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 |
---|---|---|
TNPO3 | ENSG00000064419 | 0.000364382986283643 |
TUBBP5 | ENSG00000159247 | 0.000364382986283643 |
NLRP9 | ENSG00000185792 | 0.000377660072086017 |
SF3B5 | ENSG00000169976 | 0.00042506224079256 |
PPFIA1 | ENSG00000131626 | 0.000457216243885913 |
RBM8A | ENSG00000265241 | 0.000482018055817249 |
LSM2 | ENSG00000172850 | 0.000486924983215658 |
LINC01128 | ENSG00000228794 | 0.000493946826420955 |
NPM3 | ENSG00000107833 | 0.000501350400582747 |
BCL2L10 | ENSG00000137875 | 0.000516543168497786 |