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Next Generation Sequencing For Quantitative Analysis Of Hepatic Transcriptomes In Response To Txndc5

ABSTRACT: Purpose: The goal of this study was to determine the hepatic transcriptomic´s difference in mice TXNDC5 KO Method: Hepatic mRNA profile of C57Bl/6J wild-type vs TXNDC5 KO mice fed over 4 weeks with a purified chow diet was analysed by Transcriptome sequencing using BGISEQ-500 platform. Sequence reads that passed quality filters were mapped onto reference genome, followed by novel gene prediction, SNP & INDEL calling and gene-splicing detection. Results: When using optimized Bioinformatics Workflow, mapping ratio for both tested groups was about 84,76%, 16,178 genes were identified in which 16,178 of them are known genes and 764 of them are novel genes. 5,419 novel transcipts were identified in which 4,115 of them are previously unknown splicing event for known genes, 764 of them are novel coding transcripts without any known features, and the remaining 540 are long noncoding RNA. Conclusions: This study represents the first analysis of hepatic transcriptome in respond to TXNDC5 absence. Result data confirm that RNA-Sequencing is a sensitive and accurate tool that provides a framework for comparative investigations of known and novel DEGs.

ORGANISM(S): Mus musculus

PROVIDER: GSE185515 | GEO | 2022/03/30

REPOSITORIES: GEO

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Endoplasmic reticulum protein TXNDC5 interacts with PRDX6 and HSPA9 to regulate glutathione metabolism and lipid peroxidation in hepatic AML12 cell line

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