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.GZ
cvpc_atac_counts.txt.gz (33.74 MB)
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cvpc_chip_counts.txt.gz (9.61 MB)
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cvpc_gene_counts.txt.gz (7.39 MB)
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ipsc_atac_counts.txt.gz (25.56 MB)
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ipsc_chip_counts.txt.gz (2.78 MB)
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ipsc_gene_counts.txt.gz (9.23 MB)
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ppc_atac_counts.txt.gz (29.33 MB)
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ppc_gene_counts.txt.gz (5.49 MB)
DATASET
SampleMetadata.xlsx (775.8 kB)
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9 files

iPSCORE Multiomic QTLs: Phenotype Count Matrices

dataset
posted on 2024-11-13, 21:07 authored by Timothy ArthurTimothy Arthur, Jennifer NguyenJennifer Nguyen, Benjamin HensonBenjamin Henson, Kelly Frazer

This directory contains one sample metadata file and eight count files corresponding to the gene, ATAC-seq peak, and H3K27ac ChIP-seq peak counts from three tissues from the iPSCORE Collection; induced pluripotent stem cells (iPSCs), iPSC-derived cardiovascular progenitor cells (CVPCs), and iPSC-derived pancreatic progenitor cells (PPCs).

Each file has the same format. The first column contains the identifier for the molecular element (gene or peak) and the remaining column corresponds to the phenotype (sample) identifier found in the SampleMetadata file. The SampleMetadata is identical to Supplemental Table 2 in the publication. Please see the Table legends in the linked publication for more details.

The labeling convention is [tissue_phenotype_counts.txt].

Funding

San Diego Biomedical Informatics Education & Research (SABER)

United States National Library of Medicine

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Pancreas cell type-specific regulatory variants and T2D disease risk association

National Institute of Diabetes and Digestive and Kidney Diseases

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Functional Analysis of T2D Associated Non-coding SNPs

National Institute of Diabetes and Digestive and Kidney Diseases

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Fine-mapping and functional analysis of T1D-associated variants

National Institute of Diabetes and Digestive and Kidney Diseases

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Diabetes Research Center (DRC)

National Institute of Diabetes and Digestive and Kidney Diseases

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Cardiac stage-specific regulatory variants and their disease risk association

National Heart Lung and Blood Institute

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REGULATORY GENOMIC STUDIES IN A COHORT OF IPS CELL DERIVED CARDIOMYOCYTES

National Heart Lung and Blood Institute

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Genetic & Social Determinants of Health: Center for Admixture Science and Technology

National Human Genome Research Institute

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Optimizing HaploSeq for whole-genome phased haplotypes in biomedical applications

National Human Genome Research Institute

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Center of Excellence for Stem Cell Genomics – Salk

California Institute for Regenerative Medicine

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Illumina NovaSeq 6000 Sequencing System

Office of the Director

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History

Research Institution(s)

University of California, San Diego

I confirm there is no human personally identifiable information in the files or description shared

  • Yes

I confirm the files and description shared may be publicly distributed under the license selected

  • Yes

Competing Interest Statement

Juan Carlos Izpisua Belmonte is the Founding Scientist and Director of the San Diego Institute of Science of Altos Labs. The remaining authors have no competing interests.

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