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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 |
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Submission date |
Feb 02, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Kai Tan |
Organization name |
The University of Iowa
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Department |
Internal Medicine
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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 |