CTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening

Wang, Mingjun; Lamberth, Kasper; Harndahl, Mikkel; Røder, Gustav; Stryhn, Anette; Larsen, Mette Voldby; Nielsen, Morten; Lundegaard, Claus; Tang, Sheila Tuyet; Dziegiel, Morten Hanefeld; Rosenkvist, J.; Pedersen, Anders Elm; Buus, Søren; Claësson, Mogens H.; Lund, Ole

doi:10.1016/j.vaccine.2006.12.038

Cited by 95 publications

(93 citation statements)

References 26 publications

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“…Given the numerous examples of memory T cells that recognize conserved internal proteins, like NP, PA, M2, and basic polymerase (PB)1 (14,44) and given our data showing that Abs to one or more of these conserved proteins can facilitate T cell recall responses to these proteins, it makes sense to design vaccines that elicit memory T cells and high titers of Abs to these proteins. However, most influenza vaccines are composed of fixed whole virus, split virus, or purified HA and NA subunits (45).…”

Section: Discussionmentioning

confidence: 99%

B Cells Promote Resistance to Heterosubtypic Strains of Influenza via Multiple Mechanisms

Rangel-Moreno

Carragher

Misra

et al. 2008

The Journal of Immunology

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Immunity to heterosubtypic strains of influenza is thought to be mediated primarily by memory T cells, which recognize epitopes in conserved proteins. However, the involvement of B cells in this process is controversial. We show in this study that influenza-specific memory T cells are insufficient to protect mice against a lethal challenge with a virulent strain of influenza in the absence of B cells. B cells contribute to protection in multiple ways. First, although non-neutralizing Abs by themselves do not provide any protection to challenge infection, they do reduce weight loss, lower viral titers, and promote recovery of mice challenged with a virulent heterosubtypic virus in the presence of memory T cells. Non-neutralizing Abs also facilitate the expansion of responding memory CD8 T cells. Furthermore, in cooperation with memory T cells, naive B cells also promote recovery from infection with a virulent heterosubtypic virus by generating new neutralizing Abs. These data demonstrate that B cells use multiple mechanisms to promote resistance to heterosubtypic strains of influenza and suggest that vaccines that elicit both memory T cells and Abs to conserved epitopes of influenza may be an effective defense against a wide range of influenza serotypes.

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Section: Discussionmentioning

confidence: 99%

B Cells Promote Resistance to Heterosubtypic Strains of Influenza via Multiple Mechanisms

Rangel-Moreno

Carragher

Misra

et al. 2008

The Journal of Immunology

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“… CLIP-Seq/HITS-CLIP CLIP-Seq/HITS-CLIP merupakan kombinasi UV crosslinking dan imunopresipitasi dengan highthroughput sequencing untuk mengidentifikasi binding sites dari RNA-binding proteins, seperti: LIN28A, Argonaute (Ago), and Puf5p (Wang et al, 2007;Leung et al, 2011;Cho et al, 2012). Teknik OMICs tersebut umumnya diikuti oleh analisis data proteomik.…”

Section: Aplikasi Omics DI Biologi Sel Puncaunclassified

Pemanfaatan bioinformatika dalam bidang pertanian dan kesehatan (The utilization of bioinformatics in the field of agriculture and health)

Parikesit

Anurogo

Putranto

2017

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“…This method is widely used [9][10][11][12] and has been applied in a number of studies to identify potential vaccine targets [13,14]. The use of theoretical methods to ''pre-screen'' peptides is of particular importance in the case of emerging infections such as avian influenza [15] where rapid vaccine development would be vital. This approach underpins a large biopreparedness initiative coordinated by the Large-Scale Antibody and T Cell Epitope Discovery Program [7], which intends to foster development of immune-based therapeutics for emerging and reemerging pathogens including potential bioterrorism agents.…”

Section: Introductionmentioning

confidence: 99%

T-Cell Epitope Prediction: Rescaling Can Mask Biological Variation between MHC Molecules

MacNamara¹,

Kadolsky²,

Bangham³

et al. 2009

SciVee

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Theoretical methods for predicting CD8+ T-cell epitopes are an important tool in vaccine design and for enhancing our understanding of the cellular immune system. The most popular methods currently available produce binding affinity predictions across a range of MHC molecules. In comparing results between these MHC molecules, it is common practice to apply a normalization procedure known as rescaling, to correct for possible discrepancies between the allelic predictors. Using two of the most popular prediction software packages, NetCTL and NetMHC, we tested the hypothesis that rescaling removes genuine biological variation from the predicted affinities when comparing predictions across a number of MHC molecules. We found that removing the condition of rescaling improved the prediction software's performance both qualitatively, in terms of ranking epitopes, and quantitatively, in the accuracy of their binding affinity predictions. We suggest that there is biologically significant variation among class 1 MHC molecules and find that retention of this variation leads to significantly more accurate epitope prediction.

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CTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening

Cited by 95 publications

References 26 publications

B Cells Promote Resistance to Heterosubtypic Strains of Influenza via Multiple Mechanisms

B Cells Promote Resistance to Heterosubtypic Strains of Influenza via Multiple Mechanisms

Pemanfaatan bioinformatika dalam bidang pertanian dan kesehatan (The utilization of bioinformatics in the field of agriculture and health)

T-Cell Epitope Prediction: Rescaling Can Mask Biological Variation between MHC Molecules

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