About: Positional Bias of MHC Class I Restricted T-Cell Epitopes in Viral Antigens Is Likely due to a Bias in Conservation

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About: Positional Bias of MHC Class I Restricted T-Cell Epitopes in Viral Antigens Is Likely due to a Bias in Conservation 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	Positional Bias of MHC Class I Restricted T-Cell Epitopes in Viral Antigens Is Likely due to a Bias in Conservation
Creator	Kim, Y Peters, B Sette, A Yewdell, J
Source	PMC
abstract	The immune system rapidly responds to intracellular infections by detecting MHC class I restricted T-cell epitopes presented on infected cells. It was originally thought that viral peptides are liberated during constitutive protein turnover, but this conflicts with the observation that viral epitopes are detected within minutes of their synthesis even when their source proteins exhibit half-lives of days. The DRiPs hypothesis proposes that epitopes derive from Defective Ribosomal Products (DRiPs), rather than degradation of mature protein products. One potential source of DRiPs is premature translation termination. If this is a major source of DRiPs, this should be reflected in positional bias towards the N-terminus. By contrast, if downstream initiation is a major source of DRiPs, there should be positional bias towards the C-terminus. Here, we systematically assessed positional bias of epitopes in viral antigens, exploiting the large set of data available in the Immune Epitope Database and Analysis Resource. We show a statistically significant degree of positional skewing among epitopes; epitopes from both ends of antigens tend to be under-represented. Centric-skewing correlates with a bias towards class I binding peptides being over-represented in the middle, in parallel with a higher degree of evolutionary conservation.
has issue date	2013-01-24(xsd:dateTime)
bibo:doi	10.1371/journal.pcbi.1002884
bibo:pmid	23357871
has license	cc0
sha1sum (hex)	1ca045bd7724943ce8c268353153bd522358625d
schema:url	https://doi.org/10.1371/journal.pcbi.1002884
resource representing a document's title	Positional Bias of MHC Class I Restricted T-Cell Epitopes in Viral Antigens Is Likely due to a Bias in Conservation
has PubMed Central identifier	PMC3554532
has PubMed identifier	23357871
schema:publication	PLoS Comput Biol
resource representing a document's body	covid:1ca045bd7724943ce8c268353153bd522358625d#body_text
is schema:about of	named entity 'T-CELL' named entity 'LIKELY' named entity 'DUE TO' named entity 'epitopes' named entity 'contrast' named entity 'termination' named entity 'Database' named entity 'DAYS' named entity 'MHC CLASS I' named entity 'BUT' named entity 'TRANSLATION TERMINATION' named entity 'SET' named entity 'POTENTIAL' named entity 'RESPONDS' named entity 'PREMATURE' named entity 'INFECTIONS' named entity 'PROTEIN TURNOVER' named entity 'ENDS' named entity 'CENTRIC' named entity 'ANALYSIS' named entity 'ASSESSED' named entity 'IS A' named entity 'LARGE' named entity 'EVOLUTIONARY CONSERVATION' named entity 'DATA' named entity 'PRODUCTS' named entity 'DEFECTIVE' named entity 'EXHIBIT' named entity 'HERE' named entity 'A MAJOR' named entity 'DEGRADATION' named entity 'MATURE PROTEIN' named entity 'DETECTING' named entity 'PRESENTED' named entity 'INTRACELLULAR' named entity 'CONTRAST' named entity 'RAPIDLY' named entity 'ANTIGENS' named entity 'RESTRICTED' named entity 'PROTEIN ' named entity 'BIAS' named entity 'TEND' named entity 'PROTEINS' named entity 'DETECTED' named entity 'DEGREE' named entity 'VIRAL ANTIGENS' named entity 'RESOURCE' named entity 'CONFLICTS' named entity 'PEPTIDES' named entity 'EPITOPE' named entity 'PARALLEL' named entity 'HALF' named entity 'BIAS' named entity 'RESTRICTED' named entity 'INFECTED' named entity 'MIDDLE' named entity 'OBSERVATION' named entity 'POSITIONAL' named entity 'RATHER' named entity 'CONSERVATION' named entity 'VIRAL ANTIGENS' named entity 'REFLECTED' named entity 'MHC CLASS I' named entity 'POSITIONAL' named entity 'HIGHER' named entity 'BEING' named entity 'IMMUNE SYSTEM' named entity 'BINDING' named entity 'CELLS' named entity 'EPITOPES' named entity 'MINUTES' named entity 'HYPOTHESIS' named entity 'THEIR' named entity 'C-TERMINUS' named entity 'SYNTHESIS' named entity 'DOWNSTREAM' named entity 'SOURCE' named entity 'T-CELL'

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