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TranscriptomicsTracing pluripotency of human early embryos and embryonic stem cells by single cell RNA-seq
Find the casual relationship between gene expression network and cellular phenotype at single cell resolution. We collected donated human pre-implatation embryos, and the embryonic stem cells derived from them, isolate individual cells, prepared single cell cDNAs, and sequenced them by HiSeq2000. Th...
ORGANISM(S): Homo sapiens 
2013-08-10 | E-GEOD-36552 | biostudies-arrayexpress
TranscriptomicsTranscription profiling by high throughput sequencing of primordial germ cells from e6.5, e7.5, e8.5 embryos and e7.5 somatic neighbours and Blimp1-KO mice
Primordial germ cell mRNA profiles from cells microdissected from e6.5, e7.5 and e8.5 embryos, e7.5 somatic neighbours and Blimp1-KO mice were generated by single cell library construction and sequencing in duplicate using Applied Biosystems SOLiD sequencer. Single cell library construction is descr...
ORGANISM(S): Mus musculus 
2013-07-01 | E-MTAB-1178 | biostudies-arrayexpress
TranscriptomicsGlobal Deterministic and Stochastic Allelic Specific Gene Expression in Single Blastomeres of Mouse Early Embryos
Here we modified a single cell whole transcriptome amplification method to make it capable of amplifying cDNAs as long as 3kb efficiently and unbiasedly. We combined this modified single cell cDNA amplification method with Applied Biosystems next generation sequencing SOLiD™ System to set up a singl...
ORGANISM(S): Mus musculus 
2010-12-31 | E-GEOD-22182 | biostudies-arrayexpress
TranscriptomicsTracing the derivation of embryonic stem cells from the inner cell mass by single cell RNA-seq analysis
Here we modified a single cell whole transcriptome amplification method to make it capable of amplifying cDNAs as long as 3kb efficiently and unbiasedly. We combined this modified single cell cDNA amplification method with Applied Biosystems next generation sequencing SOLiD™ System to set up a singl...
ORGANISM(S): Mus musculus 
2013-06-11 | E-GEOD-20187 | biostudies-arrayexpress
TranscriptomicsMaternal MicroRNAs are Essential for Mouse Zygotic Development
MicroRNAs (miRNAs) have been shown to have important functions in a variety of cellular processes. Here we report on miRNA expression and their dynamic regulation during mouse oogenesis and early embryos. We show that following specific deletion of Dicer from growing oocytes, the mutant oocytes ceas...
ORGANISM(S): Mus musculus 
2010-06-11 | E-GEOD-6806 | biostudies-arrayexpress
GenomicsEpigenomic landscape during organ formation in human early embryos
Here we present the whole genome ChIP-Seq analyses of a wide variety of histone marks, H3K27ac, H3K4me1, H3K4me3, and H3K27me3 in the brain, heart, and liver, along with the RNA-seq data of these organs of early human embryos 12 weeks after gestation. In total, brain, heart, and liver of early human...
ORGANISM(S): Homo sapiens 
2016-07-05 | E-GEOD-63634 | biostudies-arrayexpress
GenomicsSingle Cell triple omics sequencing reveals genetic and epigenetic heterogeneity in hepatocellular carcinoma
Single cell genome, DNA methylome, and transcriptome sequencing has been achieved separately. However, to analyze the regulation of RNA expression by genetic and epigenetic factors within an individual cell, it is necessary to analyze these omics simultaneously from the same single cell. Here we dev...
ORGANISM(S): Mus musculus 
2016-03-01 | E-GEOD-65364 | biostudies-arrayexpress
TranscriptomicsmRNA-Seq Whole Transcriptome Analysis of a Single Cell
Here we modified a single cell whole transcriptome amplification method to make it capable of amplifying cDNAs as long as 3kb efficiently and unbiasedly. We combined this modified single cell cDNA amplification method with Applied Biosystems next generation sequencing SOLiD™ System to set up a singl...
ORGANISM(S): Mus musculus 
2009-02-23 | E-GEOD-14605 | biostudies-arrayexpress
TranscriptomicsMicrofluidic single-cell whole-transcriptome sequencing
Single-cell whole-transcriptome analysis is a powerful tool for quantifying gene expression heterogeneity in populations of cells. Many techniques have, thus, been recently developed to perform transcriptome sequencing (RNA-Seq) on individual cells. To probe subtle biological variation between sampl...
ORGANISM(S): Mus musculus 
2014-05-01 | E-GEOD-47835 | biostudies-arrayexpress
TranscriptomicsThe DNA methylation landscape of human early embryos
Our data provided a genome-wide DNA methylation landscape of human early development embryos, including human MII oocytes, sperm, zygotes, 2-cell to 8-cell embryos, morula, blastocyst and postimplantation embryos at single base resolution. In total, 44 samples including biological and technical repl...
ORGANISM(S): Homo sapiens 
2014-07-22 | E-GEOD-49828 | biostudies-arrayexpress
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