CONP Portal | Dataset
Integrated Biological Markers for the Prediction of Treatment Response in Depression: Data Release from the foundational study of the Canadian Biomarker Integration Network in Depression (CAN-BIND-01)
|Is About:||Homo sapiens|
|Acknowledges:||Ontario Brain Institute, Canadian Institute of Health Research, Government of Ontario|
|Other Dates:||Start Date: 2013-06-03 00:00:00 -- End Date: 2018-12-31 00:00:00|
Dataset README information
Integrated Biological Markers for the Prediction of Treatment Response in Depression
Dr. Sidney Kennedy, Dr. Pierre Blier, Dr. Faranak Farzan, Dr. Benicio Frey, Dr. Jane Foster, Dr. Raymond Lam, Dr. Glenda MacQueen, Dr. Roumen Milev, Dr. Daniel Mueller, Dr. Sagar Parikh, Dr. Susan Rotzinger, Dr. Stephen Strother, Dr. Claudio Soares, Dr. Valerie Taylor, Dr. Gustavo Turecki, Dr. Rudolf Uher, and the CAN-BIND Study Team
The Canadian Biomarker Integration Network in Depression (CAN-BIND) is a national program of research and learning. From 2013 to 2017, data were collected from 211 participants with major depressive disorder and 112 healthy individuals. The objective of this data-set is to integrate detailed clinical, imaging, and molecular data to predict outcome for patients experiencing a Major Depressive Episode (MDE) and receiving pharmacotherapy reflective of standard practice. The clinical characterization consists of symptom assessment, behavioural dimensions, and environmental factors. The neuroimaging data consist of structural, resting and task-based functional, and diffusion-weighted MRI images, as well as scalp-recorded EEG data. The molecular data consist of DNA methylation, inflammatory markers and urine metabolites. Baseline and Phase 1 (Weeks 2-8) data are now available for request.
Data is organized into packages by Treatment Group (Control vs Major Depressive Disorder), Timepoint Imaging Scan Type, Molecular Data Type, and Clinical Data Collection Domain.
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).
Lam, R.W., Milev, R., Rotzinger, S. et al. Discovering biomarkers for antidepressant response: protocol from the Canadian biomarker integration network in depression (CAN-BIND) and clinical characteristics of the first patient cohort. BMC Psychiatry 16, 105 (2016). https://doi.org/10.1186/s12888-016-0785-x
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_CAN-BIND_Biomarkers_for_Depression_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_CAN-BIND_Biomarkers_for_Depression_Baseline_Data_Release
3) Download the braincode_CAN-BIND_Biomarkers_for_Depression_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.