo Saposnik, Hassan Haddad, Heather Hink, Hibah Naviwala, Jane Dewar Lawrence, J.B. Orange, Jedid Ahn, Jeff Huang, Jennifer Mandzia, Jeremy Tanuan, Joel Ramirez, John Robinson, John Turnbull, John Woulfe, Julia Fraser, Karen Van Ooteghem, Kelly Sunderland, Kit Beyer, Kristen Lutz, Leanne Casaubon, Logan Lim, Lorne Zinman, Mahdi Ghani, Malcolm Binns, Mandar Jog, Manuel Montero Odasso, Mario Masellis, Melissa Holmes, Michael Borrie, Michael Strong, Miracle Ozzoude, Mojdeh Zamyadi, Mojib Javadi, Morris Freedman, Natalie Rashkovan, Nuwan Nanyakkara, Paula McLaughlin, Pirammiya, Shanmugathas, Peter Kleinstiver, Pradeep Raamana, Raadhika Venkatesh, Richard Cheng, Richard Swartz, Robert Bartha, Robert Hegele, Roberto Lentini, Roger Dixon, Sabrina Adamo, Sali Farhan, Sandra Black, Sanjeev Kumar, Sean Symons, Sherif Defrawy, Stephen Arnott, Stephen Pasternak, Stephen Strother, Sujeevini Sujanthan, Susan Bronskill, Tarek Rajji, Thomas Steeves, Vivian Chau, Walter Swardfager, Wendy Hatch, Wendy Lou, Yanina Sarquis Adamson.
*All listed individuals played a role in Conceptualization, Funding Acquisition, Validation, Investigation, Data Curation, or Project Administration (see CRediT - Contributor Roles Taxonomy). Bolded are names of the Primary Investigators.
The following instructions require a basic understanding of UNIX/LINUX command lines. Future portal functionality may include downloads directly from the web browser. Dataset download is currently enabled through DataLad.
conp-dataset requires version >=0.12.5 of DataLad
and version >=8.20200309 of git-annex.
To install DataLad on your system, please refer to the install section of the DataLad Handbook (installation via miniconda is recommended in order to obtain the latest version of DataLad).
1) Initiate the CONP dataset
To initiate the CONP dataset (
conp-dataset), run the following
command in the directory where you want CONP datasets to be installed:
datalad install https://github.com/CONP-PCNO/conp-dataset.git
2) Install the braincode_ONDRI_Foundation_Study_Baseline_Data_Release dataset
To install the dataset, go into the created conp-dataset directory and run
datalad install on the dataset
datalad install projects/braincode_ONDRI_Foundation_Study_Baseline_Data_Release
3) Download the braincode_ONDRI_Foundation_Study_Baseline_Data_Release dataset
Now that the DataLad dataset has been installed, go into the dataset
Note that files visible in the dataset are symlinks and will need to be
downloaded manually using the
command in the dataset directory:
datalad get <filepath>
Note, if you run
datalad get * command, all the files present
in the dataset directory will be downloaded.