An in vivo and in vitro spatiotemporal atlas of human midbrain development (Supplemental Data)

dc.contributor.affiliationUniversity College London - Budinger, Dimitri
dc.contributor.affiliationUniversity of Helsinki - Puigdevall Costa, Pau
dc.contributor.affiliationUniversity College London - Hall, George T.
dc.contributor.affiliationUniversity College London - Charlotte, Roth
dc.contributor.affiliationUniversity College London - Marrosu, Elena
dc.contributor.affiliationWellcome Sanger Institute - jerber, julie
dc.contributor.affiliationUniversity College London - Di Domenico, Alessandro
dc.contributor.affiliationUniversity of Helsinki - Kilpinen, Helena
dc.contributor.affiliationUniversity College London, UCL GOS Institute of Child Health - Castellano, Sergi
dc.contributor.affiliationUniversity College London - barral, serena
dc.contributor.affiliationUniversity College London - Kurian, Manju Ann
dc.contributor.authorBudinger, Dimitri
dc.contributor.authorPuigdevall Costa, Pau
dc.contributor.authorHall, George T.
dc.contributor.authorCharlotte, Roth
dc.contributor.authorXenakis, Theodoros
dc.contributor.authorMarrosu, Elena
dc.contributor.authorjerber, julie
dc.contributor.authorDi Domenico, Alessandro
dc.contributor.authorKilpinen, Helena
dc.contributor.authorCastellano, Sergi
dc.contributor.authorbarral, serena
dc.contributor.authorKurian, Manju Ann
dc.date.accessioned2025-03-24T15:21:28Z
dc.date.issued2024-09-15
dc.date.issued2024-09-15
dc.descriptionSupplemental data for the pre-print "An in vivo and in vitro spatiotemporal atlas of human midbrain development". It includes: Data S1: "inVitroLines_hg38LO.vcf" VCF file with the donor genotypes of five iPSC-derived lines used for the in vitro dopaminergic differentiation and profiled with single-cell transcriptomics. This file is used for donor deconvolution with demuxlet, as the lines were pooled at the time of sequencing.   200999750078_R05C02     ## Control 1201464380013_R01C01     ## Patient 2201464380013_R05C01     ## Crispr 1202418170052_R06C02     ## Control 29934626012_R07C01       ## Patient 1   Data S2: "MLOallgenotypes.vcf.bgz" VCF file with the genotypes of nine donors (5 iPSC-derived lines and 4 foetuses) that were profiled with single-cell transcriptomics.This file is used for deconvoluting the fetal data, as the lines were also pooled at the time of sequencing.   200999750078_R05C02     ## Control 19934626012_R07C01       ## Patient 1201464380013_R01C01     ## Patient 2201464380013_R05C01     ## Crispr 1 (patient-corrected line from Patient 2)202418170052_R06C02     ## Control 2205437750120_R05C02     ## PCW16205437750120_R06C02     ## PCW20205794880025_R05C02     ## PCW12205794880025_R06C02     ## PCW10 * The VCF file "inVitroLines_hg38LO.vcf" is a subset of the file "MLOallgenotypes.vcf.bgz", as it contains 5 out of the 9 donor genotypes. Still, as the initial donor deconvolution for the in vitro 10x libraries was performed with the subset we kept this file for reproducibility.   Data S3: "mlo_resolution075_Annot.RDS" Single-cell data generated in our study (RDS object: Seurat object with counts and metadata).   Data S4: "midBrainIntegration.RDS" Integrated datasets (RDS object: Seurat object with counts and metadata).     
dc.identifierhttps://doi.org/10.5281/zenodo.13765496
dc.identifier.urihttps://hydatakatalogi-test-24.it.helsinki.fi/handle/123456789/10915
dc.rightsOpen
dc.rights.licensecc-by-4.0
dc.titleAn in vivo and in vitro spatiotemporal atlas of human midbrain development (Supplemental Data)
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dc.typedataset
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