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Status |
Public on Feb 07, 2023 |
Title |
Whole-genome genotyping of human islets using Illumina infinium chips |
Organism |
Homo sapiens |
Experiment type |
Genome variation profiling by genome tiling array
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Summary |
Genomic DNA was extracted from human islets using Dneasy Blood & Tissue Kit (QIAGEN) with RNase A treatment. 200-500ng DNA was genotyped using InfiniumOmni2-5-8v Genotyping BeadChips (Illumina).DNA was isolated from human islet cells from various donors. DNA was genotyped using Illumina Infinium whole-genome genotyping array. Genotypes were called with GenomeStudio (v.2.0.4) using default settings. Genotypes that passed quality filters (missing<0.05, minor allele frequency (MAF>0.01), non-ambiguous alleles defined by AT/GC variants with MAF>40%) were exported.
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Overall design |
Whole-genome genotyping of human islets from non-diabetic (n=12), pre-diabetic (n=9) and type 2 diabetes (n=15) individuals.
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Contributor(s) |
Sander M |
Citation(s) |
36711922, 37231096 |
Submission date |
Mar 27, 2021 |
Last update date |
Oct 18, 2023 |
Contact name |
Maike Sander |
E-mail(s) |
masander@ucsd.edu
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Organization name |
UC San Diego
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Street address |
2880 Torrey Pines Scenic Dr.
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City |
La Jolla |
State/province |
CA |
ZIP/Postal code |
92037 |
Country |
USA |
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Platforms (1) |
GPL16104 |
Illumina HumanOmni2.5-8 BeadChip |
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Samples (36)
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This SubSeries is part of SuperSeries: |
GSE171153 |
Integration of human genetics with single cell accessible chromatin profiles across phenotypes identifies islet cell type-specific regulatory programs of type 2 diabetes progression |
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Relations |
BioProject |
PRJNA717969 |