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Series GSE197265 Query DataSets for GSE197265
Status Public on Oct 08, 2022
Title Translatome and transcriptome co-profiling reveals a role of TPRXs in human zygotic genome activation
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
Summary Translational regulation plays a critical role during oocyte-to-embryo transition including zygotic genome activation. However, the translatome during OET and molecular mechanisms underlying human ZGA remain largely uncharted. Here, we integrated ultra-low-input Ribo-seq with RNA-seq (R2-lite) to jointly profile the translatome and transcriptome from the same samples across 8 stages in human oocytes and early embryos. These data not only unveil conservation and divergence of the translation landscapes between human and mouse OET, but also identify critical regulators of human ZGA.
 
Overall design Ultra-low-input Ribo-seq(Ribo-lite) with RNA-seq (R2-lite) was performed on human oocytes and early embryos. RNA-seq was performed on human embryos with knockdown of transcription factors or under drug treatment. RNA-seq and Stacc-seq were performed on hESC overexpressing transcription factors.
Web link https://www.science.org/doi/10.1126/science.abo7923
 
Contributor(s) Zou Z, Zhang C, Wang Q, Hou Z, Zhao H, Chen Z, Xie W
Citation(s) 36074823
Submission date Feb 23, 2022
Last update date Oct 10, 2022
Contact name Zhuoning Zou
E-mail(s) zhuoningzou@gmail.com
Phone 18813108036
Organization name Tsinghua University
Department School of Life Sciences
Lab Wei Xie
Street address 30 Shuangqing Rd
City Peking
ZIP/Postal code 100084
Country China
 
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (226)
GSM5911768 h_2cell_2PN_21_RNA_rep1
GSM5911769 h_2cell_3PN_22_RNA_rep2
GSM5911770 h_4cell_2PN_22_RNA_rep1
Relations
BioProject PRJNA809587

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE197265_1C_4C_DMSO_CHX_merge_fpkm.txt.gz 959.6 Kb (ftp)(http) TXT
GSE197265_DEG_Naive_TPRXLOE.txt.gz 330.1 Kb (ftp)(http) TXT
GSE197265_DEG_Prime_TPRX1OE.txt.gz 750.8 Kb (ftp)(http) TXT
GSE197265_DEG_Prime_TPRX2OE.txt.gz 695.6 Kb (ftp)(http) TXT
GSE197265_DEG_Prime_TPRXLOE.txt.gz 875.1 Kb (ftp)(http) TXT
GSE197265_H9_TPRX1_ctrl_vs_OE_rep123_count.txt.gz 223.9 Kb (ftp)(http) TXT
GSE197265_H9_TPRX2_ctrl_vs_OE_rep123_count.txt.gz 221.4 Kb (ftp)(http) TXT
GSE197265_H9_TPRXL_ctrl_vs_OE_rep1234_count.txt.gz 262.6 Kb (ftp)(http) TXT
GSE197265_H9_naive_TPRXL_ctrl_vs_OE_rep123_count.txt.gz 214.7 Kb (ftp)(http) TXT
GSE197265_RAW.tar 464.9 Mb (http)(custom) TAR (of BEDGRAPH, BW)
GSE197265_h_1C_rep12_merge_RNA_10bp_rpkm.bw 22.7 Mb (ftp)(http) BW
GSE197265_h_1C_rep12_merge_Ribo_10bp_rpkm.bw 7.7 Mb (ftp)(http) BW
GSE197265_h_2C_rep12_merge_RNA_10bp_rpkm.bw 23.5 Mb (ftp)(http) BW
GSE197265_h_2C_rep12_merge_Ribo_10bp_rpkm.bw 7.5 Mb (ftp)(http) BW
GSE197265_h_4C_rep12_merge_RNA_10bp_rpkm.bw 24.2 Mb (ftp)(http) BW
GSE197265_h_4C_rep12_merge_Ribo_10bp_rpkm.bw 10.9 Mb (ftp)(http) BW
GSE197265_h_8C_rep12_merge_RNA_10bp_rpkm.bw 25.3 Mb (ftp)(http) BW
GSE197265_h_8C_rep12_merge_Ribo_10bp_rpkm.bw 8.9 Mb (ftp)(http) BW
GSE197265_h_GV_rep12_merge_RNA_10bp_rpkm.bw 26.7 Mb (ftp)(http) BW
GSE197265_h_GV_rep12_merge_Ribo_10bp_rpkm.bw 3.4 Mb (ftp)(http) BW
GSE197265_h_GVtohESC_28500_RNA_merge_average_fpkm.txt.gz 694.9 Kb (ftp)(http) TXT
GSE197265_h_GVtohESC_28500_Ribo_merge_average_fpkm.txt.gz 730.3 Kb (ftp)(http) TXT
GSE197265_h_H1_hESC_rep12_merge_RNA_10bp_rpkm.bw 22.1 Mb (ftp)(http) BW
GSE197265_h_H1_hESC_rep12_merge_Ribo_10bp_rpkm.bw 7.9 Mb (ftp)(http) BW
GSE197265_h_ICM_rep12_merge_RNA_10bp_rpkm.bw 36.5 Mb (ftp)(http) BW
GSE197265_h_ICM_rep12_merge_Ribo_10bp_rpkm.bw 7.6 Mb (ftp)(http) BW
GSE197265_h_MII_rep12_merge_RNA_10bp_rpkm.bw 20.3 Mb (ftp)(http) BW
GSE197265_h_MII_rep12_merge_Ribo_10bp_rpkm.bw 8.3 Mb (ftp)(http) BW
GSE197265_h_MI_rep12_merge_RNA_10bp_rpkm.bw 26.0 Mb (ftp)(http) BW
GSE197265_h_MI_rep12_merge_Ribo_10bp_rpkm.bw 6.2 Mb (ftp)(http) BW
GSE197265_h_siLNC_siLEUTX_merge_fpkm.txt.gz 1.3 Mb (ftp)(http) TXT
GSE197265_h_siTNC_d3_control_fpkm.txt.gz 1.6 Mb (ftp)(http) TXT
GSE197265_h_siTNC_d4_smartseq_fpkm.txt.gz 773.1 Kb (ftp)(http) TXT
GSE197265_h_siTNCfor12_d3_smartseq_fpkm.txt.gz 596.8 Kb (ftp)(http) TXT
GSE197265_h_siTPRX12L_d3_KD_fpkm.txt.gz 1.2 Mb (ftp)(http) TXT
GSE197265_h_siTPRX12L_d4_smartseq_fpkm.txt.gz 639.1 Kb (ftp)(http) TXT
GSE197265_h_siTPRX12_d3_smartseq_fpkm.txt.gz 756.6 Kb (ftp)(http) TXT
GSE197265_h_siTPRX1_d3_smartseq_fpkm.txt.gz 539.0 Kb (ftp)(http) TXT
GSE197265_h_siTPRX2_d3_smartseq_fpkm.txt.gz 583.5 Kb (ftp)(http) TXT
GSE197265_h_siTPRXL_d3_smartseq_fpkm.txt.gz 749.1 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data provided as supplementary file

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