Aloy P, Russell RB. 2002. The third dimension for protein interactions and complexes. Trends Biochem. Sci. 27:633- 638.
Ashburner M, et al. 2000. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 25:25-29.
Atasheva S, Gorchakov R, English R, Frolov I, Frolova E. 2007. Development of Sindbis viruses encoding nsP2/GFP chimeric proteins and their application for studying nsP2 functioning. J. Virol. 81:5046 -5057.
Bindea G, et al. 2009. ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks. Bioinformatics 25:1091-1093.
Biswas N, et al. 2011. The ubiquitin-like protein PLIC-1 or ubiquilin 1 inhibits TLR3-Trif signaling. PLoS One 6:e21153.
Breakwell L, et al. 2007. Semliki Forest virus nonstructural protein 2 is involved in suppression of the type I interferon response. J. Virol. 81: 8677-8684.
Burnham AJ, Gong L, Hardy RW. 2007. Heterogeneous nuclear ribonuclear protein K interacts with Sindbis virus nonstructural proteins and viral subgenomic mRNA. Virology 367:212-221.
Cassonnet P, et al. 2011. Benchmarking a luciferase complementation assay for detecting protein complexes. Nat. Methods 8:990 -992.
Charrel RN, de Lamballerie X, Raoult D. 2007. Chikungunya outbreaks: the globalization of vector-borne diseases. N. Engl. J. Med. 356:769 -771.
Cristea IM, et al. 2006. Tracking and elucidating alphavirus-host protein interactions. J. Biol. Chem. 281:30269 -30278.
Cristea IM, et al. 2010. Host factors associated with the Sindbis virus RNA-dependent RNA polymerase: role for G3BP1 and G3BP2 in virus replication. J. Virol. 84:6720-6732.
Dunker AK, et al. 2008. The unfoldomics decade: an update on intrinsically disordered proteins. BMC Genomics 9(Suppl. 2):S1.
Feng P, et al. 2004. Kaposi's sarcoma-associated herpesvirus K7 protein targets a ubiquitin-like/ubiquitin-associated domain-containing protein to promote protein degradation. Mol. Cell. Biol. 24:3938 -3948.
Frolov I, Garmashova N, Atasheva S, Frolova EI. 2009. Random insertion mutagenesis of Sindbis virus nonstructural protein 2 and selection of variants incapable of downregulating cellular transcription. J. Virol. 83: 9031-9044.
Frolova E, et al. 2006. Formation of nsP3-specific protein complexes during Sindbis virus replication. J. Virol. 80:4122- 4134.
Frolova EI, et al. 2002. Roles of nonstructural protein nsP2 and alpha/ beta interferons in determining the outcome of Sindbis virus infection. J. Virol. 76:11254 -11264.
Fros JJ, et al. 2010. Chikungunya virus nonstructural protein 2 inhibits type I/II interferon-stimulated JAK-STAT signaling. J. Virol. 84:10877- 10887.
Garmashova N, Gorchakov R, Frolova E, Frolov I. 2006. Sindbis virus nonstructural protein nsP2 is cytotoxic and inhibits cellular transcription. J. Virol. 80:5686 -5696.
Garmashova N, et al. 2007. The Old World and New World alphaviruses use different virus-specific proteins for induction of transcriptional shutoff. J. Virol. 81:2472-2484.
Gomez de Cedron M, Ehsani N, Mikkola ML, Garcia JA, Kaariainen L. 1999. RNA helicase activity of Semliki Forest virus replicase protein NSP2. FEBS Lett. 448:19 -22.
Gorchakov R, Frolova E, Frolov I. 2005. Inhibition of transcription and translation in Sindbis virus-infected cells. J. Virol. 79:9397-9409.
Gorchakov R, Garmashova N, Frolova E, Frolov I. 2008. Different types of nsP3-containing protein complexes in Sindbis virus-infected cells. J. Virol. 82:10088 -10101.
Griffin DE. 2007. Alphaviruses, p. 1023-1067. In Howley PM, Knipe DH (ed.), Fields virology, 5th ed., vol. 1. Wolters Kluwer, Lippincott Williams & Wilkins, Philadelphia, PA.
Gui H, Lu CW, Adams S, Stollar V, Li ML. 2010. hnRNP A1 interacts with the genomic and subgenomic RNA promoters of Sindbis virus and is required for the synthesis of G and SG RNA. J. Biomed. Sci. 17:59.
Haapasalo A, et al. 2010. Emerging role of Alzheimer's disease-associated ubiquilin-1 in protein aggregation. Biochem. Soc. Trans. 38:150 -155.
Ito T, et al. 2001. A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc. Natl. Acad. Sci. U. S. A. 98:4569-4574.
Jose J, Snyder JE, Kuhn RJ. 2009. A structural and functional perspective of alphavirus replication and assembly. Future Microbiol. 4:837- 856.
Krejbich-Trotot P, et al. 2011. Chikungunya triggers an autophagic process which promotes viral replication. Virol. J. 8:432.
Kuhn RJ. 2007. Togaviridae: the viruses and their replication, p. 1001- 1022. In Howley PM, Knipe DM (ed.), Fields virology, 5th ed., vol. 1. Wolters Kluwer, Lippincott Williams & Wilkins, Philadelphia, PA.
Lamesch P, et al. 2007. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Genomics 89:307- 315.
Lin LT, Dawson PW, Richardson CD. 2010. Viral interactions with macroautophagy: a double-edged sword. Virology 402:1-10.
Mavalankar D, Shastri P, Raman P. 2007. Chikungunya epidemic in India: a major public-health disaster. Lancet Infect. Dis. 7:306 -307.
Mayuri Geders TW, Smith JL, Kuhn RJ. 2008. Role for conserved residues of Sindbis virus nonstructural protein 2 methyltransferase-like domain in regulation of minus-strand synthesis and development of cytopathic infection. J. Virol. 82:7284 -7297.
Mendez-Rios J, Uetz P. 2010. Global approaches to study protein-protein interactions among viruses and hosts. Future Microbiol. 5:289 -301.
Mendoza JA, Jacob Y, Cassonnet P, Favre M. 2006. Human papillomavirus type 5 E6 oncoprotein represses the transforming growth factor beta signaling pathway by binding to SMAD3. J. Virol. 80:12420 -12424.
Mohan A. 2006. Chikungunya fever: clinical manifestations and management. Indian J. Med. Res. 124:471- 474.
Montgomery SA, Berglund P, Beard CW, Johnston RE. 2006. Ribosomal protein S6 associates with alphavirus nonstructural protein 2 and mediates expression from alphavirus messages. J. Virol. 80:7729 -7739.
Orvedahl A, et al. 2010. Autophagy protects against Sindbis virus infection of the central nervous system. Cell Host Microbe 7:115-127.
Pellet J, et al. 2009. pISTil: a pipeline for yeast two-hybrid Interaction sequence tags identification and analysis. BMC Res. Notes 2:220.
Pellet J, et al. 2010. ViralORFeome: an integrated database to generate a versatile collection of viral ORFs. Nucleic Acids Res. 38:D371-D378.
Pialoux G, Gauzere BA, Jaureguiberry S, Strobel M. 2007. Chikungunya, an epidemic arbovirosis. Lancet Infect. Dis. 7:319 -327.
Remy I, Michnick SW. 2006. A highly sensitive protein-protein interaction assay based on Gaussia luciferase. Nat. Methods 3:977-979.
Rezza G, et al. 2007. Infection with Chikungunya virus in Italy: an outbreak in a temperate region. Lancet 370:1840 -1846.
Rothenberg C, et al. 2010. Ubiquilin functions in autophagy and is degraded by chaperone-mediated autophagy. Hum. Mol. Genet. 19:3219- 3232.
Russo AT, White MA, Watowich SJ. 2006. The crystal structure of the Venezuelan equine encephalitis alphavirus nsP2 protease. Structure 14: 1449-1458.
Salonen A, et al. 2003. Properly folded nonstructural polyprotein directs the Semliki Forest virus replication complex to the endosomal compartment. J. Virol. 77:1691-1702.
Smoot ME, Ono K, Ruscheinski J, Wang PL, Ideker T. 2011. Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics 27:431- 432.
Tamberg N, et al. 2007. Insertion of EGFP into the replicase gene of Semliki Forest virus results in a novel, genetically stable marker virus. J. Gen. Virol. 88:1225-1230.
Tamm K, Merits A, Sarand I. 2008. Mutations in the nuclear localization signal of nsP2 influencing RNA synthesis, protein expression and cytotoxicity of Semliki Forest virus. J. Gen. Virol. 89:676-686.
Vanlandingham DL, et al. 2005. Development and characterization of a double subgenomic Chikungunya virus infectious clone to express heterologous genes in Aedes aegypti mosquitoes. Insect Biochem. Mol. Biol. 35:1162-1170.
Vidalain PO, Boxem M, Ge H, Li S, Vidal M. 2004. Increasing specificity in high-throughput yeast two-hybrid experiments. Methods 32:363-370.
Voss JE, et al. 2010. Glycoprotein organization of Chikungunya virus particles revealed by X-ray crystallography. Nature 468:709 -712.
Walhout AJ, Vidal M. 2001. High-throughput yeast two-hybrid assays for large-scale protein interaction mapping. Methods 24:297-306.
Weaver SC, Frolov IV. 2005. Togaviruses, p. 1010-1024. In Mahy B, ter Meulen V (ed.), Topley and Wilson's microbiology and microbial infections: virology, 10th ed., vol. 2. Hodder Arnold, London, United Kingdom.
White LK, et al. 2011. Chikungunya virus induces IPS-1-dependent innate immune activation and protein kinase R-independent translational shutoff. J. Virol. 85:606-620.
Wileman T. 2007. Aggresomes and pericentriolar sites of virus assembly: cellular defense or viral design? Annu. Rev. Microbiol. 61:149 -167.
Woznik M, et al. 2010. Mumps virus small hydrophobic protein targets ataxin-1 ubiquitin-like interacting protein (ubiquilin 4). J. Gen. Virol. 91:2773-2781.
Zusinaite E, et al. 2007. Mutations at the palmitoylation site of nonstructural protein nsP1 of Semliki Forest virus attenuate virus replication and cause accumulation of compensatory mutations. J. Gen. Virol. 88: 1977-1985.