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Influenza A virus (A/Puerto Rico/8/1934(H1N1))

ABSTRACT: DMS-seq and SHAPE-seq of flu virion, vRNP, and vRNA

PROVIDER: PRJDB9218 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR205184.fastq.gz	Fastqsanger.gz
	DRR205185.fastq.gz	Fastqsanger.gz
	DRR205186.fastq.gz	Fastqsanger.gz
	DRR205187.fastq.gz	Fastqsanger.gz
	DRR205188.fastq.gz	Fastqsanger.gz

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Influenza A virus (A/Puerto Rico/8/1934(H1N1))

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Project description:To study expression pattern of small nucleolar RNAs (snoRNAs) during influenza A viral infection, human cells A549 were infected with influenza A/Puerto Rico/8/1934 (H1N1) virus. Small RNA-seq analysis of infected cells after 24 h or 48 h incubation was performed on an Illumina NextSeq 500 platform. The same mock-infected cells were used as control. Small RNA fractions (<200 nucleotide length) was used for constructing of cDNA libraries. Differential expressed non-coding RNAs were identified using R package DESeq2.

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RNA-Seq transcriptome data of human cells infected with influenza A/Puerto Rico/8/1934 (H1N1) virus.

Project description:Human influenza remains a serious public health problem. This data article reports the transcriptome analysis data of human cell lines infected with influenza A/Puerto Rico/8/1934 (H1N1) virus. Mock-infected cells were included as controls. Human embryonic fibroblasts (MRC-5) and immortalized cell lines (A549, HEK293FT, WI-38 VA-13) were selected for RNA sequencing using Illumina NextSeq500 platform. Raw data were applied to the bioinformatic pipeline, which includes quality control with FastQC and MultiQC, adapter and quality trimming with Cutadapt, filtering to the genome of influenza A with STAR, transcript quantification with Salmon tool (GRCh38_RefSeq_Transcripts). Differential expressed genes were identified using R package DESeq2 with FDR-adjusted p-value < 0.001 and absolute value of log2(FC) > 1. Lists of differentially expressed genes is provided. The raw and processed RNA-seq data presented in this article were deposited to the European Nucleotide Archive via the ArrayExpress partner repository with the dataset accession number E-MTAB-9511 .

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RNA-Seq of influenza A/Puerto Rico/8/1934 (H1N1) virus infected monoclonal cell lines with depressed IFITM3 gene activity

Project description:In this study monoclonal cell lines carrying mutations in IFITM3 gene were obtained based on WI-38 VA13 cells. To research the involvement of the IFITM3 gene in cellular response to Influenza A virus infection, original WI-38 VA13 cells and the clones with depressed IFITM3 gene activity (F3, F5, Е12) were infected with influenza A/Puerto Rico/8/1934 (H1N1) virus. RNA-seq analysis of infected cell lines after 24 h was performed on an Illumina NextSeq 500 platform. The same mock-infected cells were used as controls (0 hpi). PolyA RNA-enriched fraction was used for constructing of cDNA libraries. Differential expressed genes were identified using R package DESeq2.

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Influenza A virus (A/Puerto Rico/8/1934(H1N1))

Project description:Influenza A virus (A/Puerto Rico/8/1934(H1N1))

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RNA-Seq of influenza A/Puerto Rico/8/1934 (H1N1) virus infected MRC5, WI-38 VA-13, A549 and HEK293FT human cells

Project description:To study genes involved in cellular response to Influenza A virus infection, human cells MRC5, WI-38 VA-13, A549 and HEK293FT were infected with influenza A/Puerto Rico/8/1934 (H1N1) virus. RNA-seq analysis of infected cell lines after 48 h was performed on an Illumina NextSeq 500 platform. The same mock-infected cells were used as controls. PolyA RNA-enriched fraction was used for constructing of cDNA libraries. Differential expressed genes were identified using R package DESeq2.

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Influenza A virus strain:A/Puerto Rico/08/1934 (H1N1)

Project description:Influenza A virus strain:A/Puerto Rico/08/1934 (H1N1) Raw sequence reads

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Influenza A virus strain:A/Puerto Rico/8/1934(H1N1)

Project description:Influenza A virus strain:A/Puerto Rico/8/1934(H1N1) Genome sequencing

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Generation of a DSF-Guided Refolded Bacterially Expressed Hemagglutinin Ectodomain of Influenza Virus A/Puerto Rico/8/1934 H1N1 as a Model for Influenza Vaccine Antigens.

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