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Series GSE65516 Query DataSets for GSE65516
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
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.
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").
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
City Iowa City
State/province IA
ZIP/Postal code 52242
Country USA
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (42)
GSM1599147 GM12878_K4me3_10K_Rep1
GSM1599148 GM12878_K4me3_10K_Rep2
GSM1599149 GM12878_K4me3_1K_Rep1
BioProject PRJNA274262
SRA SRP053047

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Supplementary file Size Download File type/resource
GSE65516_RAW.tar 3.1 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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