Virus Dataset Detail

> Detail information for each sample

Dataset Information
Accession GSE160201
Status 2022/12/22
Title ZIKV prevents host mRNA export from the nucleus by disrupting UPF1 function
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing;Other
Summary Zika virus (ZIKV) is a mosquito-borne virus that can have dramatic neurodevelopmental consequences when infection occurs in utero. Previous studies demonstrated that ZIKV downregulates the master regulator of nonsense mediated decay, UPF1. To examine whether this process contributes to disruption of neural development, we investigated the effect of ZIKV infection on UPF1 interaction with host RNA in neural progenitor cells. Here, we show that ZIKV-mediated disruption of UPF1 function in neural progenitor cells causes retention of mRNA in the nucleus, resulting in decreased protein levels of specific transcripts involved in neural differentiation.
Samples
GSM ID Sample info Characteristics Description
GSM4868060 Mock 1 CLIP cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; clip-antibody:Bethyl laboratories, A300-38A processed data file:;UPF1_CLIP_NPC_MockZikvRead_3UTR_Analysis.xlsx
GSM4868062 Mock 2 CLIP cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; clip-antibody:Bethyl laboratories, A300-38A processed data file:;UPF1_CLIP_NPC_MockZikvRead_3UTR_Analysis.xlsx
GSM4868064 ZIKV1 CLIP cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; clip-antibody:Bethyl laboratories, A300-38A processed data file:;UPF1_CLIP_NPC_MockZikvRead_3UTR_Analysis.xlsx
GSM4868066 ZIKV2 CLIP cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; clip-antibody:Bethyl laboratories, A300-38A processed data file:;UPF1_CLIP_NPC_MockZikvRead_3UTR_Analysis.xlsx
GSM4868067 HS_NPC_RNAseq_Mock_R1 cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:mock-infected processed data file:;ZIKV_Mock_results_bulk_DESeq2.csv
GSM4868070 HS_NPC_RNAseq_Mock_R2 cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:mock-infected processed data file:;ZIKV_Mock_results_bulk_DESeq2.csv
GSM4868071 HS_NPC_RNAseq_ZIKV_R1 cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:ZIKV-infected processed data file:;ZIKV_Mock_results_bulk_DESeq2.csv
GSM4868073 HS_NPC_RNAseq_ZIKV_R2 cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:ZIKV-infected processed data file:;ZIKV_Mock_results_bulk_DESeq2.csv
GSM4868075 Rep1-Mock-Cyto cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:mock-infected; fraction:Cyto processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
GSM4868077 Rep1-Mock-Nuc cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:mock-infected; fraction:Nuc processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
GSM4868079 Rep1-ZIKV-Cyto cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:ZIKV-infected; fraction:Cyto processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
GSM4868081 Rep1-ZIKV-Nuc cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:ZIKV-infected; fraction:Nuc processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
GSM4868083 Rep2-Mock-Cyto cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:mock-infected; fraction:Cyto processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
GSM4868085 Rep2-Mock-Nuc cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:mock-infected; fraction:Nuc processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
GSM4868087 Rep2-ZIKV-Cyto cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:ZIKV-infected; fraction:Cyto processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
GSM4868089 Rep2-ZIKV-Nuc cell line:CTR2493n17; cell type:iPSC-derived neural progenitor cells; treatment:ZIKV-infected; fraction:Nuc processed data file:;HTSeq_Mock_Zikv_Nuc_Cyto_counts.xlsx
Platform GPL18573  : Illumina NextSeq 500 (Homo sapiens)
Literature   
Download Download xCell Data  Download Expression Analysis Data  
xCell Plot
* p<0.05 ** p<0.01