The goal of this collaborative, interdisciplinary project is to develop powerful, generalizable approaches for discovering how risk variants for psychiatric disorders shape neurobiological processes at multiple levels of analysis, and to identify the processes whose dysregulation underlies disease.
Induced pluripotent stem cells (iPSCs) were used towards the development of these new experimental and inferential systems bridging gaps between human genetics and experimental biology. The largest publicly available collection of iPSCs (2607 lines) has been generated from 2184 donors by the <a href="http://cirm.ca.gov">California Institute for Regenerative Medicine (CIRM)</a>. To expand our donor collection, an additional 44 iPSC donors from the McLean_Levy cohort were identified. We wish to share the available SNP data for 2167 CIRM lines and whole genome sequence data generated at the Broad Institute for 473 of the CIRM and 44 McLean_Levy iPSC donors. These data can be used to identify (for experiments) lines with specific genotypes of interest and lines from donors with high or low polygenic risk scores for phenotypes of interest. The data can also be used to identify acquired mutations in the iPSC lines. The CIRM iPSC lines are available through Fujifilm Cellular Dynamics iPSC Repository (<a href="https://www.fujifilmcdi.com/cirm-ipsc-products/">https://www.fujifilmcdi.com/cirm-ipsc-products/</a>). The McLean_Levy lines are available through the NIMH Repository &#x26; Genomics Resource (<a href="https://www.nimhgenetics.org/">https://www.nimhgenetics.org/</a>).
Additional project data registered with the study includes data from an iPSC line derived from an SMA patient (n=1), as well as single-cell RNA sequence data and supplemental processed genomic datasets in support of project publications.
Molecular Datasets
<ul>
<li>**Single-cell RNA-seq: **10X Genomics, Illumina NovaSeq- **Supplemental "cell village" pooled genomic sequence data: **Illumina NextSeq- Whole Genome Genotyping: Infinium Global Screening Array-24 Kit, Illumina HumanCore chip- **Whole Genome Sequencing: **Illumina NovaSeq</li>
</ul>

Terra Workspace	Study	Consent Code	Disease (indication)	Data Type	Study Design	Participants
AnVIL_NIMH_CIRM_FCDI_ConvergentNeuro_McCarroll_Eggan_GRU_Arrays	Genetic Neuroscience: How Human Genes and Alleles Shape Neuronal Phenotypes	GRU	CIRM iPSC Repository	2 data types	Case-Control	2,167
AnVIL_NIMH_Broad_ConvergentNeuro_McCarroll_Eggan_CIRM_GRU_WGS	Genetic Neuroscience: How Human Genes and Alleles Shape Neuronal Phenotypes	NA	N/A	Whole Genome	Case-Control	380
AnVIL_NIMH_Broad_ConvergentNeuro_McCarroll_Eggan_Finkel_SMA_DS_WGS	Genetic Neuroscience: How Human Genes and Alleles Shape Neuronal Phenotypes	DS-SMA-MDS	spinal muscular atrophy	Whole Genome	Prospective Longitudinal Cohort	1
AnVIL_NIMH_Broad_ConvergentNeuro_McCarroll_Eggan_CIRM_GRU_VillageData	Genetic Neuroscience: How Human Genes and Alleles Shape Neuronal Phenotypes	GRU	Unspecified	TBD	TBD	2,197

Convergent Neuroscience