Series | GSE71318 |
Title | Tracing the expression of circular RNAs in human preimplantation embryos |
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Year | 2016 |
Country | China |
Article | Not set |
PMID | NA |
Bio Project | BioProject: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA291062 |
Sra | SRA: http://www.ncbi.nlm.nih.gov/sra?term=SRP061636 |
Overall Desgin | We sequenced individual single cells or embryos at seven consecutive stages (mature oocytes, zygotes, 2-cell, 4-cell, 8-cell embryos, morulae, and blastocysts) and single hESC using single-cell RNA seq. |
Summary | We systematically analyzed transcriptome in individual human oocytes and preimplantation embryos with a new single-cell RNA seq method we recently developed. |
Experimental Protocol | The RNAs in individual oocyte or embryo were reverse transcribed and amplified using the single RNA-seq method we recently developed.; Libraries were constructed with TruSeq DNA library preparation kit (Illumina) The RNAs in individual oocyte or embryo were reverse transcribed and amplified using the single RNA-seq method we recently developed.; Libraries were constructed with TruSeq DNA library preparation kit (Illumina); RNA-seq (single-cell) |
Data processing | Illumina CASAVA version 1.8 were used to the basecalling.; Reads were trimmed to remove the adapter sequences and low quality bases.; RNA-seq reads were aligned to the human refference genome (hg19) using Tophat software; Raw read counts and RPKM calculated by HTSeq; Genome_build: hg19; Supplementary_files_format_and_content: txt files reflect RPKM of each gene with Refseq ID. Illumina CASAVA version 1.8 were used to the basecalling.; Reads were trimmed to remove the adapter sequences and low quality bases.; RNA-seq reads were aligned to the human refference genome (hg19) using Tophat software; Raw read counts and RPKM calculated by HTSeq; Genome_build: hg19; Supplementary_files_format_and_content: txt files reflect RPKM of each gene in Refseq. |
Platform | GPL16791 |
Public On | Public on May 13 2016 |
Gene Symbol | Ensembl ID | FDR |
---|---|---|
MRC1 | ENSG00000260314 | 0.00289324511105124 |
MEX3C | ENSG00000176624 | 0.00313640611262166 |
TUBB8 | ENSG00000261456 | 0.00342584678213229 |
CDK7 | ENSG00000134058 | 0.00348012528246447 |
KPNA7 | ENSG00000185467 | 0.00362732078217104 |
C6orf52 | ENSG00000137434 | 0.00366089763787876 |
ACTL8 | ENSG00000117148 | 0.00390367518665389 |
CCNK | ENSG00000090061 | 0.00390367518665389 |
FAM46C | ENSG00000183508 | 0.00390367518665389 |
GDF9 | ENSG00000164404 | 0.00390367518665389 |