62 Lakatos, P.L. et al. (2009) Pancreatic autoantibodies are associated with reactivity to microbial antibodies, penetrating disease behavior, perianal disease, and extraintestinal manifestations, but not with NOD2/ CARD15 or TLR4 genotype in a Hungarian IBD cohort. Inflamm. Bowel Dis. 15, 365-374. doi: 10.1002/ ibd.20778. Gupta, N. et al. (2006) Risk factors for initial surgery in pediatric patients with Crohn’s disease. Gastroenterology 2006;130(4):1069-77. doi: 10.1053/j.gastro.2006.02.003. Ding, N.S. et al. (2016) Systematic review: predicting and optimising response to anti-TNF therapy in Crohn’s disease - algorithm for practical management. Aliment. Pharmacol. Ther. 43, 30-51. doi: 10.1111/ apt.13445. Schreiber, S. et al. (2018) Systematic review with meta-analysis: real-world effectiveness and safety of vedolizumab in patients with inflammatory bowel disease. J. Gastroenterol. 53, 1048-1064. doi: 10.1007/ s00535-018-1480-0. Taylor, K.D. et al. (2001) ANCA pattern and LTA haplotype relationship to clinical responses to anti-TNF antibody treatment in Crohn’s disease. Gastroenterology 120, 1347-1355. doi: 10.1053/gast.2001.23966. Esters, N. et al. (2002) Serological markers for prediction of response to anti-tumor necrosis factor treatment in Crohn’s disease. Am. J. Gastroenterol. 97, 1458-1462. doi: 10.1111/j.1572-0241.2002.05689.x. Ferrante, M. et al. (2007) Predictors of early response to infliximab in patients with ulcerative colitis. Inflamm. Bowel Dis. 13, 123-128. doi: 10.1002/ibd.20054. Degenhardt, F. et al. (2016) Serologic Anti-GP2 Antibodies Are Associated with Genetic Polymorphisms, Fibrostenosis, and Need for Surgical Resection in Crohn’s Disease. Inflamm. Bowel Dis. 22, 2648-2657. doi: 10.1097/MIB.0000000000000936. Caneparo, V. et al. (2016) Distinct Anti-IFI16 and Anti-GP2 Antibodies in Inflammatory Bowel Disease and Their Variation with Infliximab Therapy. Inflamm. Bowel Dis. 22, 2977-2987. doi: 10.1097/ MIB.0000000000000926. Paull, M.L. and Daugherty, P.S. Mapping serum antibody repertoires using peptide libraries. Curr. Opin. Chem. Eng. 19, 21–26. doi: 10.1016/j.coche.2017.12.001. Pasolli, E. et al. (2019) Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle. Cell 2019;176(3):649-662.e20. doi: 10.1016/j.cell.2019.01.001. Mohan, D. et al. (2018) PhIP-Seq characterization of serum antibodies using oligonucleotide-encoded peptidomes. Nat. Protoc. 13, 1958–1978. doi: 10.1038/s41596-018-0025-6. Larman, H.B. et al. (2011) Autoantigen discovery with a synthetic human peptidome. Nat. Biotechnol. 29, 535–541. doi: 10.1038/nbt.1856. Xu, G.J. et al. (2015) Viral immunology. Comprehensive serological profiling of human populations using a synthetic human virome. Science 348, aaa0698. doi: 10.1126/science.aaa0698. Shrock, E. et al. (2020) Viral epitope profiling of COVID-19 patients reveals cross-reactivity and correlates of severity. Science 370, 1–23. doi: 10.1126/science.abd4250. Palm, N.W. et al. (2014) Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. Cell 158, 1000–1010. doi: 10.1016/j.cell.2014.08.006. Bunker, J.J. et al. (2015) Innate and Adaptive Humoral Responses Coat Distinct Commensal Bacteria with Immunoglobulin A. Immunity 43, 541–553. doi: 10.1016/j.immuni.2015.08.007. Kau, A.L. et al. (2015) Functional characterization of IgA-targeted bacterial taxa from undernourished Malawian children that produce diet-dependent enteropathy. Sci. Transl. Med. 7, 276ra24. doi: 10.1126/ scitranslmed.aaa4877. Moor, K. et al. (2016) Analysis of bacterial-surface-specific antibodies in body fluids using bacterial flow cytometry. Nat. Protoc. 11, 1531–1553. doi: 10.1038/nprot.2016.091. 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 Chapter 2
RkJQdWJsaXNoZXIy MjY0ODMw