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Kristiansen","year":"2001","journal-title":"Nature"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"915","DOI":"10.1002\/j.1460-2075.1987.tb04838.x","article-title":"The primary structure of the beta-subunit of the cell surface adhesion glycoproteins LFA-1, CR3 and p150,95 and its relationship to the fibronectin receptor.","volume":"6","author":"SK Law","year":"1987","journal-title":"EMBO J"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"31776","DOI":"10.1074\/jbc.M803908200","article-title":"Interaction between S100A8\/A9 and annexin A6 is involved in the calcium-induced cell surface exposition of S100A8\/A9.","volume":"283","author":"G Bode","year":"2008","journal-title":"J Biol Chem"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"1421","DOI":"10.1084\/jem.177.5.1421","article-title":"Structure and functional expression of the human macrophage inflammatory protein 1 alpha\/RANTES receptor.","volume":"177","author":"JL Gao","year":"1993","journal-title":"J Exp Med"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"609","DOI":"10.1038\/nrm2748","article-title":"Endocytosis and signalling: intertwining molecular networks.","volume":"10","author":"A Sorkin","year":"2009","journal-title":"Nat Rev Mol Cell Biol"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"7804","DOI":"10.4049\/jimmunol.180.12.7804","article-title":"A novel trafficking signal within the HLA-C cytoplasmic tail allows regulated expression upon differentiation of macrophages.","volume":"180","author":"MR Schaefer","year":"2008","journal-title":"J Immunol"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"1631","DOI":"10.1016\/j.cub.2008.09.029","article-title":"Cdc42, Par6, and aPKC regulate Arp2\/3-mediated endocytosis to control local adherens junction stability.","volume":"18","author":"M Georgiou","year":"2008","journal-title":"Curr 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Kannan","year":"1996","journal-title":"Cell Immunol"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"3564","DOI":"10.1091\/mbc.E07-10-0997","article-title":"Eps15 mediates vesicle trafficking from the trans-Golgi network via an interaction with the clathrin adaptor AP-1.","volume":"19","author":"S Chi","year":"2008","journal-title":"Mol Biol Cell"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"3193","DOI":"10.1091\/mbc.E06-12-1147","article-title":"The clathrin adaptor complex AP-1 binds HIV-1 and MLV Gag and facilitates their budding.","volume":"18","author":"G Camus","year":"2007","journal-title":"Mol Biol Cell"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"913","DOI":"10.1083\/jcb.135.4.913","article-title":"Rab11 regulates recycling through the pericentriolar recycling endosome.","volume":"135","author":"O Ullrich","year":"1996","journal-title":"J Cell 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Chang","year":"2006","journal-title":"Cell"},{"key":"ref57","doi-asserted-by":"crossref","first-page":"1717","DOI":"10.1073\/pnas.0510664103","article-title":"Activation of the E3 ubiquitin ligase Itch through a phosphorylation-induced conformational change.","volume":"103","author":"E Gallagher","year":"2006","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref58","doi-asserted-by":"crossref","first-page":"271","DOI":"10.1126\/science.1099414","article-title":"Jun turnover is controlled through JNK-dependent phosphorylation of the E3 ligase Itch.","volume":"306","author":"M Gao","year":"2004","journal-title":"Science"},{"key":"ref59","doi-asserted-by":"crossref","first-page":"4456","DOI":"10.1091\/mbc.E02-05-0311","article-title":"A subset of chaperones and folding enzymes form multiprotein complexes in endoplasmic reticulum to bind nascent proteins.","volume":"13","author":"L Meunier","year":"2002","journal-title":"Mol Biol 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