About: A parallel genome-wide RNAi screening strategy to identify host proteins important for entry of Marburg virus and H5N1 influenza virus

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About: A parallel genome-wide RNAi screening strategy to identify host proteins important for entry of Marburg virus and H5N1 influenza virus Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	A parallel genome-wide RNAi screening strategy to identify host proteins important for entry of Marburg virus and H5N1 influenza virus
Creator	Cheng, Han Rong, Lijun Wang, Minxiu Koning, Katie Rumschlag-Booms, Emily Varhegyi, Elizabeth O'hearn, Aileen
Source	Medline; PMC
abstract	BACKGROUND: Genome-wide RNAi screening has been widely used to identify host proteins involved in replication and infection of different viruses, and numerous host factors are implicated in the replication cycles of these viruses, demonstrating the power of this approach. However, discrepancies on target identification of the same viruses by different groups suggest that high throughput RNAi screening strategies need to be carefully designed, developed and optimized prior to the large scale screening. METHODS: Two genome-wide RNAi screens were performed in parallel against the entry of pseudotyped Marburg viruses and avian influenza virus H5N1 utilizing an HIV-1 based surrogate system, to identify host factors which are important for virus entry. A comparative analysis approach was employed in data analysis, which alleviated systematic positional effects and reduced the false positive number of virus-specific hits. RESULTS: The parallel nature of the strategy allows us to easily identify the host factors for a specific virus with a greatly reduced number of false positives in the initial screen, which is one of the major problems with high throughput screening. The power of this strategy is illustrated by a genome-wide RNAi screen for identifying the host factors important for Marburg virus and/or avian influenza virus H5N1 as described in this study. CONCLUSIONS: This strategy is particularly useful for highly pathogenic viruses since pseudotyping allows us to perform high throughput screens in the biosafety level 2 (BSL-2) containment instead of the BSL-3 or BSL-4 for the infectious viruses, with alleviated safety concerns. The screening strategy together with the unique comparative analysis approach makes the data more suitable for hit selection and enables us to identify virus-specific hits with a much lower false positive rate.
has issue date	2015-11-24(xsd:dateTime)
bibo:doi	10.1186/s12985-015-0420-3
bibo:pmid	26596270
has license	cc-by
sha1sum (hex)	a63d851872c31a91cf814a84fc2af7f4fb15ce3d
schema:url	https://doi.org/10.1186/s12985-015-0420-3
resource representing a document's title	A parallel genome-wide RNAi screening strategy to identify host proteins important for entry of Marburg virus and H5N1 influenza virus
has PubMed Central identifier	PMC4657351
has PubMed identifier	26596270
schema:publication	Virol J
resource representing a document's body	covid:a63d851872c31a91cf814a84fc2af7f4fb15ce3d#body_text
is schema:about of	named entity 'RNAI SCREENING' named entity 'MARBURG VIRUS ' named entity 'screening' named entity 'avian influenza' named entity 'enables' named entity 'virus' named entity 'false positives' named entity 'proteins' named entity 'Two' named entity 'biosafety' named entity 'pathogenic viruses' named entity 'virus' named entity 'strategy' named entity 'identify' named entity 'PROTEINS' named entity 'GENOME' named entity 'POSITIONAL' named entity 'VIRUS' named entity 'REDUCED' named entity 'CONCERNS' named entity 'ALLOWS' named entity 'NEED' named entity 'IDENTIFICATION' named entity 'FALSE POSITIVE' named entity 'STUDY' named entity 'NATURE' named entity 'VIRUS ENTRY' named entity 'PARALLEL' named entity 'INFECTIOUS' named entity 'SAFETY' named entity 'UNIQUE' named entity 'INFECTION' named entity 'SCREENING' named entity 'WIDE' named entity 'USEFUL' named entity 'IDENTIFYING' named entity 'PARALLEL' named entity 'TO IDENTIFY' named entity 'REDUCED NUMBER' named entity 'EFFECTS' named entity 'EMPLOYED' named entity 'ONE OF' named entity 'IDENTIFY' named entity 'AVIAN INFLUENZA VIRUS' named entity 'MAJOR' named entity 'STRATEGY' named entity 'PERFORM' named entity 'APPROACH' named entity 'DATA ANALYSIS' named entity 'FALSE POSITIVE RATE' named entity 'NUMEROUS' named entity 'TARGET' named entity 'HIGHLY' named entity 'SURROGATE' named entity 'METHODS' named entity 'POSITIVE NUMBER' named entity 'RNAI SCREEN' named entity 'BSL' named entity 'SUITABLE' named entity 'THESE' named entity 'RNAI SCREENS' named entity 'INITIAL SCREEN' named entity 'VIRUSES' named entity 'PROTEINS' named entity 'DESCRIBED' named entity 'PERFORMED' named entity 'MUCH' named entity 'HIV-1' named entity 'MARBURG VIRUSES' named entity 'H5N1' named entity 'HIT SELECTION' named entity 'HOST' named entity 'SUGGEST' named entity 'INFLUENZA VIRUS' named entity 'WIDE'

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