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Series GSE64016 Query DataSets for GSE64016
Status Public on Jun 24, 2015
Title Single cell RNA-seq data of human hESCs to evaluate Oscope - a statistical pipeline for identifying oscillatory genes in unsynchronized single cell RNA-Seq
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Oscillatory gene expression is fundamental to mammalian development, but technologies to monitor expression oscillations are limited. We have developed a statistical approach called Oscope to identify and characterize the transcriptional dynamics of oscillating genes in single-cell RNA-seq data from an unsynchronized cell population. Applications to a number of data sets, include a single-cell RNA-seq data set of human embroyonic stem cells (hESCs), demonstrate advantages of the approach and also identify a potential artifact in the Fluidigm C1 platform.
Overall design Total 213 H1 single cells and 247 H1-Fucci single cells were sequenced. The 213 H1 cells were used to evaluate Oscope in identifying oscillatory genes. The H1-Fucci cells were used to confirm the cell cycle gene cluster identified by Oscope in the H1 hESCs. Normalized expected counts are provided in GSE64016_H1andFUCCI_normalized_EC.csv.gz
Contributor(s) Ning L, Li-Fang C
Citation(s) 26301841
Submission date Dec 09, 2014
Last update date May 15, 2019
Contact name Ning Leng
Organization name Morgridge Institute for Research
Street address 330 N Orchard St
City Madison
State/province WI
ZIP/Postal code 53715
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (460)
GSM1562387 H1_Exp1.001
GSM1562388 H1_Exp1.002
GSM1562389 H1_Exp1.003
BioProject PRJNA269761
SRA SRP050992

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE64016_H1andFUCCI_normalized_EC.csv.gz 37.9 Mb (ftp)(http) CSV
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Raw data are available in SRA
Processed data are available on Series record

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