4651413
doi
10.5281/zenodo.4651413
oai:zenodo.org:4651413
Population-scale single-cell RNA-sequencing of iPS cells differentiating towards dopaminergic neurons
Cuomo Anna SE
EMBL-EBI
info:eu-repo/semantics/openAccess
Creative Commons Attribution 4.0 International
https://creativecommons.org/licenses/by/4.0/legalcode
<p>This upload contains data objects associated with our paper "Population-scale single-cell RNA-seq profiling across dopaminergic neuron differentiation" (https://www.nature.com/articles/s41588-021-00801-6).</p>
<p>In particular, available here are:</p>
<p>1) four objects containing scRNA-seq counts and associated metadata for:</p>
<p>- three compressed files for all cells from each of day 11, day 30 and day 52, respectively (i.e. day.h5, day30.h5 and day52.h5) - these contain both normalised and raw count matrices,</p>
<p>- a subsample of 20% cells across all time points (all_timepoints_subsampled.h5) - normalised counts only;</p>
<p>2) one compressed folder containing eQTL summary statistics for each of the 14 contexts (cell type + condition) analysed in the paper.</p>
<p>3) two compressed files containing summary statistics for colocalisation analyses between 25 neurological traits and our 14 eQTL maps (neuroseq) and 49 eQTL maps from GTEx (gtex), as well as a text file describing the GWAS trait ids used. </p>
<p>The corresponding raw scRNA-seq data are accessible in the EGA for managed access lines (study number: EGAS00001002885, dataset: EGAD00001006157) and ENA for open access ones (ERP121676). The file files_to_samples.txt provides a map between the files on EGA/ENA and the sample IDs in the h5 objects.</p>
Zenodo
2021-04-01
info:eu-repo/semantics/other
4072908
v3
1617323240.785134
4901022272
md5:4695a336a12fcafb7152cd6a2e8a770f
https://zenodo.org/records/4651413/files/all_timepoints_subsampled.h5
7085766523
md5:b90a155be40a0fa561456417b0cb24f2
https://zenodo.org/records/4651413/files/day52.h5.zip
28785
md5:b10289c0076490501ed53251c77c394e
https://zenodo.org/records/4651413/files/files_to_samples.txt
9652182681
md5:5165124ce3b6a3de15295f613b436f66
https://zenodo.org/records/4651413/files/eqtl_summary_stats.tar.gz
62770112
md5:b38e10d699488a5d69c890a32022bb41
https://zenodo.org/records/4651413/files/coloc_gtex_25_traits.tsv.gz
999
md5:95c585834de6653eb17aba223b7e763a
https://zenodo.org/records/4651413/files/gwas_trait25.txt
3052336180
md5:af62e81202dca0384a946d5ac0ef550b
https://zenodo.org/records/4651413/files/day30.h5.zip
3108624917
md5:17ed66493ef5f50be904161949c562c7
https://zenodo.org/records/4651413/files/day11.h5.zip
9875453
md5:dc5afdb84ccb5759f8e40628e97234a8
https://zenodo.org/records/4651413/files/coloc_neuroseq_25_traits.tsv.gz
public
10.5281/zenodo.4072908
isVersionOf
doi