Virus Dataset Detail

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Dataset Information
Accession GSE131257
Status 2020/10/7
Title RNA Helicase DDX5, a Negative Regulator of Wnt Activation and Hepatocyte Reprogramming in Hepatitis B Virus-associated Hepatocellular Carcinoma
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing;Genome binding/occupancy profiling by high throughput sequencing
Summary We demonstrate that HBV infection induces expression of the proto-oncogenic miR17~92 and miR106b~25 clusters which target the downregulation of DDX5. Increased expression of these miRNAs is also detected in HBV-driven HCCs exhibiting reduced DDX5 mRNA. Stable DDX5 knockdown (DDX5KD) in HBV replicating hepatocytes increased viral replication, and resulted in hepatosphere formation, drug resistance, Wnt activation, and pluripotency gene expression. ATAC-seq of DDX5KD compared to DDX5 wild-type (WT) cells identified accessible chromatin regions enriched in regulation of Wnt signaling genes. RNA-seq analysis comparing WT versus DDX5KD cells identified enhanced expression of multiple genes involved in Wnt pathway. Additionally, expression of Disheveled, DVL1, a key regulator of Wnt pathway activation, was significantly higher in liver cancer cells with low DDX5 expression, from two independent cohorts. Importantly, inhibitors (antagomirs) to miR17~92 and miR106b~25 restored DDX5 levels, reduced DVL1 expression, and suppressed both Wnt activation and viral replication.
Samples
GSM ID Sample info Characteristics Description
GSM3768170 RNA-seq WT_HBVneg_rep1 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:WT; induced hbv replication:-HBV HepAD38 -HBV DDX5WT
GSM3768171 RNA-seq WT_HBVpos_rep1 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:WT; induced hbv replication:+HBV HepAD38 +HBV DDX5WT
GSM3768172 RNA-seq KD_HBVneg_rep1 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:-HBV HepAD38 -HBV DDX5KD
GSM3768173 RNA-seq KD_HBVpos_rep1 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:+HBV HepAD38 +HBV DDX5KD
GSM3768174 RNA-seq KD_HBVpos_SOR_rep1 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:+HBV; treatment:Sorafenib HepAD38 +HBV DDX5KD +Sorafenib
GSM3768175 RNA-seq WT_HBVneg_rep2 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:WT; induced hbv replication:-HBV HepAD38 -HBV DDX5WT
GSM3768176 RNA-seq WT_HBVpos_rep2 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:WT; induced hbv replication:+HBV HepAD38 +HBV DDX5WT
GSM3768177 RNA-seq KD_HBVneg_rep2 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:-HBV HepAD38 -HBV DDX5KD
GSM3768178 RNA-seq KD_HBVpos_rep2 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:+HBV HepAD38 +HBV DDX5KD
GSM3768179 RNA-seq KD_HBVpos_SOR_rep2 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:+HBV; treatment:Sorafenib HepAD38 +HBV DDX5KD +Sorafenib
GSM3768180 RNA-seq WT_HBVneg_rep3 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:WT; induced hbv replication:-HBV HepAD38 -HBV DDX5WT
GSM3768181 RNA-seq WT_HBVpos_rep3 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:WT; induced hbv replication:+HBV HepAD38 +HBV DDX5WT
GSM3768182 RNA-seq KD_HBVneg_rep3 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:-HBV HepAD38 -HBV DDX5KD
GSM3768183 RNA-seq KD_HBVpos_rep3 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:+HBV HepAD38 +HBV DDX5KD
GSM3768184 RNA-seq KD_HBVpos_SOR_rep3 tissue:Liver; cell line:HepG2-derived cell line HepAD38; origin:Cancer cell line from 15 yr male; passage:20-23; genotype:KD; induced hbv replication:+HBV; treatment:Sorafenib HepAD38 +HBV DDX5KD +Sorafenib
GSM4818343 ATAC-seq WT_HBVneg_rep1 cell line:HepG2; gender:male; age:15 yr; passage:20-23; tissue:Liver; genotype/variation:WT HepAD38 -HBV DDX5WT
GSM4818344 ATAC-seq WT_HBVneg_rep2 cell line:HepG2; gender:male; age:15 yr; passage:20-23; tissue:Liver; genotype/variation:WT HepAD38 -HBV DDX5WT
GSM4818345 ATAC-seq KD_HBVneg_rep1 cell line:HepG2; gender:male; age:15 yr; passage:20-23; tissue:Liver; genotype/variation:KD HepAD38 -HBV DDX5KD
GSM4818346 ATAC-seq KD_HBVneg_rep2 cell line:HepG2; gender:male; age:15 yr; passage:20-23; tissue:Liver; genotype/variation:KD HepAD38 -HBV DDX5KD
Platform GPL16791  : Illumina HiSeq 2500 (Homo sapiens)
Literature 33042264  
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* p<0.05 ** p<0.01