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Transcriptome analysis of Wild Type and RhoP23H/+ mouse retinal explant in presence of a pharmacological chaperone of rhodopsin, YC-001.

ABSTRACT: Transcriptome analysis of Wild Type and RhoP23H/+ mouse retinal explant in presence of a pharmacological chaperone of rhodopsin, YC-001.

PROVIDER: PRJNA744905 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15074135_1.fastq.gz	Fastqsanger.gz
	SRR15074135_2.fastq.gz	Fastqsanger.gz
	SRR15074136_1.fastq.gz	Fastqsanger.gz
	SRR15074136_2.fastq.gz	Fastqsanger.gz
	SRR15074137_1.fastq.gz	Fastqsanger.gz

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Transcriptome analysis of Wild Type and RhoP23H/+ mouse retinal explant in presence of a pharmacological chaperone of rhodopsin, YC-001.

Project description:Purpose: The goals of this study is to analyze the transcriptome change during retinal explant culture treated with pharmacological chaperone of rhodopsin (YC-001). Methods: The WT and RhoP23H/+ mouse eyes were enucleated at post natal day 15 and retinal explant were cultured for 24 hours followed by the 24 hours treatment with pharmacological chaperone of rhodopsin (YC-001) and dmso vehicle control. Another group of P23H/+ retinal explant was treated further till 9 days. We compare the transcript of RhoP23H/+ dmso with WT dmso at 24 hour treatment (1 days in vitro (1DIV)). RhoP23H/+ YC-001 were also compared with RhoP23H/+ dmso treated retinal explant at 1DIV and 9DIV. Results: A total of 338 differentially expressed genes (DEGs) were identified comparing the RhoP23H/+ vs. WT retinal explants with DMSO and 56 DEGs were identified comparing RhoP23H/+ YC-001 treated vs. DMSO treated retinal explant at 1 DIV. Further we observed an increased number of DEGs (8,597) comparing RhoP23H/+ vs dmso vehicle control at 9DIV. DEGs were identified using stringency with >1.5-fold change and P-value<0.05. Interestingly, we found 40 common genes when comparing RhoP23H/+ YC-001 treated vs. DMSO at 1DIV and 9DIV. Conclusions: This study used RNA-seq technology which represents the transcriptome of WT and RhoP23H/+ mouse retinal explant with and without pharmacological chaperone of rhodopsin (YC-001). Our NGS results show that YC-001 affect many biological pathways including visual transduction, protein homeostasis pathways and decreases the expression of immune response activation genes, to rescue the rhodospin homeostasis and retinal morphology in the retinal explant of P23H Rho mouse model of retinitis pigmentosa (RP).

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