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Series GSE197608 Query DataSets for GSE197608
Status Public on Nov 05, 2023
Title Short C-terminal Musashi-1 proteins regulate pluripotency states in embryonic stem cells
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Other
Summary To understand the function of MSI1 in pluripotent stem cells, RNA-seq assays were performed on mouse embryonic stem cells R1, MSI1 knockout cell line R1-C5, human embryonic stem cells H9, RRM knockout cell line H9-C8, MSI1 full-length overexpression cell line H9-MSI1OE, MSI1C variant overexpression cell line H9-MSI1 (138-362) OE , H9-MSI1(272-362)OE. RNA bound by MSI1 in R1 and H9, and MSI1C variants MSI1 (138-362), MSI1(272-362) were detected using RIP-seq.
 
Overall design RNA-seq for mESC cell line R1 (R1-WT and MSI1-KO cell line R1-C5 ), hESC cell line H9 (H9-WT, MSI1 RRM KO cell line H9-C8, MSI1 overexpression cell H9-MSI1FL and MSI1-C variant overexpression cell H9-MSI1V138 and H9-MSI1V272). RIP-seq for MSI1 binding RNA in R1 and H9 by using anti-MSI1 antibody for RIP. RIP-seq for MSI1-C variants binding RNA in H9 by using anti-Flag antibody for RIP.
 
Contributor(s) Lin G, Chen Y
Citation(s) 37858462
BioProject PRJNA808680
Submission date Feb 28, 2022
Last update date Nov 06, 2023
Contact name Gufa Lin
E-mail(s) lingufa@tongji.edu.cn
Organization name Tongji University
Department Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration of Ministry of Education, Orthopaedic Department of Tongji Hospital, School of Life Sciences and Technology, Tongji University
Street address 1239 Siping road Tongji university
City Shanghai
ZIP/Postal code 200092
Country China
 
Platforms (2)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (24)
GSM5923614 RIP_seq-R1_WT_r2
GSM5923615 RIP_seq-R1_WT_r1
GSM5923616 RIP-H9-MSI1V272-Flag

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
GSE197608_MSI1_RNA-seq_and_RIP-seq_data_sequence_data.xlsx 10.0 Mb (ftp)(http) XLSX
GSE197608_RAW.tar 143.5 Mb (http)(custom) TAR (of BEDGRAPH, BW, TXT)
GSE197608_RIP-seq_gene_FPKM_data_and_RNA-seq_DEG_LogFC_data_.xlsx 66.1 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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