Detail

Dataset	GSE210125
Status	2023-03-20
Species	Mus musculus
Source	NCBI GEO
Subcellular Localization	cytoplasm\|nucleus
PMID	36892464
Title	Nuclear m6A Reader YTHDC1 Promotes Muscle Stem Cell Activation/Proliferation by Regulating mRNA Splicing and Nuclear Export [RNA-seq]
Citation	Qiao Y, Sun Q, Chen X, He L et al. Nuclear m6A reader YTHDC1 promotes muscle stem cell activation/proliferation by regulating mRNA splicing and nuclear export. Elife 2023 Mar 9;12.
Experimental Design	For total RNA-seq, 1ml Trizol(Invitogen) were added to cells and RNA were extracted according to manufacturer's protocol. For subcelluar RNA-seq, cells were treated with buffer A (HEPES-KOH 50 mM pH 7.5, 10 mM KCl, 350 mM sucrose, 1 mM EDTA, 1 mM DTT, 0.1% Triton X-100) for 5 min on ice and then homogenized with a T 10 basic ULTRA-TURRAX® homogenizer at 4th gear for 1min. The nuclei were harvested by brief centrifugation (2000g, 5 min), while the supernatant was collected as the cytoplasmic fraction. Nuclei pelltet were resuspended with same volume buffer A. Then 1ml Trizol were added to both nuclear and cytoplasmic fraction and subjected for RNA extracion. All RNA were subjected to polyA selection (Ambion, 61006) before library preparation.

BioProject	Sample Name	Localization	Treatment	Source	Label
PRJNA863856	GSM6421779	total	WT	ASC cells	ASC48_WT_total_RNA_rep1
PRJNA863856	GSM6421780	total	WT	ASC cells	ASC48_WT_total_RNA_rep2
PRJNA863856	GSM6421781	total	YTHDC1 iKO	ASC cells	ASC48_iKO_total_RNA_rep1
PRJNA863856	GSM6421782	total	YTHDC1 iKO	ASC cells	ASC48_iKO_total_RNA_rep2
PRJNA863856	GSM6421787	cytoplasm	WT	ASC cells	ASC48_WT_cyto_RNA_rep1
PRJNA863856	GSM6421788	cytoplasm	WT	ASC cells	ASC48_WT_cyto_RNA_rep2
PRJNA863856	GSM6421789	nucleus	WT	ASC cells	ASC48_WT_nuc_RNA_rep1
PRJNA863856	GSM6421790	nucleus	WT	ASC cells	ASC48_WT_nuc_RNA_rep2
PRJNA863856	GSM6421791	cytoplasm	YTHDC1 iKO	ASC cells	ASC48_iKO_cyto_RNA_rep1
PRJNA863856	GSM6421792	cytoplasm	YTHDC1 iKO	ASC cells	ASC48_iKO_cyto_RNA_rep2
PRJNA863856	GSM6421793	nucleus	YTHDC1 iKO	ASC cells	ASC48_iKO_nuc_RNA_rep1
PRJNA863856	GSM6421794	nucleus	YTHDC1 iKO	ASC cells	ASC48_iKO_nuc_RNA_rep2

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