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| Status |
Public on Jul 10, 2017 |
| Title |
Genome-wide chromatin accessibility profiling of cardiomyocyte differentiation from human embryonic stem cells and iPS cells (ATAC-seq) |
| Organism |
Homo sapiens |
| Experiment type |
Other
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| Summary |
In this study, time-course genome-wide chromatin accessibility of caidiomyocyte differentiation derived from human hESCs and hiPSCs was profiled. Two hiPSC lines (C15 and C20) and two hESC lines (H1 and H9) were differentiated to caidiomyocytes by ATAC-seq. The cells were collected for ATAC-seq at day 0(undifferentiated cells) day 2 (mesoderm), day 4 (cardiac mesoderm) and day 30 (cardiomyocytes).
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| Overall design |
Two hiPSC lines (C15 and C20) and two hESC lines (H1 and H9) were grown in 12-well plates with Essential 8 medium (Thermo Fisher Scientific). The cardiomyocyte differentiation was initiated using a monolayer differentiation method with PSC Cardiomyocyte Differentiation kit (Thermo Fisher Scientific). At day 0, 2, 4 and 30 during the differentiation period (before the medium-change on that day), about 50,000 cells were collected for ATAC-seq. For each cell line and each time-point, cells from two independent differentiation wells were used as two biological replicates.
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| Contributor(s) |
Liu Q, Snyder M |
| Citation(s) |
28663367 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 HL113006 |
Human Induced Pluripotent Stem Cells for Cardiovascular Disease Modeling |
STANFORD UNIVERSITY |
Joseph C. Wu |
| R01 HL128170 |
A Systems Biology Approach to Study Cardiac Arrhythmias: iPS Cells and In Silico Modeling |
STANFORD UNIVERSITY |
Joseph C. Wu |
| R24 HL117756 |
Biorepository of Human iPSCs for Studying Dilated and Hypertrophic Cardiomyopathy |
STANFORD UNIVERSITY |
Joseph C. Wu |
| P50 HG007735 |
Project 3 |
STANFORD UNIVERSITY |
MICHAEL P SNYDER |
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| Submission date |
Aug 08, 2016 |
| Last update date |
Oct 11, 2022 |
| Contact name |
Qing Liu |
| E-mail(s) |
[email protected]
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| Organization name |
Clemson University
|
| Department |
Biological Sciences
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| Lab |
Qing Liu
|
| Street address |
Jordan Hall
|
| City |
Clemson |
| State/province |
SC |
| ZIP/Postal code |
29634 |
| Country |
USA |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (32)
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| This SubSeries is part of SuperSeries: |
| GSE85332 |
Genome-wide transcriptomic analysis and chromatin accessibility profiling of cardiomyocyte differentiation from human embryonic stem cells and iPS cells |
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| Relations |
| BioProject |
PRJNA338180 |
| SRA |
SRP081105 |
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