Longitudinal Acquisition, Storage and Curation, Interoperability, Reproducibility, Transfer, Anonymization, Security, Privacy, Ethics, APIs, Validation, Quality Control, Protocol Checking, Preprocessing, Analysis, HPC,
Provenance, Ontological Standarization,
Data Harmonization, Upgrades, Maintenance, Bug Fixes, User Interface, Javascript, Bootstrap, Tracking, Extensibility, Data Management, Summary Statistics, Workflows,
Development, Tool Integration, Data Sharing, Download, Multi-Modal Linking, Querying, Image Processing, Visualization, Networking, System Administration, Partnerships, Funding, HR
...No big deal!
Exchange of information
Datasets
Tools
Standarization
Databases
Collaborations
Conferences, hackathons
Facebook, Google, Twitter, etc.
Image source: http://blog.veritythink.com/post/87880448269/creative-data-sharing-and-open-humanitarianism
Benefits | Hurdles |
---|---|
It's the future | Fear |
Reduces waste/duplication | Technical challenges |
Increased exposure | Privacy concerns |
Access to larger datasets | Data Harmonization |
Access to rare data | Interoperability |
Less attrition | Reproducibility |
Increased validation | Obtaining ethics |
Saving Tax $$ | Public dataset not identical |
Adrian Thorogood BIC lecture - March 9, 2016 |
Public Data Repositories
CBRAIN hooks
BIDS
NIDM
Neurovault
Braincode interoperability
Interoperability with other competitors
Best practices
INCF, Open Science Framework, NITRC, Allen Institute, NDAR, Open fMRI, Organization Human Brain Mapping, Human Brain Project, Compute Canada, Maelstrom, UK Biobank, Edinburgh BRAINS ImageBank, BRAIN, ENIGMA, Enhanced Nathan Kline Institute (1000 Functional Connectomes), LONI, GAAIN, COINS, XNAT, BrainSpell, VIP, SPM, BrainCode, FSL, FBIRN, Synapse, CIMA-Q, NeuroDevNet, GUSTO, QPN, The NeuroBureau, ABCD...
So many initiatives!
Common Ontology for Imaging Data |
Format for storing metadata, provenance, processing information
Goal: To create standardized JSON metadata to describe atlases For either volumetric or surface atlases Pipelines (e.g.CIVET) can access more atlases for anatomical standardization |
ADNI, ICBM, NIHPD, Allen Mouse Brain, IBIS, Generation-R, ABIDE, ABIDE Preprocessed, ADHD 200, ADHD Preprocessed, Human Connectome Project, OMEGA, UK Biobank, Edinburgh Biobank, BigBrain, Talairach, 1000 Functional Connectomes, Colin 27, MNI 305, 1000 Brains, AAL, ANIMAL, MAVAN, PreventAD, PING, MNI 152, MNI 305, FSL...
So many datasets!
|
|
Neurovault, NeuroSynth, CIVET, VIP, Boutiques, Git-Annex, SOLID, BIDS, NiDM, DiCAT, DCMTK, NiPype, ITK, Freesurfer, SPM, FSL, Mobile MRI, 1000 Brains, AAL, BrainCode, GitHub, Amazon Cloud, FSL, IDA, BrainVisa, DICOM Confidential, DockerHub, Gate, CMIND...
So many Tools!
Important value of hackathons to data sharing initiatives |
|
|
|
|
Several default tools:
|
More citations (Piwowar & Vision, 2013)
Access to larger datasets
Greater exposure
Validation of your data
More collaborations
Increased funding
Acquisition & Storage | Dissemination & Analysis |
---|---|
Organized/Accessible data | Centralized repository |
Long term storage | Provenance Capture |
Quality Control mechanisms | API for interoperability |
Web visualization | Consent is factored in |
Tablet/Mobile Friendly | User account access control |
Anonymized automatically | Completely de-identified |
Cross-modal linking | Cross-study correlation |
Online Data Querying | Access to high performance computing |
Thank you!Acknowledgements: Alan Evans, Alex Zijdenbos, Dario Vins, Jonathan Harlap, Matt Charlet, Andrew Corderey, Sebastian Muehlboeck, Reza Adalat, Louis Collins, Vladimir Fonov, Marc Rousseau, Mia Petkova, Rathi Gnanasekaran, David Brownlee, Tarek Sherif, Pierre Rioux, Nic Kassis, Leigh MacIntyre, Claude Lepage, Ilana Leppert, Natasha Beck, Tristan Glatard, Bert Vincent, Lindsay Lewis, Najma Mahani, Elodie Portales-Casamar, Alden Woodward, Sylvain Milot, Jean Francois Malouin, Sylvain Baillet, Daniel Kroetz, Martin Weiss, Mathieu Desrosier, Jason Karamchandani, Amit Bar-Or, Ted Fon, John Brietner, Derek Lo, Patrick Bermudez, Chris Steele, Pamela Patterson and one of my favourites: Pierre Bellec! LORIS team on left (special thanks to Christine Rogers for listening to me.) |