TY - JOUR AU - Seo, S. H. AU - Collisson, E. W. PY - 1997 DA - 1997// TI - Specific cytotoxic T lymphocytes are involved in in vivo clearance of infectious bronchitis virus JO - J Virol VL - 71 UR - https://doi.org/10.1128/jvi.71.7.5173-5177.1997 DO - 10.1128/jvi.71.7.5173-5177.1997 ID - Seo1997 ER - TY - JOUR AU - Cavanagh, D. PY - 2007 DA - 2007// TI - Coronavirus avian infectious bronchitis virus JO - Vet Res VL - 38 UR - https://doi.org/10.1051/vetres:2006055 DO - 10.1051/vetres:2006055 ID - Cavanagh2007 ER - TY - JOUR AU - Ignjatovic, J. AU - Sapats, S. PY - 2000 DA - 2000// TI - Avian infectious bronchitis virus JO - Revue Sci Tech Office Int des Epizooties VL - 19 UR - https://doi.org/10.20506/rst.19.2.1228 DO - 10.20506/rst.19.2.1228 ID - Ignjatovic2000 ER - TY - JOUR AU - Raj, G. D. AU - Jones, R. PY - 1997 DA - 1997// TI - Infectious bronchitis virus: immunopathogenesis of infection in the chicken JO - Avian Pathology VL - 26 UR - https://doi.org/10.1080/03079459708419246 DO - 10.1080/03079459708419246 ID - Raj1997 ER - TY - JOUR AU - Yang, T. AU - Wang, H. -. N. AU - Wang, X. AU - Tang, J. -. N. AU - Lu, D. AU - Zhang, Y. -. F. PY - 2009 DA - 2009// TI - The protective immune response against infectious bronchitis virus induced by multi-epitope based peptide vaccines JO - Biosci Biotechnol Biochem VL - 0864 ID - Yang2009 ER - TY - JOUR AU - Abro, S. H. AU - Ullman, K. AU - Belák, S. AU - Baule, C. PY - 2012 DA - 2012// TI - Bioinformatics and evolutionary insight on the spike glycoprotein gene of QX-like and Massachusetts strains of infectious bronchitis virus JO - Virol J VL - 9 UR - https://doi.org/10.1186/1743-422X-9-211 DO - 10.1186/1743-422X-9-211 ID - Abro2012 ER - TY - JOUR AU - Abdel-Moneim, A. AU - Madbouly, H. AU - Gelb, J. AU - Ladman, B. PY - 2002 DA - 2002// TI - Isolation and identification of Egypt/Beni-Seuf/01 a novel genotype of infectious bronchitis virus JO - Vet Med J IZA VL - 50 ID - Abdel-Moneim2002 ER - TY - JOUR AU - Mo, M. -. L. AU - Hong, S. -. M. AU - Kwon, H. -. J. AU - Kim, I. -. H. AU - Song, C. -. S. AU - Kim, J. -. H. PY - 2013 DA - 2013// TI - Genetic diversity of spike, 3a, 3b and e genes of infectious bronchitis viruses and emergence of new recombinants in Korea JO - Viruses. VL - 5 UR - https://doi.org/10.3390/v5020550 DO - 10.3390/v5020550 ID - Mo2013 ER - TY - JOUR AU - Miller, M. M. AU - Taylor, R. L. PY - 2016 DA - 2016// TI - Brief review of the chicken major histocompatibility complex: the genes, their distribution on chromosome 16, and their contributions to disease resistance JO - Poultry Sci VL - 95 UR - https://doi.org/10.3382/ps/pev379 DO - 10.3382/ps/pev379 ID - Miller2016 ER - TY - JOUR AU - Shina, T. AU - Hosomichi, K. AU - Hanzawa, K. PY - 2006 DA - 2006// TI - Comparative genomics of the poultry major histocompatibility complex JO - Anim Sci J VL - 77 UR - https://doi.org/10.1111/j.1740-0929.2006.00333.x DO - 10.1111/j.1740-0929.2006.00333.x ID - Shina2006 ER - TY - JOUR AU - Bande, F. AU - Arshad, S. S. AU - Hair Bejo, M. AU - Kadkhodaei, S. AU - Omar, A. R. PY - 2016 DA - 2016// TI - Prediction and in silico identification of novel B-cells and T-cells epitopes in the S1-spike glycoprotein of M41 and CR88 (793/B) infectious bronchitis virus serotypes for application in peptide vaccines JO - Adv Bioinforma VL - 2016 UR - https://doi.org/10.1155/2016/5484972 DO - 10.1155/2016/5484972 ID - Bande2016 ER - TY - JOUR AU - Dash, R. AU - Das, R. AU - Junaid, M. AU - Akash, M. F. AU - Islam, A. AU - Hosen, S. Z. PY - 2017 DA - 2017// TI - In silico-based vaccine design against Ebola virus glycoprotein JO - Adv Appl Bioinform Chem VL - 10 ID - Dash2017 ER - TY - STD TI - Gaafar B, Ali SA, Abd-elrahman KA, Almofti YA. Immunoinformatics approach for multiepitope vaccine prediction from H, M, F, and N proteins of Peste des Petits ruminants virus. J Immunol Res. 2019;2019:1–18. ID - ref13 ER - TY - JOUR AU - Zheng, J. AU - Lin, X. AU - Wang, X. AU - Zheng, L. AU - Lan, S. AU - Jin, S. AU - Ou, Z. AU - Wu, J. PY - 2017 DA - 2017// TI - In silico analysis of epitope-based vaccine candidates against hepatitis B virus polymerase protein JO - Viruses. VL - 9 UR - https://doi.org/10.3390/v9050112 DO - 10.3390/v9050112 ID - Zheng2017 ER - TY - STD TI - Ali SA, Almofti YA, Abd-elrahman KA. Immunoinformatics approach for multiepitopes vaccine prediction against glycoprotein B of avian infectious laryngotracheitis virus. Adv Bioinforma. 2019;2019:1–23. ID - ref15 ER - TY - JOUR AU - Gasteiger, E. G. A. AU - Hoogland, C. AU - Ivanyi, I. AU - Appel, R. D. AU - Bairoch, A. PY - 2003 DA - 2003// TI - ExPASy: the proteomics server for in-depth protein knowledge and analysis JO - Nucleic Acids Res VL - 31 UR - https://doi.org/10.1093/nar/gkg563 DO - 10.1093/nar/gkg563 ID - Gasteiger2003 ER - TY - JOUR AU - Buchan, D. W. M. F. AU - Nugent, T. C. AU - Bryson, K. AU - Jones, D. T. PY - 2013 DA - 2013// TI - Scalable web services for the PSIPRED protein analysis workbench JO - Nucleic Acids Res VL - 41 UR - https://doi.org/10.1093/nar/gkt381 DO - 10.1093/nar/gkt381 ID - Buchan2013 ER - TY - JOUR AU - Ferre, F. AU - Clote, P. PY - 2005 DA - 2005// TI - Disulfide connectivity prediction using secondary structure information and diresidue frequencies JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti328 DO - 10.1093/bioinformatics/bti328 ID - Ferre2005 ER - TY - JOUR AU - Altschul, S. F. AU - Madden, T. L. AU - Schäffer, A. A. AU - Zhang, J. AU - Zhang, Z. AU - Miller, W. PY - 1997 DA - 1997// TI - Gapped BLAST and PSI-BLAST: a new generation of protein database search programs JO - Nucleic Acids Res VL - 25 UR - https://doi.org/10.1093/nar/25.17.3389 DO - 10.1093/nar/25.17.3389 ID - Altschul1997 ER - TY - JOUR AU - Marchler-Bauer, A. AU - Anderson, J. B. AU - Derbyshire, M. K. AU - DeWeese-Scott, C. AU - Gonzales, N. R. AU - Gwadz, M. AU - Hao, L. AU - He, S. AU - Hurwitz, D. I. AU - Jackson, J. D. AU - Ke, Z. PY - 2007 DA - 2007// TI - CDD: a conserved domain database for interactive domain family analysis JO - Nucleic Acids Res VL - 35 UR - https://doi.org/10.1093/nar/gkl951 DO - 10.1093/nar/gkl951 ID - Marchler-Bauer2007 ER - TY - JOUR AU - Eddy, S. R. PY - 1998 DA - 1998// TI - Profile hidden Markov models JO - Bioinformatics (Oxford, England) VL - 14(9) UR - https://doi.org/10.1093/bioinformatics/14.9.755 DO - 10.1093/bioinformatics/14.9.755 ID - Eddy1998 ER - TY - JOUR AU - El-Gebali, S. PY - 2019 DA - 2019// TI - The Pfam protein families database in 2019 JO - Nucleic Acids Res VL - 47 UR - https://doi.org/10.1093/nar/gky995 DO - 10.1093/nar/gky995 ID - El-Gebali2019 ER - TY - JOUR AU - Waterhouse, A. M. AU - Procter, J. B. AU - Martin, D. M. AU - Clamp, M. AU - Barton, G. J. PY - 2009 DA - 2009// TI - Jalview version 2—a multiple sequence alignment editor and analysis workbench JO - Bioinformatics. VL - 25 UR - https://doi.org/10.1093/bioinformatics/btp033 DO - 10.1093/bioinformatics/btp033 ID - Waterhouse2009 ER - TY - JOUR AU - Bui, H. -. H. AU - Sidney, J. AU - Li, W. AU - Fusseder, N. AU - Sette, A. PY - 2007 DA - 2007// TI - Development of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines JO - BMC Bioinformatics. VL - 8 UR - https://doi.org/10.1186/1471-2105-8-361 DO - 10.1186/1471-2105-8-361 ID - Bui2007 ER - TY - JOUR AU - Kumar, S. AU - Stecher, G. AU - Tamura, K. PY - 2016 DA - 2016// TI - MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets JO - Mol Biol Evol VL - 33 UR - https://doi.org/10.1093/molbev/msw054 DO - 10.1093/molbev/msw054 ID - Kumar2016 ER - TY - JOUR AU - Vita, R. AU - Overton, J. A. AU - Greenbaum, J. A. AU - Ponomarenko, J. AU - Clark, J. D. AU - Cantrell, J. R. PY - 2014 DA - 2014// TI - The immune epitope database (IEDB) 3.0 JO - Nucleic Acids Res VL - 43 UR - https://doi.org/10.1093/nar/gku938 DO - 10.1093/nar/gku938 ID - Vita2014 ER - TY - JOUR AU - Larsen, J. E. AU - Lund, O. AU - Nielsen, M. PY - 2006 DA - 2006// TI - Improved method for predicting linear B-cell epitopes JO - Immunome Res VL - 2 UR - https://doi.org/10.1186/1745-7580-2-2 DO - 10.1186/1745-7580-2-2 ID - Larsen2006 ER - TY - JOUR AU - Emini, E. A. AU - Hughes, J. V. AU - Perlow, D. AU - Boger, J. PY - 1985 DA - 1985// TI - Induction of hepatitis a virus-neutralizing antibody by a virus-specific synthetic peptide JO - J Virol VL - 55 UR - https://doi.org/10.1128/jvi.55.3.836-839.1985 DO - 10.1128/jvi.55.3.836-839.1985 ID - Emini1985 ER - TY - JOUR AU - Kolaskar, A. AU - Tongaonkar, P. C. PY - 1990 DA - 1990// TI - A semi-empirical method for prediction of antigenic determinants on protein antigens JO - FEBS Lett VL - 276 UR - https://doi.org/10.1016/0014-5793(90)80535-Q DO - 10.1016/0014-5793(90)80535-Q ID - Kolaskar1990 ER - TY - JOUR AU - Sun, P. AU - Ju, H. AU - Liu, Z. AU - Ning, Q. AU - Zhang, J. AU - Zhao, X. PY - 2013 DA - 2013// TI - Bioinformatics resources and tools for conformational B-cell epitope prediction JO - Comput Math Methods Med VL - 2013 ID - Sun2013 ER - TY - BOOK AU - Chan, W. M. AU - Rogers, S. E. AU - Nash, S. M. AU - Buning, P. G. AU - Meakin, R. PY - 2003 DA - 2003// TI - User’s manual for Chimera grid tools, version 1.8. NASA Ames Research Center ID - Chan2003 ER - TY - JOUR AU - Patronov, A. AU - Doytchinova, I. PY - 2013 DA - 2013// TI - T-cell epitope vaccine design by immunoinformatics JO - Open Biol VL - 3 UR - https://doi.org/10.1098/rsob.120139 DO - 10.1098/rsob.120139 ID - Patronov2013 ER - TY - JOUR AU - Abdelbagi, M. AU - Hassan, T. AU - Shihabeldin, M. AU - Bashir, S. AU - Ahmed, E. PY - 2017 DA - 2017// TI - Immunoinformatics prediction of peptide-based vaccine against African horse sickness virus JO - Immunome Res VL - 13 ID - Abdelbagi2017 ER - TY - JOUR AU - Nielsen, M. AU - Lund, O. PY - 2009 DA - 2009// JO - BMC Bioinformatics VL - 10 UR - https://doi.org/10.1186/1471-2105-10-296 DO - 10.1186/1471-2105-10-296 ID - Nielsen2009 ER - TY - JOUR AU - Doytchinova, I. A. AU - Flower, D. R. PY - 2007 DA - 2007// TI - VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines JO - BMC Bioinformatics VL - 8 UR - https://doi.org/10.1186/1471-2105-8-4 DO - 10.1186/1471-2105-8-4 ID - Doytchinova2007 ER - TY - JOUR AU - Dimitrov, I. AU - Bangov, I. AU - Flower, D. R. AU - Doytchinova, I. PY - 2014 DA - 2014// TI - AllerTOP v. 2—a server for in silico prediction of allergens JO - J Mol Model VL - 20 UR - https://doi.org/10.1007/s00894-014-2278-5 DO - 10.1007/s00894-014-2278-5 ID - Dimitrov2014 ER - TY - JOUR AU - Gupta, S. AU - Kapoor, P. AU - Chaudhary, K. AU - Gautam, A. AU - Kumar, R. AU - Raghava, G. P. PY - 2013 DA - 2013// TI - In silico approach for predicting toxicity of peptides and proteins JO - PLoS One VL - 8 ID - Gupta2013 ER - TY - JOUR AU - Källberg, M. AU - Wang, H. AU - Wang, S. AU - Peng, J. AU - Wang, Z. AU - Lu, H. PY - 2012 DA - 2012// TI - Template-based protein structure modeling using the RaptorX web server JO - Nat Protoc VL - 7 UR - https://doi.org/10.1038/nprot.2012.085 DO - 10.1038/nprot.2012.085 ID - Källberg2012 ER - TY - JOUR AU - Peng, J. AU - Xu, J. PY - 2011 DA - 2011// TI - RaptorX: exploiting structure information for protein alignment by statistical inference JO - Proteins VL - 79 UR - https://doi.org/10.1002/prot.23175 DO - 10.1002/prot.23175 ID - Peng2011 ER - TY - JOUR AU - Peng, J. AU - Xu, J. PY - 2011 DA - 2011// TI - A multiple-template approach to protein threading JO - Proteins VL - 79 UR - https://doi.org/10.1002/prot.23016 DO - 10.1002/prot.23016 ID - Peng2011 ER - TY - JOUR AU - Maupetit, J. AU - Derreumaux, P. AU - Tufféry, P. PY - 2010 DA - 2010// TI - A fast method for large-scale De novo peptide and miniprotein structure prediction JO - J Comput Chem VL - 31 ID - Maupetit2010 ER - TY - JOUR AU - Beaufays, J. AU - Lins, L. AU - Thomas, A. AU - Brasseur, R. PY - 2012 DA - 2012// TI - In silico predictions of 3D structures of linear and cyclic peptides with natural and non-proteinogenic residues JO - J Pept Sci VL - 18 UR - https://doi.org/10.1002/psc.1410 DO - 10.1002/psc.1410 ID - Beaufays2012 ER - TY - JOUR AU - Shen, Y. AU - Maupetit, J. AU - Derreumaux, P. AU - Tufféry, P. PY - 2014 DA - 2014// TI - Improved PEP-FOLD approach for peptide and miniprotein structure prediction JO - J Chem Theory Comput VL - 10 UR - https://doi.org/10.1021/ct500592m DO - 10.1021/ct500592m ID - Shen2014 ER - TY - JOUR AU - Andrusier, N. AU - Nussinov, R. AU - Wolfson, H. J. PY - 2007 DA - 2007// TI - FireDock: fast interaction refinement in molecular docking JO - Proteins VL - 69 UR - https://doi.org/10.1002/prot.21495 DO - 10.1002/prot.21495 ID - Andrusier2007 ER - TY - JOUR AU - Shang, J. AU - Zheng, Y. AU - Yang, Y. AU - Liu, C. AU - Geng, Q. AU - Luo, C. PY - 2018 DA - 2018// TI - Cryo-EM structure of infectious bronchitis coronavirus spike protein reveals structural and functional evolution of coronavirus spike proteins JO - PLoS Pathog VL - 14 UR - https://doi.org/10.1371/journal.ppat.1007009 DO - 10.1371/journal.ppat.1007009 ID - Shang2018 ER - TY - JOUR AU - Verma, S. K. AU - Yadav, S. AU - Kumar, A. PY - 2015 DA - 2015// TI - In silico prediction of B-and T-cell epitope on Lassa virus proteins for peptide based subunit vaccine design JO - Adv Biomed Res VL - 4 ID - Verma2015 ER - TY - STD TI - Reche PA, Fernandez-Caldas E, Flower DR, Fridkis-Hareli M, Hoshino Y. Peptide-based immunotherapeutics and vaccines. J Immunol Res. 2014;2014:1–2. ID - ref47 ER - TY - JOUR AU - Sylvester, S. A. AU - Dhama, K. AU - Kataria, J. AU - Rahul, S. AU - Mahendran, M. PY - 2005 DA - 2005// TI - Avian infectious bronchitis: a review JO - Indian J Comp Microbiol Immunol Infect Dis VL - 26 ID - Sylvester2005 ER - TY - JOUR AU - Idris, S. AU - Salih, S. AU - Basheir, M. AU - Elhadi, A. AU - Kamel, S. AU - Abd-elrahman, K. PY - 2018 DA - 2018// TI - In silico prediction of peptide based vaccine against Fowlpox virus (FPV) JO - Immunome Res VL - 14 ID - Idris2018 ER - TY - JOUR AU - Badawi, M. M. AU - Fadl Alla, A. AU - Alam, S. S. AU - Mohamed, W. A. AU - Osman, D. AU - Alrazig Ali, S. PY - 2016 DA - 2016// TI - Immunoinformatics predication and in silico modeling of epitope-based peptide vaccine against virulent Newcastle disease viruses JO - Am J Infect Dis Microbiol VL - 4 ID - Badawi2016 ER - TY - JOUR AU - Bashir, S. AU - Abd-elrahman, K. A. AU - Hassan, M. A. AU - Almofti, Y. A. PY - 2018 DA - 2018// TI - Multi epitope based peptide vaccine against Marek’s disease virus serotype 1 glycoprotein H and B JO - Am J Microbiol Res VL - 6 ID - Bashir2018 ER - TY - JOUR AU - Gen, J. PY - 1985 DA - 1985// TI - Cloning and sequencing of the gene encoding the spike protein of the coronavirus IBV JO - J Gen Virol VL - 66 UR - https://doi.org/10.1099/0022-1317-66-4-719 DO - 10.1099/0022-1317-66-4-719 ID - Gen1985 ER - TY - JOUR AU - Yao, B. AU - Zheng, D. AU - Liang, S. AU - Zhang, C. PY - 2013 DA - 2013// TI - Conformational B-cell epitope prediction on antigen protein structures: a review of current algorithms and comparison with common binding site prediction methods JO - PLoS One VL - 8 UR - https://doi.org/10.1371/journal.pone.0062249 DO - 10.1371/journal.pone.0062249 ID - Yao2013 ER - TY - JOUR AU - Sanchez-Trincado, J. L. AU - Gomez-Perosanz, M. AU - Reche, P. A. PY - 2017 DA - 2017// TI - Fundamentals and methods for T-and B-cell epitope prediction JO - J Immunol Res VL - 2017 UR - https://doi.org/10.1155/2017/2680160 DO - 10.1155/2017/2680160 ID - Sanchez-Trincado2017 ER - TY - JOUR AU - Demolombe, V. AU - Brevern, A. G. AU - Felicori, L. AU - NGuyen, C. AU - Avila, R. A. M. PY - 2019 DA - 2019// TI - Valera L, et al. PEPOP 2.0: new approaches to mimic non-continuous epitopes JO - BMC Bioinformatics VL - 387 ID - Demolombe2019 ER - TY - JOUR AU - Pei, J. AU - Briles, W. E. AU - Collisson, E. W. PY - 2003 DA - 2003// TI - Memory T cells protect chicks from acute infectious bronchitis virus infection JO - Virology. VL - 306 UR - https://doi.org/10.1016/S0042-6822(02)00059-4 DO - 10.1016/S0042-6822(02)00059-4 ID - Pei2003 ER -