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 |
---|---|---|
MYC | ENSG00000136997 | 0.00556635940996826 |
RFPL4A | ENSG00000223638 | 0.00556635940996826 |
SNHG6 | ENSG00000245910 | 0.00556635940996826 |
TDP1 | ENSG00000042088 | 0.00556635940996826 |
ZNF805 | ENSG00000204524 | 0.00556635940996826 |
ZNF280A | ENSG00000169548 | 0.00571340720847159 |
BFAR | ENSG00000103429 | 0.00575559518828463 |
PRDX1 | ENSG00000117450 | 0.00575559518828463 |
ZNF217 | ENSG00000171940 | 0.00575559518828463 |
LINC01128 | ENSG00000228794 | 0.00578782245361989 |