Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A small protein encoded by lncRNA PCBP1-AS1 promotes the replication of influenza virus via regulating the expression of proviral effectors

ABSTRACT: A small protein encoded by lncRNA PCBP1-AS1 promotes the replication of influenza virus via regulating the expression of proviral effectors

PROVIDER: PRJNA1062311 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR27464965_1.fastq.gz	Fastqsanger.gz
	SRR27464965_2.fastq.gz	Fastqsanger.gz
	SRR27464966_1.fastq.gz	Fastqsanger.gz
	SRR27464966_2.fastq.gz	Fastqsanger.gz
	SRR27464967_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

A small protein encoded by lncRNA PCBP1-AS1 promotes the replication of influenza virus via regulating the expression of proviral effectors

Project description:Many annotated long noncoding RNAs (lncRNAs) contain small open reading frames (sORFs), some of which have been demonstrated to encode small proteins or micropeptides with fundamental biological importance. While the small proteins or micropeptides hidden in lncRNA are gradually being revealed, their functions in influenza virus infection remain largely unexplored. Here, we identified and characterized a small 110-amino acid protein named PAESP that is encoded by the putative lncRNA PCBP1-AS1. We found that both PCBP1-AS1 and PAESP were upregulated by influenza virus infection as well as type I interferon treatment. Overexpression of PCBP1-AS1 or PAESP enhanced influenza virus replication. Conversely, knockdown of PCBP1-AS1 or knockout of PAESP inhibited viral production. In addition, loss-of-function experiment demonstrated that PAESP is essential for PCBP1-AS1 to facilitate influenza virus replication. More importantly, the overexpression of PAESP increases the mRNA level of several genes such as IFIT2 and IFIT3, which have been proved to be retasked by influenza virus from canonical antiviral factors into proviral effectors. Interestingly, when IFIT2 or IFIT3 expression was knocked down in PAESP-overexpressed cells, the virus titers significantly decreased compared to control cells. These findings reveal a novel lncRNA-derived small protein that is exploited by influenza virus and provide new insights into the virus-host regulatory network.

2024-08-03 | GSE252713 | GEO

A small protein encoded by lncRNA PCBP1-AS1 promotes the replication of influenza virus via regulating the expression of proviral effectors (Ribo-Seq)

2024-08-03 | GSE252920 | GEO

Identification of a small protein encoded by PCBP1-AS1 that promotes replication of influenza virus via inducing enhancement of autophagy

Project description:Many annotated long noncoding RNAs (lncRNAs) contain small open reading frames (sORFs), some of which have been demonstrated to encode small proteins or micropeptides with fundamental biological importance. However, the small proteins or micropeptides encoded by lncRNAs and their functions in viral infection remain largely unexplored. Here, we identified and characterized a small 110-amino acid protein named ORF6 encoded by the putative lncRNA PCBP1-AS1. Interestingly, both PCBP1-AS1 and ORF6 were significantly upregulated by influenza virus infection. Furthermore, we observed that they were markedly induced by type I interferon treatment. Overexpression of PCBP1-AS1 or ORF6 enhanced influenza virus replication. Conversely, knockdown of PCBP1-AS1 or knockout of ORF6 inhibited the viral production. In addition, loss-of-function experiment demonstrated that ORF6 is essential for PCBP1-AS1 to facilitate influenza virus replication. Importantly, the overexpression of ORF6 induced enhancement of autophagy by increasing the expression of ATG7, a gene encoding an essential effector enzyme for canonical autophagy. These findings reveal a lncRNA-derived small protein that is exploited by influenza virus, and provide new insights into the virus-host regulatory network.

2024-08-03 | GSE253139 | GEO

A small protein encoded by lncRNA PCBP1-AS1 promotes the replication of influenza virus via regulating the expression of proviral effectors (Ribo-Seq)

Project description:A small protein encoded by lncRNA PCBP1-AS1 promotes the replication of influenza virus via regulating the expression of proviral effectors (Ribo-Seq)

| PRJNA1063244 | ENA

Identification of a small protein encoded by PCBP1-AS1 that promotes replication of influenza virus via inducing enhancement of autophagy

Project description:Identification of a small protein encoded by PCBP1-AS1 that promotes replication of influenza virus via inducing enhancement of autophagy

| PRJNA1064099 | ENA

The Poly(C) binding protein Pcbp2, and its retrotransposed derivative Pcbp1, are independently essential to mouse development

Project description:RNA-binding proteins participate in a complex array of post-transcriptional controls essential to cell-type specification and somatic development. Despite their detailed biochemical characterizations, the degree to which each RNA-binding protein impacts on mammalian embryonic development remains incompletely defined and the level of functional redundancy among subsets of these proteins remains open to question. The poly-(C) binding proteins, Pcbp's (aCPs, hnRNPEs), are encoded by a highly conserved and broadly expressed gene family. The two major Pcbp isoforms, Pcbp2 and Pcbp1, are robustly expressed in a wide range of tissues and exert both nuclear and cytoplasmic controls over gene expression. Here we report that Pcbp1-null embryos are rendered nonviable in the peri-implantation stage. In contrast, Pcbp2-null embryos survive until mid-gestation at which time they undergo a loss in viability associated with cardiovascular and hematopoietic abnormalities. Adult mice heterozygous for either Pcbp1 or Pcbp2 null alleles display a mild and non-disruptive growth defect. These data reveal that Pcbp1 and Pcbp2 are individually essential for mouse embryonic development and post-natal growth, reveal a non-redundant in vivo role for Pcpb2 in hematopoiesis, and provide direct evidence that Pcbp1, a retrotransposed derivative of Pcpb2, has evolved essential function(s) in the mammalian genome. mRNA-seq on fetal liver tissue from 12.5 days post coitum. 4 replicates of WT and 3 replicates of PCBP2 Knockout

2015-11-05 | E-GEOD-72491 | biostudies-arrayexpress

PCBP1 regulates transcription by binding ssDNA at promoters

Project description:To investigate the role of PCBP1 in transcription through its ability to bind DNA, we performed a CRISPR knockout of PCBP1 in A549 lung adenocarcinoma cells and generated a genome wide map of PCBP1's DNA binding using CUT&RUN. We used RNA-seq of A549 WT cells and two A549 PCBP1 KO cell lines we generated to quantify gene expression changes. We used PCBP1 CUT&RUN to generate a map of PCBP1's DNA binding sites.

2025-05-01 | GSE225637 | GEO

Using lncRNA sequencing to reveal a putative lncRNA-mRNA correlation network and potential role of PCBP1-AS1 in pathogenesis of cervical cancer

Project description:The aim of this study was to construct a lncRNA-mRNA co-expression function network and analyze lncRNAs that might contribute to the pathogenesis of cervical cancer. Transcriptome analysis of 3 cervical cancer samples and 3 adjacent tissue samples was completed in this project.LncRNA-mRNA correlation analysis, enrichment of functions, qPCR, K-M survival, clinicopathology analysis, GSEA and immune infiltration analysis were implemented. Total of 67.600 GB of Clean Data (sequencing Data after quality control) was obtained. The average amount of Clean Data of each sample was 11.267 GB, the percentage of Q30 base was above 91.18%, and the GC content was between 45.46% and 47.18%.Reference species: human;Reference genomic version: GRCH38;Reference genome source: http://asia.ensembl.org/Homo_sapiens/Info/Index;The sequencing data of each sample after quality control was compared with the specified reference genome, and the matching rates ranged from 95.957% to 97.270%, and the unique matching rates ranged from 91.363% to 94.258%. Transcriptomic and lncRNA-mRNA correlation analysis revealed PCBP1-AS1 plays a key role as an independent prognostic factor in patients with cervical cancer.

2021-02-24 | GSE167362 | GEO

LncRNA ASH1L-AS1 Encodes the Microprotein APPLE to Drive HCC Tumorigenesis

Project description:RNA sequencing of HepG2 was performed to explore the molecular basis of microprotein APPLE encoded by LncRNA ASH1L-AS1 in hepatocellular carcinoma (HCC). In order to overexpress microprotein APPLE in HepG2, we constructed the overexpression plasmid containing open reading frame (ORF) of LncRNA ASH1L-AS1.

2025-07-16 | GSE294409 | GEO

Effects of SOCS2-AS1 inhibition in prostate cancer cells

Project description:Prostate cancer is the most common cancer in men and AR downstream signalings promote prostate cancer cell proliferation. We identified a novel androgen-regulated long non-coding (lnc) RNA, SOCS2-AS1. In order to investigate the SOCS2-AS1 function in prostate cancer cells, we performed gene expression in AR-positive prostate cancer cell lines (LNCaP and LTAD) after siSOCS2-AS1 or siSOCS2 treatment. We also treated cells with vehicle or androgen to analyzed the effects of siSOCS2-AS1 on AR function. Observation of androgen dependent gene expression changes after treatmet with siSOCS2-AS1 with microarray.

2016-08-01 | E-GEOD-82224 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data