By Associate Professor Andrew Collins

Journal articles

Peres A; Lees WD; Rodriguez OL; Lee NY; Polak P; Hope R; Kedmi M; Collins AM; Ohlin M; Kleinstein SH; Watson CT; Yaari G, 2023, 'IGHV allele similarity clustering improves genotype inference from adaptive immune receptor repertoire sequencing data', Nucleic Acids Research, 51, pp. E86, http://dx.doi.org/10.1093/nar/gkad603

Collins AM; Ohlin M; Corcoran M; Heather JM; Ralph D; Law M; Martínez-Barnetche J; Ye J; Richardson E; Gibson WS; Rodriguez OL; Peres A; Yaari G; Watson CT; Lees WD, 2023, 'AIRR-C IG Reference Sets: curated sets of immunoglobulin heavy and light chain germline genes', Frontiers in Immunology, 14, http://dx.doi.org/10.3389/fimmu.2023.1330153

Lees WD; Christley S; Peres A; Kos JT; Corrie B; Ralph D; Breden F; Cowell LG; Yaari G; Corcoran M; Karlsson Hedestam GB; Ohlin M; Collins AM; Watson CT; Busse CE; AIRR Community , 2023, 'AIRR community curation and standardised representation for immunoglobulin and T cell receptor germline sets.', Immunoinformatics (Amst), 10, http://dx.doi.org/10.1016/j.immuno.2023.100025

Magadán S; Edholm E-S; Grimholt U; Krasnov A; Salinas I; Sunyer O; Palti Y; Hansen J; Koop B; Collins A; Lefranc M-P; Boudinot P, 2023, 'Definition of a consistent and standardized IMGT-based nomenclature of salmonid IG and TR loci: from genomics to comparative immune repertoire analysis', Developmental & Comparative Immunology, 148, pp. 104970 - 104970, http://dx.doi.org/10.1016/j.dci.2023.104970

Omer A; Peres A; Rodriguez OL; Watson CT; Lees W; Polak P; Collins AM; Yaari G, 2022, 'T cell receptor beta germline variability is revealed by inference from repertoire data', Genome Medicine, 14, http://dx.doi.org/10.1186/s13073-021-01008-4

Collins AM; Watson CT; Breden F, 2022, 'Immunoglobulin genes, reproductive isolation and vertebrate speciation', Immunology and Cell Biology, 100, pp. 497 - 506, http://dx.doi.org/10.1111/imcb.12567

Jackson KJL; Kos JT; Lees W; Gibson WS; Smith ML; Peres A; Yaari G; Corcoran M; Busse CE; Ohlin M; Watson CT; Collins AM, 2022, 'A BALB/c IGHV Reference Set, Defined by Haplotype Analysis of Long-Read VDJ-C Sequences From F1 (BALB/c x C57BL/6) Mice', Frontiers in Immunology, 13, http://dx.doi.org/10.3389/fimmu.2022.888555

Collins AM; Peres A; Corcoran MM; Watson CT; Yaari G; Lees WD; Ohlin M, 2021, 'Commentary on Population matched (pm) germline allelic variants of immunoglobulin (IG) loci: relevance in infectious diseases and vaccination studies in human populations', Genes and Immunity, 22, pp. 335 - 338, http://dx.doi.org/10.1038/s41435-021-00152-6

van Zelm MC; Ziegler-Heitbrock L; Collins AM; Chan SK; Engel P, 2020, 'Editorial: Nomenclature - Avoiding Babylonian Speech Confusion in Present Day Immunology', Frontiers in Immunology, 11, http://dx.doi.org/10.3389/fimmu.2020.621100

Collins AM; Yaari G; Shepherd AJ; Lees W; Watson CT, 2020, 'Germline immunoglobulin genes: Disease susceptibility genes hidden in plain sight?', Current Opinion in Systems Biology, 24, pp. 100 - 108, http://dx.doi.org/10.1016/j.coisb.2020.10.011

Lees W; Busse CE; Corcoran M; Ohlin M; Scheepers C; Matsen FA; Yaari G; Watson CT; Collins A; Shepherd AJ, 2020, 'OGRDB: A reference database of inferred immune receptor genes', Nucleic Acids Research, 48, pp. D964 - D970, http://dx.doi.org/10.1093/nar/gkz822

Omer A; Shemesh O; Peres A; Polak P; Shepherd AJ; Watson CT; Boyd SD; Collins AM; Lees W; Yaari G, 2020, 'VDJbase: An adaptive immune receptor genotype and haplotype database', Nucleic Acids Research, 48, pp. D1051 - D1056, http://dx.doi.org/10.1093/nar/gkz872

Busse CE; Jackson KJL; Watson CT; Collins AM, 2019, 'A Proposed New Nomenclature for the Immunoglobulin Genes of Mus musculus', Frontiers in Immunology, 10, http://dx.doi.org/10.3389/fimmu.2019.02961

Watson CT; Kos JT; Gibson WS; Newman L; Deikus G; Busse CE; Smith ML; Jackson KJL; Collins AM, 2019, 'A comparison of immunoglobulin IGHV, IGHD and IGHJ genes in wild-derived and classical inbred mouse strains', Immunology and Cell Biology, 97, pp. 888 - 901, http://dx.doi.org/10.1111/imcb.12288

Gidoni M; Snir O; Peres A; Polak P; Lindeman I; Mikocziova I; Sarna VK; Lundin KEA; Clouser C; Vigneault F; Collins AM; Sollid LM; Yaari G, 2019, 'Mosaic deletion patterns of the human antibody heavy chain gene locus shown by Bayesian haplotyping', NATURE COMMUNICATIONS, 10, http://dx.doi.org/10.1038/s41467-019-08489-3

Ohlin M; Scheepers C; Corcoran M; Lees WD; Busse CE; Bagnara D; Thörnqvist L; Bürckert JP; Jackson KJL; Ralph D; Schramm CA; Marthandan N; Breden F; Scott J; Matsen FA; Greiff V; Yaari G; Kleinstein SH; Christley S; Sherkow JS; Kossida S; Lefranc MP; Van Zelm MC; Watson CT; Collins AM, 2019, 'Inferred allelic variants of immunoglobulin receptor genes: A system for their evaluation, documentation, and naming', Frontiers in Immunology, 10, http://dx.doi.org/10.3389/fimmu.2019.00435

Collins AM; Watson CT, 2018, 'Immunoglobulin light chain gene rearrangements, receptor editing and the development of a self-tolerant antibody repertoire', Frontiers in Immunology, 9, http://dx.doi.org/10.3389/fimmu.2018.02249

Collins AM; Jackson KJL, 2018, 'On being the right size: antibody repertoire formation in the mouse and human', Immunogenetics, 70, pp. 143 - 158, http://dx.doi.org/10.1007/s00251-017-1049-8

Breden F; Luning Prak ET; Peters B; Rubelt F; Schramm CA; Busse CE; Vander Heiden JA; Christley S; Bukhari SAC; Thorogood A; Matsen FA; Wine Y; Laserson U; Klatzmann D; Douek DC; Lefranc MP; Collins AM; Bubela T; Kleinstein SH; Watson CT; Cowell LG; Scott JK; Kepler TB, 2017, 'Reproducibility and reuse of adaptive immune receptor repertoire data', Frontiers in Immunology, 8, pp. 1418, http://dx.doi.org/10.3389/fimmu.2017.01418

Watson CT; Matsen FA; Jackson KJL; Ali Bashir F; Smith ML; Glanville J; Breden F; Kleinstein SH; Collins AM; Busse CE, 2017, 'Comment on "a database of huma', Journal of Immunology, 198, pp. 3371 - 3373, http://dx.doi.org/10.4049/jimmunol.1700306

Collins AM, 2016, 'IgG subclass co-expression brings harmony to the quartet model of murine IgG function', Immunology and Cell Biology, 94, pp. 949 - 954, http://dx.doi.org/10.1038/icb.2016.65

Kidd MJ; Jackson KJL; Boyd SD; Collins AM, 2016, 'DJ pairing during VDJ recombination shows positional biases that vary among individuals with differing IGHD locus immunogenotypes', Journal of Immunology, 196, pp. 1158 - 1164, http://dx.doi.org/10.4049/jimmunol.1501401

Collins AM; Wang Y; Roskin KM; Marquis CP; Jackson KJL, 2015, 'The mouse antibody heavy chain repertoire is germline-focused and highly variable between inbred strains', Philosophical Transactions of the Royal Society B: Biological Sciences, 370, http://dx.doi.org/10.1098/rstb.2014.0236

Wong KJ; Timbrell V; Xi Y; Upham JW; Collins AM; Davies JM, 2015, 'IgE+ B cells are scarce, but allergen-specific B cells with a memory phenotype circulate in patients with allergic rhinitis', Allergy: European Journal of Allergy and Clinical Immunology, 70, pp. 420 - 428, http://dx.doi.org/10.1111/all.12563

Wang Y; Jackson KJL; Davies J; Chen Z; Gaeta BA; Rimmer J; Sewell WA; Collins AM, 2014, 'IgE-associated IGHV genes from venom and peanut allergic individuals lack mutational evidence of antigen selection', PLoS ONE, 9, http://dx.doi.org/10.1371/journal.pone.0089730

Tse BWC; Collins A; Oehler MK; Zippelius A; Heinzelmann-Schwarz VA, 2014, 'Antibody-based immunotherapy for ovarian cancer: Where are we at?', Annals of Oncology, 25, pp. 322 - 331, http://dx.doi.org/10.1093/annonc/mdt405

Jackson KJL; Wang Y; Collins AM, 2014, 'Human immunoglobulin classes and subclasses show variability in VDJ gene mutation levels', Immunology and Cell Biology, 92, pp. 729 - 733, http://dx.doi.org/10.1038/icb.2014.44

Jackson KJL; Kidd MJ; Wang Y; Collins AM, 2013, 'The shape of the lymphocyte receptor repertoire: Lessons from the B cell receptor', Frontiers in Immunology, 4, http://dx.doi.org/10.3389/fimmu.2013.00263

Collins AM; Jackson KJL, 2013, 'A temporal model of human IgE and IgG antibody function', Frontiers in Immunology, 4, http://dx.doi.org/10.3389/fimmu.2013.00235

Collins AM; Davies JM, 2013, 'Enhanced cell-binding by allergen multimers: How complex is it', Immunology and Cell Biology, 91, pp. 115 - 117, http://dx.doi.org/10.1038/icb.2013.5

Jackson KJ; Wang Y; Gaeta BA; Pomat W; Siba PM; Sewell WA; Collins AM, 2012, 'Divergent human populations show extensive shared IGK rearrangements in peripheral blood B cells', Immunogenetics, 64, pp. 3 - 14, http://dx.doi.org/10.1007/s00251-011-0559-z

Kidd M; Chen Z; Wang Y; Jackson KJ; Zhang L; Boyd SD; Fire AZ; Tanaka M; Gaeta BA; Collins AM, 2012, 'The inference of phased haplotypes for the immunoglobulin H chain V region gene loci by analysis of VDJ gene rearrangements', The Journal Of Immunology, 188, pp. 1333 - 1340, http://dx.doi.org/10.4049/jimmunol.1102097

Collins A, 2011, 'Old Guinean gifts', New Scientist, 211, pp. 32 - 33, http://dx.doi.org/10.1016/S0262-4079(11)62155-6

Wang Y; Jackson KJ; Gaeta BA; Pomat W; Rim ; Sewell WA; Collins AM, 2011, 'Genomic screening by 454 pyrosequencing identifies a new human IGHV gene and sixteen other new IGHV allelic variants', Immunogenetics, 63, pp. 259 - 265, http://dx.doi.org/10.1007/s00251-010-0510-8

Wang Y; Jackson KJ; Chen Z; Gaeta BA; Siba P; Pomat W; Walpole E; Rimmer J; Sewell WA; Collins AM, 2011, 'IgE sequences in individuals living in an area of endemic parasitism show little mutational evidence of antigen selection', Scandinavian Journal of Immunology, 73, pp. 496 - 504, http://dx.doi.org/10.1111/j.1365-3083.2011.02525.x

Pratt E; Collins AM; Sewell WA; Harvey RJ, 2010, 'Antigen-selection in IgE antibodies from individuals with chronic rhinosinusitis with nasal polyps', American Journal of Rhinology & Allergy, 24, pp. 416 - 421

Jackson KJ; Boyd S; Gaeta BA; Collins AM, 2010, 'Benchmarking the performance of human antibody gene alignment utilities using a 454 sequence dataset', Bioinformatics, 26, pp. 3129 - 3130, http://dx.doi.org/10.1093

Boyd S; Gaeta BA; Jackson KJ; Fire AZ; Marshall EL; Merker JD; Maniar JM; Zhang LN; Sahaf B; Jones CD; Simen BB; Hanczaruk B; Nguyen KD; Nadeau KC; Egholm M; Miklos DB; Zehnder JL; Collins AM, 2010, 'Individual variation in the germline immunoglobulin gene repertoire inferred from Variable Region gene rearrangements', Journal of Immunology, 184, pp. 6986 - 6992, http://dx.doi.org/10.4049/jimmunol.1000445

Wang Y; Jackson KJ; Sewell WA; Collins AM, 2008, 'Many human immunoglobulin heavy-chain IGHV gene polymorphisms have been reported in error', Immunology and Cell Biology, 86, pp. 111 - 115, http://dx.doi.org/10.1038/sj.icb.7100144

Collins AM; Wang Y; Singh V; Yu P; Jackson KJ; Sewell WA, 2008, 'The reported germline repertoire of human immunoglobulin kappa chain genes is relatively complete and accurate', Immunogenetics, 60, pp. 669 - 676

Lee CEH; Jackson KJL; Sewell WA; Collins AM, 2007, 'Use of IGHJ and IGHD gene mutations in analysis of immunoglobulin sequences for the prognosis of chronic lymphocytic leukemia', Leukemia Research, 31, pp. 1247 - 1252, http://dx.doi.org/10.1016/j.leukres.2006.10.013

Jackson KJ; Gaeta BA; Collins AM, 2007, 'Identifying highly mutated IGHD genes in the junctions of rearranged human immunoglobulin heavy chain genes', Journal of Immunological Methods, 324, pp. 26 - 37

Gaeta BA; Malming H; Jackson KJ; Bain ME; Wilson PD; Collins AM, 2007, 'iHMMune-align: hidden Markov model-based alignment and identification of germline genes in rearranged immunoglobulin gene sequences', Bioinformatics, 23, pp. 1580 - 1587

Lee C; Jackson KJ; Sewell WA; Collins AM, 2007, 'Use of IGHJ and IGHD gene mutations in analysis of immunoglobulin sequences for the prognosis of chronic lymphocytic leukemia', Leukemia Research, 31, pp. 1247 - 1252

Dahlke I; Nott DJ; Ruhno J; Sewell WA; Collins AM, 2006, 'Antigen selection in the IgE response of allergic and nonallergic individuals', Journal of Allergy and Clinical Immunology, 117, pp. 1477 - 1483

Lee CE; Gaeta BA; Malming H; Bain ME; Sewell WA; Collins AM, 2006, 'Reconsidering the human immunoglobulin heavy-chain locus: 1. An evaluation of the expressed human IGHD gene repertoire', Immunogenetics, 57, pp. 917 - 925

Jackson NE; Tedla NT; Geczy C; Collins AM; Grimm M; Hampartzoumian T; Hunt JE; Wang H; McNeil HP, 2005, 'IL-15 induces mast cell migration via a pertussis toxin-sensitive receptor', European Journal of Immunology, 35, pp. 2376 - 2385

Jackson KJ; Collins AM, 2005, 'Revisiting the definition of the CDR and FR regions of immunoglobulin heavy chains', Tissue Antigens, 66, pp. 451 - 451

Jackson KJ; Gaeta BA; Sewell WA; Collins AM, 2004, 'Exonuclease activity and P nucleotide addition in the generation of the expressed immunoglobulin repertoire', BMC Immunology [Electronic Resource], 5, pp. 19 - 19, http://www.sciencedirect.com/science/article/B6WVB-4DCMWPN-C7/2/6ddd51d3d5a4b4c9e01603c7452ea881

Collins AM; Ikutani M; Puiu D; Buck G; Nadkarni A; Gaeta BA, 2004, 'Partitioning of rearranged Ig genes by mutation analysis demonstrates D-D fusion and V gene replacement in the expressed human repertoire', Journal of Immunology, 172, pp. 340 - 348

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