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 |
---|---|---|
H2AFZ | ENSG00000164032 | 0.00244283779607251 |
HNRNPCP5 | 0.00244283779607251 | |
SRSF3 | ENSG00000112081 | 0.00244283779607251 |
ZNHIT3 | ENSG00000273611 | 0.00244283779607251 |
RBBP6 | ENSG00000122257 | 0.0025027609197564 |
IMP3 | ENSG00000177971 | 0.00254014369167451 |
HAS3 | ENSG00000103044 | 0.00303057460533428 |
CMTM4 | ENSG00000183723 | 0.00361446431092387 |
CHAMP1 | ENSG00000198824 | 0.00461679539592141 |
EMC4 | ENSG00000128463 | 0.00461679539592141 |