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HiSeq analysis of human gene expression profile following infection with highly pathogenic avian influenza A virus (H5N1; A/Chicken/Vietnam/0008/04)

ABSTRACT: HiSeq analysis of human gene expression profile following infection with highly pathogenic avian influenza A virus (H5N1; A/Chicken/Vietnam/0008/04)

PROVIDER: PRJNA490197 | ENA |

REPOSITORIES: ENA

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HiSeq analysis of human gene expression profile following infection with highly pathogenic avian influenza A virus (H5N1; A/Chicken/Vietnam/0008/04)

Project description:Current prophylactic and therapeutic strategies targeting human influenza viruses include vaccines and antivirals. Given variable rates of vaccine efficacy and antiviral resistance, alternative strategies are urgently required to improve disease outcomes. Here we describe the use of HiSeq deep sequencing to analyze host gene expression in primary human alveolar epithelial type II (ATII) cells infected with highly pathogenic avian influenza H5N1 virus. We employed primary human ATII cells isolated from normal human lung tissue donated by patients that underwent lung resection. Human host gene expression following HPAI H5N1 virus (A/Chicken/Vietnam/0008/04) infection of primary ATII cells was analyzed using Illumina HiSeq deep sequencing.

2018-10-09 | GSE119767 | GEO

ICL0012 - Host response in human Calu-3 cells to infection with NS1trunc124: A/Vietnam/1203-CIP048_RG4/2004 (H5N1) or WT: A/Vietnam/1203/2004 (H5N1)

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IM006B - Mouse infection with A/Vietnam/1203-CIP048_RG3/2004 (H5N1)

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IM013 - Mouse infection with A/Vietnam/1203/2004 (H5N1)

Project description:To determine the host response (C57BL/6 mouse model) to A/Vietnam/1203/2004 (H5N1) virus at 10^3 and 10^4PFU.

2014-04-02 | GSE56433 | GEO

IM006B - Mouse infection with A/Vietnam/1203-CIP048_RG3/2004 (H5N1)

Project description:A/Vietnam/1203-CIP048_RG3/2004 (H5N1) is a PB1-F2 deletion in wild type A/Vietnam/1203/2004 (H5N1). The goal of this study was to determine the host response (C57BL/6 mouse model) to the PB1-F2 mutation at a 10^4 PFU dose. Groups of 20-week-old female C57BL/6 mice were infected with A/Vietnam/1203-CIP048_RG3/2004 (H5N1). This is a PB1-F2 deletion in wild type A/Vietnam/1203/2004 (H5N1). Infections were with 10^4 PFU or time-matched mock infections. Time points were 1, 2, 4 and 7 d.p.i. There were 1-5 animals/dose/time point. Lung samples were collected for virus load, transcriptional analysis and proteomic analysis. Weight loss and animal survival were also monitored.

2013-02-21 | E-GEOD-44441 | biostudies-arrayexpress

IM007 - Mouse infection with A/Vietnam/1203-CIP048_RG4/2004 (H5N1)

2013-02-21 | GSE44445 | GEO

IM007 - Mouse infection with A/Vietnam/1203-CIP048_RG4/2004 (H5N1)

Project description:A/Vietnam/1203-CIP048_RG4/2004 (H5N1) is an NS1trunc124 mutation in the wild type A/Vietman/1203/2004 (H5N1). The goal of this study was to determine the host response (C57BL/6 mouse model) to the NS1 truncation at both 10^3 PFU and 10^4 PFU. Groups of 20-week-old C57BL/6 mice were infected with the A/Vietnam/1203-CIP048_RG4/2004 (H5N1). This is an NS1trunc124 mutation in the wild type A/Vietnam/1203/2004 (H5N1) virus. Infections were done at 10^3 PFU or 10^4 PFU or time-matched mock infected. Time points were 1, 2, 4 and 7 d.p.i. There were 3-5 animals/dose/time point. Lung samples were collected for virus load, transcriptional and proteomics analysis. Weight loss and animal survival were also monitored.

2013-02-21 | E-GEOD-44445 | biostudies-arrayexpress

Host Regulatory Network Response to Infection with Highly Pathogenic H5N1 Avian Influenza Virus

Project description:Over the last decade, more than half of humans infected with highly pathogenic avian influenza (HPAI) H5N1 viruses have died, and yet virus-induced host signaling has yet to be clearly elucidated. Airway epithelia are known to produce inflammatory mediators that contribute to HPAI H5N1-mediated pathogenicity, but a comprehensive analysis of the host response in this cell type is lacking. Here, we leveraged a systems biology method called weighted gene correlation network analysis (WGCNA) to identify and statistically validate signaling sub-networks that define the dynamic transcriptional response of human bronchial epithelial cells after infection with influenza A/Vietnam/1203/2004 (H5N1, VN1203). A detailed examination of two sub-networks involved in the immune response and keratin filament formation revealed potential novel mediators of HPAI H5N1 pathogenesis, and additional experiments validated upregulation of these transcripts in response to VN1203 infection in C57BL/6 mice. Using emergent network properties, we provide fresh insight into the host response to HPAI H5N1 virus infection, and identify novel avenues for perturbation studies and potential therapeutic intervention of fatal HPAI H5N1 disease.

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IM005 - Mouse infection with PB2-627E: A/Vietnam/1203-CIP048_RG2/2004 (H5N1)

Project description:To determine the host response (C57BL/6 mouse model) to the PB2-627E: A/Vietnam/1203-CIP048_RG2/2004 (H5N1) virus at 10^4 PFU.

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ICL0012 - Host response in human Calu-3 cells to infection with NS1trunc124: A/Vietnam/1203-CIP048_RG4/2004 (H5N1) or WT: A/Vietnam/1203/2004 (H5N1)

Project description:Differential expression was determined in Calu-3 cells between mock infected and infection with NS1trunc124: A/Vietnam/1203-CIP048_RG4/2004 (H5N1) or WT: A/Vietnam/1203/2004 (H5N1) at different times post infection. Purpose: To obtain samples for transcriptional analysis in triplicate using the VN1203 pathogenicity mutant NS1-trunc124. Overview of Experiment: . Time Points: 0, 3, 7, 12, 18 and 24 hrs post infection. . Done in triplicate. . Triplicates are defined as 3 different wells, plated at the same time using the same cell stock for all replicates. . Time-matched mocks were done in triplicate from the same cell stock as the rest of the samples. . Culture medium (the same as what the virus stock is in) was used for the mock infections. Calu-3 cells were infected with NS1trunc124: A/Vietnam/1203-CIP048_RG4/2004 (H5N1) or mock infected and samples were collected at 0, 3, 7, 12, 18 and 24 hpi. Calu-3 cells were infected with WT: A/Vietnam/1203/2004 (H5N1) and samples were collected at 7 and 24 hpi. There are 3 mock (2 included here) and 3 infected replicates for each time point. Expression profiles were determined.

2013-01-05 | E-GEOD-43204 | biostudies-arrayexpress

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