Multimodal Connectomics in Psychiatry: Bridging scales From Micro to Macro. Supplemental Information

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1 Multimodal Connectomics in Psychiatry: Bridging scales From Micro to Macro al Information Table S1. Overview of online resources for possible multiscale connectomics studies. Allen Brain Institute for Brain Science Mouse brain connectivity projection data connectivity.brain-map.org (1) connectivity atlas Mouse brain atlas reference data: histological stainings.brain-map.org (2) reference data: immunohistochemistry gene expression Developing brain reference atlas: 7 time points, with developing.brain-map.org (3) developmental regional taxonomy reference atlas: histological stainings gene expression Brain cell database electrophysiological, celltypes.brain-map.org GLIF models, morphological, transcriptomic, Perisomatic models 1

2 Ageing brain: ageing dementia and traumatic brain injury study Brainspan atlas of the developing brain histology and immunohistochemistry aging.brain-map.org RNA-seq protein quantification (Luminex) isoprostane quantification metadata RNA-seq (4) exon microarray prenatal LMD microarray reference atlas Human brain microarray.brain-map.org (5) structural MRI Developing non- microarray: macrodissection (6) primate brain microarray: microdissection reference atlas: structural MRI reference atlas: histological stainings 2

3 Brain map Database of published functional and structural neuroimaging experiments Human Connectome Project Healthy adult connectomes (HCP young adult) BigBrain LORIS Database brain of 65-year-old male, stained for cell bodies CoCoMac database tract-tracing connectivity data functional neuroimaging (7) voxel based morphology task fmri (8) resting state fmri task MEG resting state MEG DWI structural MRI behavioral data nifti & minc volumes of histological sections bigbrain.loris.ca (9) structural MRI collated data from literature cocomac.g-node.org (10, 11) 3

4 Core-nets BAMS1 Neuromorpho database reference atlas core-nets.org (12) neuroanatomical retrograde connection database (13) reference atlas rat bams1.org (14) collated connections mapped to reference atlas collated cellular data mapped to reference atlas collated molecular data mapped to reference atlas inventory of digital neuron reconstructions rat rat rat baboon, C. elegans, chimpanzee, drosophila, giraffe,, monkey,, rat, zebrafish and others neuromorpho.org (15) 4

5 al References 1. Oh SW, Harris JA, Ng L, Winslow B, Cain N, Mihalas S, et al. (2014): A mesoscale connectome of the brain. Nature. 508: Lein ES, Hawrylycz MJ, Ao N, Ayres M, Bensinger A, Bernard A, et al. (2007): Genome-wide atlas of gene expression in the adult brain. Nature. 445: Thompson Carol L, Ng L, Menon V, Martinez S, Lee C-K, Glattfelder K, et al. (2014): A High-Resolution Spatiotemporal Atlas of Gene Expression of the Developing Mouse Brain. Neuron. 83: Miller JA, Ding S-L, Sunkin SM, Smith KA, Ng L, Szafer A, et al. (2014): Transcriptional landscape of the prenatal brain. Nature. 508: Hawrylycz MJ, Lein ES, Guillozet-Bongaarts AL, Shen EH, Ng L, Miller JA, et al. (2012): An anatomically comprehensive atlas of the adult brain transcriptome. Nature. 489: Bakken TE, Miller JA, Ding SL, Sunkin SM, Smith KA, Ng L, et al. (2016): A comprehensive transcriptional map of primate brain development. Nature. 535: Laird AR, Lancaster JJ, Fox PT (2005): Brainmap. Neuroinformatics. 3: Van Essen DC, Smith SM, Barch DM, Behrens TE, Yacoub E, Ugurbil K (2013): The WU-Minn Human Connectome Project: an overview. Neuroimage. 80: Amunts K, Lepage C, Borgeat L, Mohlberg H, Dickscheid T, Rousseau M-É, et al. (2013): BigBrain: An Ultrahigh-Resolution 3D Human Brain Model. Science (New York, NY). 340: Stephan KE, Kamper L, Bozkurt a, Burns Ga, Young MP, Kötter R (2001): Advanced database methodology for the Collation of Connectivity data on the Macaque brain (CoCoMac). Philosophical transactions of the Royal Society of London Series B, Biological sciences. 356: Bakker R, Wachtler T, Diesmann M (2012): CoCoMac 2.0 and the future of tract-tracing databases. Frontiers in neuroinformatics. 6: Markov NT, Ercsey-Ravasz MM, Ribeiro Gomes ar, Lamy C, Magrou L, Vezoli J, et al. (2012): A Weighted and Directed Interareal Connectivity Matrix for Macaque Cerebral Cortex. Cerebral cortex (New York, NY : 1991) Markov NT, Ercsey-Ravasz M, Lamy C, Gomes ARR, Magrou L, Misery P, et al. (2013): The role of long-range connections on the specificity of the interareal cortical network. Proceedings of the National Academy of Sciences. 110:

6 14. Bota M, Dong H-W, Swanson LW (2012): Combining collation and annotation efforts toward completion of the rat and connectomes in BAMS. Frontiers in neuroinformatics Ascoli GA, Donohue DE, Halavi M (2007): NeuroMorpho. Org: a central resource for neuronal morphologies. Journal of Neuroscience. 27: