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| Status |
Public on Jul 21, 2015 |
| Title |
A microfluidic device for epigenomic profiling using 100 cells |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We developed the microfluidic-oscillatory-washing-based ChIP-Seq (MOWChIP-Seq) protocol. We achieved genome-wide mapping of histone modifications (H3K4me3 and H3K27ac) with as few as 100 cells. Moreover, the automated microfluidic platform dramatically reduced assay time and has a potential for future scale-up.
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| Overall design |
Examination of 2 different histone modifications (H3K4me3 and H3K27ac) in 2 cell types (GM12878 and mouse Embryonic day 14.5 Fetal Liver Lineage-Sca1+c-Kit+ cells) with chromatin samples of various sizes (10K, 1K, 600, and 100 cells). These samples were aliquoted from a stock generated by sonicating 10K cells. Examination of 2 different histone modifications (H3K4me3 and H3K27ac) in GM12878 cells by directly starting with 100 and 600 sonicated cells (labeled as "direct").
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| Contributor(s) |
Cao Z, Chen C, He B, Tan K, Lu C |
| Citation(s) |
26214128 |
| Submission date |
Feb 02, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Kai Tan |
| Organization name |
The University of Iowa
|
| Department |
Internal Medicine
|
| Street address |
3292 CBRB, 285 Newton Road
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| City |
Iowa City |
| State/province |
IA |
| ZIP/Postal code |
52242 |
| Country |
USA |
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| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (42)
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| Relations |
| BioProject |
PRJNA274262 |
| SRA |
SRP053047 |
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