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| Status |
Public on May 15, 2019 |
| Title |
Large, Diverse Population Cohorts of hiPSCs and Derived Hepatocyte-like Cells Reveal Functional Genetic Variation at Blood Lipid-Associated Loci |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Musunuru, Brown, Rader, and colleagues of the NHLBI NextGen consortium use multi-ethnic population cohorts of iPSCs and differentiated hepatocyte-like cells, in combination with mouse models, to discover and validate functional DNA variants and genes at blood lipid- associated loci previously identified by genome-wide association studies.
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| Overall design |
Peripheral blood mononuclear cells (PBMCs) isolated 91 individuals (43% African Americans and 55% European Americans; 60% women and 40% men) were used to generate iPSCs. PBMCs were differentiated into HLCs which were morphologically similar to primary hepatocytes. RNA-seq data was generated from iPSCs (n=89), HLCs (n=86), primary hepatocytes (n=4) and whole liver in GTEx cohort (n=96).
The majority of data for this study is deposited in at dbGaP for controlled access:
https://www.ncbi.nlm.nih.gov/gap/?term=phs001341
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| Contributor(s) |
Pashos EE, Park Y, Wang X, Raghavan A, Yang W, Abbey D, Peters DT, Arbelaez J, Hernandez M, Kuperwasser N, Li W, Lian Z, Liu Y, Lv W, Lytle-Gabbin SL, Marchadier DH, Rogov P, Shi J, Slovik KJ, Stylianou IM, Wang L, Yan R, Zhang X, Kathiresan S, Duncan SA, Mikkelsen TS, Morrisey EE, Rader DJ, Brown CD, Musunuru K |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
May 14, 2019 |
| Last update date |
May 15, 2019 |
| Contact name |
Daniel J Rader |
| E-mail(s) |
rader@pennmedicine.upenn.edu
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| Organization name |
University of Pennsylvania
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| Department |
ITMAT
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| Lab |
Rader Lab
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| Street address |
3400 Civic Center Blvd
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| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19103 |
| Country |
USA |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA542792 |
| SRA |
SRP198343 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE131159_processed_pri_heps.txt.gz |
337.7 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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