Script repository for:
Anderson KM, Collins MA, Kong R, Fang K, Li J, He T, Chekroud AM, Yeo BTT, Holmes AJ. Convergent molecular, cellular, and cortical neuroimaging signatures of major depressive disorder. Proceedings of the National Academy of Sciences (2020).
Contact:
kevinanderson@fas.harvard.edu.
kmanderson38@gmail.com.
Data Availability All analyses are conducted on open-access data. However some repositories require third party approval for download.
Brain Imaging.
UK Biobank:
-- Third party restricted, apply here: https://www.ukbiobank.ac.uk/register-apply/
Genomics Superstruct Project:
-- Third party restricted, apply here: https://dataverse.harvard.edu/dataverse/GSP
ENIGMA:
-- Available in the Supplementary data from Schmall et al. 2018 (https://pubmed.ncbi.nlm.nih.gov/27137745/). Also can be found in this repo under "reference_files" directory as "ENIGMA_MDD_thickness_desikan_multiple.csv".
Gene Expression.
Allen Human Brain Atlas:.
-- Freely available here: https://portal.brain-map.org/.
PsychENCODE Brainspan:.
-- Freely available here: http://resource.psychencode.org/.
Gandal et al. 2018 patient data:.
-- Freely available here:
Single-cell data.
Lake et al. 2018:.
-- Freely available here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE97942.
AHBA MTG:.
-- Freely available here: https://portal.brain-map.org/atlases-and-data/rnaseq.
GWAS.
-- Freely available here: https://www.med.unc.edu/pgc/download-results/.
Derived data fields
-- Available in the Supplementary Information of the published paper.