Year |
Citation |
Score |
2024 |
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. AIRR-C IG Reference Sets: curated sets of immunoglobulin heavy and light chain germline genes. Frontiers in Immunology. 14: 1330153. PMID 38406579 DOI: 10.3389/fimmu.2023.1330153 |
0.332 |
|
2023 |
Watson CT, Rodriguez OL, Engelbrecht E, Safonova Y, Marasco WA, Smith ML. Looking to the future of antibody genetics: resolving the roles of immunoglobulin diversity in gene regulation, function, and immunity. Genes and Immunity. PMID 38097744 DOI: 10.1038/s41435-023-00238-3 |
0.73 |
|
2023 |
Mikelov A, Nefediev G, Tashkeev A, Rodriguez OL, Ortmans DA, Skatova V, Izraelson M, Davydov A, Poslavsky S, Rahmouni S, Watson CT, Chudakov D, Boyd SD, Bolotin D. Ultrasensitive allele inference from immune repertoire sequencing data with MiXCR. Biorxiv : the Preprint Server For Biology. PMID 38014266 DOI: 10.1101/2023.10.10.561703 |
0.364 |
|
2023 |
Rodriguez OL, Safonova Y, Silver CA, Shields K, Gibson WS, Kos JT, Tieri D, Ke H, Jackson KJL, Boyd SD, Smith ML, Marasco WA, Watson CT. Genetic variation in the immunoglobulin heavy chain locus shapes the human antibody repertoire. Nature Communications. 14: 4419. PMID 37479682 DOI: 10.1038/s41467-023-40070-x |
0.738 |
|
2023 |
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 curation and standardised representation for immunoglobulin and T cell receptor germline sets. Immunoinformatics (Amsterdam, Netherlands). 10. PMID 37388275 DOI: 10.1016/j.immuno.2023.100025 |
0.613 |
|
2023 |
Ford EE, Tieri D, Rodriguez OL, Francoeur NJ, Soto J, Kos JT, Peres A, Gibson WS, Silver CA, Deikus G, Hudson E, Woolley CR, Beckmann N, Charney A, Mitchell TC, ... ... Watson CT, et al. FLAIRR-Seq: A Method for Single-Molecule Resolution of Near Full-Length Antibody H Chain Repertoires. Journal of Immunology (Baltimore, Md. : 1950). PMID 37027017 DOI: 10.4049/jimmunol.2200825 |
0.321 |
|
2022 |
Gibson WS, Rodriguez OL, Shields K, Silver CA, Dorgham A, Emery M, Deikus G, Sebra R, Eichler EE, Bashir A, Smith ML, Watson CT. Characterization of the immunoglobulin lambda chain locus from diverse populations reveals extensive genetic variation. Genes and Immunity. PMID 36539592 DOI: 10.1038/s41435-022-00188-2 |
0.332 |
|
2022 |
Pennell M, Rodriguez OL, Watson CT, Greiff V. The evolutionary and functional significance of germline immunoglobulin gene variation. Trends in Immunology. PMID 36470826 DOI: 10.1016/j.it.2022.11.001 |
0.333 |
|
2022 |
Ford MKB, Hari A, Rodriguez O, Xu J, Lack J, Oguz C, Zhang Y, Weber S, Magliocco M, Barnett J, Xirasagar S, Samuel S, Imberti L, Bonfanti P, Biondi A, ... ... Watson CT, et al. ImmunoTyper-SR: A computational approach for genotyping immunoglobulin heavy chain variable genes using short-read data. Cell Systems. 13: 808-816.e5. PMID 36265467 DOI: 10.1016/j.cels.2022.08.008 |
0.334 |
|
2022 |
Collins AM, Watson CT, Breden F. Immunoglobulin genes, reproductive isolation and vertebrate speciation. Immunology and Cell Biology. PMID 35781330 DOI: 10.1111/imcb.12567 |
0.655 |
|
2022 |
Babrak L, Marquez S, Busse CE, Lees WD, Miho E, Ohlin M, Rosenfeld AM, Stervbo U, Watson CT, Schramm CA. Adaptive Immune Receptor Repertoire (AIRR) Community Guide to TR and IG Gene Annotation. Methods in Molecular Biology (Clifton, N.J.). 2453: 279-296. PMID 35622332 DOI: 10.1007/978-1-0716-2115-8_16 |
0.303 |
|
2022 |
Safonova Y, Shin SB, Kramer L, Reecy J, Watson CT, Smith TPL, Pevzner PA. Variations in antibody repertoires correlate with vaccine responses. Genome Research. PMID 35361626 DOI: 10.1101/gr.276027.121 |
0.747 |
|
2022 |
Ford M, Hari A, Rodriguez O, Xu J, Lack J, Oguz C, Zhang Y, Weber S, Magglioco M, Barnett J, Xirasagar S, Samuel S, Imberti L, Bonfanti P, Biondi A, ... ... Watson C, et al. ImmunoTyper-SR: A Novel Computational Approach for Genotyping Immunoglobulin Heavy Chain Variable Genes using Short Read Data. Biorxiv : the Preprint Server For Biology. PMID 35132409 DOI: 10.1101/2022.01.31.478564 |
0.358 |
|
2021 |
Lee JH, Toy L, Kos JT, Safonova Y, Schief WR, Havenar-Daughton C, Watson CT, Crotty S. Vaccine genetics of IGHV1-2 VRC01-class broadly neutralizing antibody precursor naïve human B cells. Npj Vaccines. 6: 113. PMID 34489473 DOI: 10.1038/s41541-021-00376-7 |
0.719 |
|
2021 |
Kenter AL, Watson CT, Spille JH. Igh Locus Polymorphism May Dictate Topological Chromatin Conformation and V Gene Usage in the Ig Repertoire. Frontiers in Immunology. 12: 682589. PMID 34084176 DOI: 10.3389/fimmu.2021.682589 |
0.324 |
|
2021 |
Peng K, Safonova Y, Shugay M, Popejoy AB, Rodriguez OL, Breden F, Brodin P, Burkhardt AM, Bustamante C, Cao-Lormeau VM, Corcoran MM, Duffy D, Fuentes-Guajardo M, Fujita R, Greiff V, ... ... Watson CT, et al. Diversity in immunogenomics: the value and the challenge. Nature Methods. PMID 34002093 DOI: 10.1038/s41592-021-01169-5 |
0.721 |
|
2021 |
Kenter AL, Watson CT, Spille J. Igh Locus Polymorphism May Dictate Topological Chromatin Conformation and V Gene Usage in the Ig Repertoire Frontiers in Immunology. 12. DOI: 10.3389/fimmu.2021.682589 |
0.324 |
|
2020 |
Christley S, Aguiar A, Blanck G, Breden F, Bukhari SAC, Busse CE, Jaglale J, Harikrishnan SL, Laserson U, Peters B, Rocha A, Schramm CA, Taylor S, Vander Heiden JA, Zimonja B, ... Watson CT, et al. The ADC API: A Web API for the Programmatic Query of the AIRR Data Commons. Frontiers in Big Data. 3: 22. PMID 33693395 DOI: 10.3389/fdata.2020.00022 |
0.554 |
|
2020 |
Rodriguez OL, Gibson WS, Parks T, Emery M, Powell J, Strahl M, Deikus G, Auckland K, Eichler EE, Marasco WA, Sebra R, Sharp AJ, Smith ML, Bashir A, Watson CT. A Novel Framework for Characterizing Genomic Haplotype Diversity in the Human Immunoglobulin Heavy Chain Locus. Frontiers in Immunology. 11: 2136. PMID 33072076 DOI: 10.3389/fimmu.2020.02136 |
0.351 |
|
2020 |
Ford M, Haghshenas E, Watson CT, Sahinalp SC. Genotyping and Copy Number Analysis of Immunoglobin Heavy Chain Variable Genes Using Long Reads. Iscience. 23: 100883. PMID 32109676 DOI: 10.1016/J.Isci.2020.100883 |
0.438 |
|
2020 |
Christley S, Aguiar A, Blanck G, Breden F, Bukhari SAC, Busse CE, Jaglale J, Harikrishnan SL, Laserson U, Peters B, Rocha A, Schramm CA, Taylor S, Vander Heiden JA, Zimonja B, ... Watson CT, et al. The ADC API: A Web API for the Programmatic Query of the AIRR Data Commons Frontiers in Big Data. 3. DOI: 10.3389/fdata.2020.00022 |
0.512 |
|
2019 |
Busse CE, Jackson KJL, Watson CT, Collins AM. A Proposed New Nomenclature for the Immunoglobulin Genes of . Frontiers in Immunology. 10: 2961. PMID 31921202 DOI: 10.3389/Fimmu.2019.02961 |
0.432 |
|
2019 |
Omer A, Shemesh O, Peres A, Polak P, Shepherd AJ, Watson CT, Boyd SD, Collins AM, Lees W, Yaari G. VDJbase: an adaptive immune receptor genotype and haplotype database. Nucleic Acids Research. PMID 31602484 DOI: 10.1093/Nar/Gkz872 |
0.442 |
|
2019 |
Lees W, Busse CE, Corcoran M, Ohlin M, Scheepers C, Matsen FA, Yaari G, Watson CT, Collins A, Shepherd AJ. OGRDB: a reference database of inferred immune receptor genes. Nucleic Acids Research. PMID 31566225 DOI: 10.1093/Nar/Gkz822 |
0.436 |
|
2019 |
Watson CT, Kos JT, Gibson WS, Newman L, Deikus G, Busse CE, Smith ML, Jackson KJL, Collins AM. A comparison of immunoglobulin IGHV, IGHD and IGHJ genes in wild-derived and classical inbred mouse strains. Immunology and Cell Biology. PMID 31441114 DOI: 10.1111/Imcb.12288 |
0.382 |
|
2019 |
Cirelli KM, Carnathan DG, Nogal B, Martin JT, Rodriguez OL, Upadhyay AA, Enemuo CA, Gebru EH, Choe Y, Viviano F, Nakao C, Pauthner MG, Reiss S, Cottrell CA, Smith ML, ... ... Watson CT, et al. Slow Delivery Immunization Enhances HIV Neutralizing Antibody and Germinal Center Responses via Modulation of Immunodominance. Cell. PMID 31080066 DOI: 10.1016/J.Cell.2019.04.012 |
0.369 |
|
2019 |
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 Iv FA, ... ... Watson CT, et al. Inferred Allelic Variants of Immunoglobulin Receptor Genes: A System for Their Evaluation, Documentation, and Naming. Frontiers in Immunology. 10: 435. PMID 30936866 DOI: 10.3389/Fimmu.2019.00435 |
0.692 |
|
2019 |
Gadala-Maria D, Gidoni M, Marquez S, Vander Heiden JA, Kos JT, Watson CT, O'Connor KC, Yaari G, Kleinstein SH. Identification of Subject-Specific Immunoglobulin Alleles From Expressed Repertoire Sequencing Data. Frontiers in Immunology. 10: 129. PMID 30814994 DOI: 10.3389/Fimmu.2019.00129 |
0.428 |
|
2018 |
Collins AM, Watson CT. Immunoglobulin Light Chain Gene Rearrangements, Receptor Editing and the Development of a Self-Tolerant Antibody Repertoire. Frontiers in Immunology. 9: 2249. PMID 30349529 DOI: 10.3389/Fimmu.2018.02249 |
0.383 |
|
2018 |
Garg P, Joshi RS, Watson C, Sharp AJ. A survey of inter-individual variation in DNA methylation identifies environmentally responsive co-regulated networks of epigenetic variation in the human genome. Plos Genetics. 14: e1007707. PMID 30273333 DOI: 10.1371/Journal.Pgen.1007707 |
0.352 |
|
2018 |
Barbosa M, Joshi RS, Garg P, Martin-Trujillo A, Patel N, Jadhav B, Watson CT, Gibson W, Chetnik K, Tessereau C, Mei H, De Rubeis S, Reichert J, Lopes F, Vissers LELM, et al. Identification of rare de novo epigenetic variations in congenital disorders. Nature Communications. 9: 2064. PMID 29802345 DOI: 10.1038/S41467-018-04540-X |
0.323 |
|
2017 |
Breden F, Watson CT. Using High-Throughput Sequencing to Characterize the Development of the Antibody Repertoire During Infections: A Case Study of HIV-1. Advances in Experimental Medicine and Biology. 1053: 245-263. PMID 29549643 DOI: 10.1007/978-3-319-72077-7_12 |
0.613 |
|
2017 |
Watson CT, Cohain AT, Griffin RS, Chun Y, Grishin A, Hacyznska H, Hoffman GE, Beckmann ND, Shah H, Dawson P, Henning A, Wood R, Burks AW, Jones SM, Leung DYM, et al. Integrative transcriptomic analysis reveals key drivers of acute peanut allergic reactions. Nature Communications. 8: 1943. PMID 29203772 DOI: 10.1038/S41467-017-02188-7 |
0.317 |
|
2017 |
Breden F, Luning Prak ET, Peters B, Rubelt F, Schramm CA, Busse CE, Vander Heiden JA, Christley S, Bukhari SAC, Thorogood A, Matsen Iv FA, Wine Y, Laserson U, Klatzmann D, Douek DC, ... ... Watson CT, et al. Reproducibility and Reuse of Adaptive Immune Receptor Repertoire Data. Frontiers in Immunology. 8: 1418. PMID 29163494 DOI: 10.3389/Fimmu.2017.01418 |
0.615 |
|
2017 |
Rubelt F, Busse CE, Bukhari SAC, Bürckert JP, Mariotti-Ferrandiz E, Cowell LG, Watson CT, Marthandan N, Faison WJ, Hershberg U, Laserson U, Corrie BD, Davis MM, Peters B, Lefranc MP, et al. Adaptive Immune Receptor Repertoire Community recommendations for sharing immune-repertoire sequencing data. Nature Immunology. 18: 1274-1278. PMID 29144493 DOI: 10.1038/Ni.3873 |
0.618 |
|
2017 |
Sandkam BA, Joy JB, Watson CT, Breden F. Genomic environment impacts color vision evolution in a family with visually-based sexual selection. Genome Biology and Evolution. PMID 29121209 DOI: 10.1093/Gbe/Evx228 |
0.642 |
|
2017 |
Watson CT, Glanville J, Marasco WA. The Individual and Population Genetics of Antibody Immunity. Trends in Immunology. PMID 28539189 DOI: 10.1016/J.It.2017.04.003 |
0.422 |
|
2017 |
Watson CT, Matsen FA, Jackson KJL, Bashir A, Smith ML, Glanville J, Breden F, Kleinstein SH, Collins AM, Busse CE. Comment on "A Database of Human Immune Receptor Alleles Recovered from Population Sequencing Data". Journal of Immunology (Baltimore, Md. : 1950). 198: 3371-3373. PMID 28416712 DOI: 10.4049/Jimmunol.1700306 |
0.629 |
|
2017 |
Parks T, Auckland K, Rautanen A, Watson C, Mirabel MM, Kado J, Kauwe JK, Lamagni TL, Mentzer AJ, Sriskandan S, Thomas M, Chapman S, Brodlie M, Pollard AJ, Colot J, et al. Common genetic variants in the immunoglobulin heavy chain locus and their differential impact on group A streptococcal disease susceptibility: a comparative meta-analysis of genetic susceptibility studies The Lancet. 389. DOI: 10.1016/S0140-6736(17)30472-5 |
0.306 |
|
2016 |
Joshi RS, Garg P, Zaitlen N, Lappalainen T, Watson CT, Azam N, Ho D, Li X, Antonarakis SE, Brunner HG, Buiting K, Cheung SW, Coffee B, Eggermann T, Francis D, et al. DNA Methylation Profiling of Uniparental Disomy Subjects Provides a Map of Parental Epigenetic Bias in the Human Genome. American Journal of Human Genetics. PMID 27569549 DOI: 10.1016/J.Ajhg.2016.06.032 |
0.306 |
|
2016 |
Avnir Y, Watson CT, Glanville J, Peterson EC, Tallarico AS, Bennett AS, Qin K, Fu Y, Huang CY, Beigel JH, Breden F, Zhu Q, Marasco WA. Erratum: IGHV1-69 polymorphism modulates anti-influenza antibody repertoires, correlates with IGHV utilization shifts and varies by ethnicity. Scientific Reports. 6: 23876. PMID 27125899 DOI: 10.1038/Srep23876 |
0.596 |
|
2016 |
Avnir Y, Watson CT, Glanville J, Peterson EC, Tallarico AS, Bennett AS, Qin K, Fu Y, Huang CY, Beigel JH, Breden F, Zhu Q, Marasco WA. IGHV1-69 polymorphism modulates anti-influenza antibody repertoires, correlates with IGHV utilization shifts and varies by ethnicity. Scientific Reports. 6: 20842. PMID 26880249 DOI: 10.1038/Srep20842 |
0.644 |
|
2015 |
Watson CT, Szutorisz H, Garg P, Martin Q, Landry JA, Sharp AJ, Hurd YL. Genome-Wide DNA Methylation Profiling Reveals Epigenetic Changes in the Rat Nucleus Accumbens Associated with Cross-Generational Effects of Adolescent THC Exposure. Neuropsychopharmacology : Official Publication of the American College of Neuropsychopharmacology. PMID 26044905 DOI: 10.1038/Npp.2015.155 |
0.302 |
|
2015 |
Watson CT, Steinberg KM, Graves TA, Warren RL, Malig M, Schein J, Wilson RK, Holt RA, Eichler EE, Breden F. Sequencing of the human IG light chain loci from a hydatidiform mole BAC library reveals locus-specific signatures of genetic diversity. Genes and Immunity. 16: 24-34. PMID 25338678 DOI: 10.1038/Gene.2014.56 |
0.651 |
|
2014 |
Watson CT, Marques-Bonet T, Sharp AJ, Mefford HC. The genetics of microdeletion and microduplication syndromes: an update. Annual Review of Genomics and Human Genetics. 15: 215-44. PMID 24773319 DOI: 10.1146/Annurev-Genom-091212-153408 |
0.312 |
|
2014 |
Bala Tannan N, Brahmachary M, Garg P, Borel C, Alnefaie R, Watson CT, Thomas NS, Sharp AJ. DNA methylation profiling in X;autosome translocations supports a role for L1 repeats in the spread of X chromosome inactivation. Human Molecular Genetics. 23: 1224-36. PMID 24186870 DOI: 10.1093/Hmg/Ddt553 |
0.321 |
|
2014 |
Disanto G, Kjetil Sandve G, Ricigliano VA, Pakpoor J, Berlanga-Taylor AJ, Handel AE, Kuhle J, Holden L, Watson CT, Giovannoni G, Handunnetthi L, Ramagopalan SV. DNase hypersensitive sites and association with multiple sclerosis. Human Molecular Genetics. 23: 942-8. PMID 24092328 DOI: 10.1093/Hmg/Ddt489 |
0.383 |
|
2013 |
Watson CT, Steinberg KM, Huddleston J, Warren RL, Malig M, Schein J, Willsey AJ, Joy JB, Scott JK, Graves TA, Wilson RK, Holt RA, Eichler EE, Breden F. Complete haplotype sequence of the human immunoglobulin heavy-chain variable, diversity, and joining genes and characterization of allelic and copy-number variation. American Journal of Human Genetics. 92: 530-46. PMID 23541343 DOI: 10.1016/J.Ajhg.2013.03.004 |
0.692 |
|
2013 |
Watson CT, Garg P, Sharp AJ. Comment on "genomic hypomethylation in the human germline associates with selective structural mutability in the human genome". Plos Genetics. 9: e1003332. PMID 23468658 DOI: 10.1371/Journal.Pgen.1003332 |
0.321 |
|
2013 |
Sandkam BA, Joy JB, Watson CT, Gonzalez-Bendiksen P, Gabor CR, Breden F. Hybridization leads to sensory repertoire expansion in a gynogenetic fish, the Amazon molly (poecilia formosa): a test of the hybrid-sensory expansion hypothesis. Evolution; International Journal of Organic Evolution. 67: 120-30. PMID 23289566 DOI: 10.1111/J.1558-5646.2012.01779.X |
0.59 |
|
2012 |
Watson CT, Disanto G, Breden F, Giovannoni G, Ramagopalan SV. Estimating the proportion of variation in susceptibility to multiple sclerosis captured by common SNPs. Scientific Reports. 2: 770. PMID 23105968 DOI: 10.1038/Srep00770 |
0.605 |
|
2012 |
Watson CT, Disanto G, Sandve GK, Breden F, Giovannoni G, Ramagopalan SV. Age-associated hyper-methylated regions in the human brain overlap with bivalent chromatin domains. Plos One. 7: e43840. PMID 23028473 DOI: 10.1371/Journal.Pone.0043840 |
0.58 |
|
2012 |
Disanto G, Sandve GK, Berlanga-Taylor AJ, Ragnedda G, Morahan JM, Watson CT, Giovannoni G, Ebers GC, Ramagopalan SV. Vitamin D receptor binding, chromatin states and association with multiple sclerosis. Human Molecular Genetics. 21: 3575-86. PMID 22595971 DOI: 10.1093/Hmg/Dds189 |
0.312 |
|
2012 |
Watson CT, Breden F. The immunoglobulin heavy chain locus: genetic variation, missing data, and implications for human disease. Genes and Immunity. 13: 363-73. PMID 22551722 DOI: 10.1038/Gene.2012.12 |
0.685 |
|
2011 |
Tam KJ, Watson CT, Massah S, Kolybaba AM, Breden F, Prefontaine GG, Beischlag TV. Regulatory function of conserved sequences upstream of the long-wave sensitive opsin genes in teleost fishes. Vision Research. 51: 2295-303. PMID 21971525 DOI: 10.1016/J.Visres.2011.09.010 |
0.635 |
|
2011 |
Watson CT, Para AE, Lincoln MR, Ramagopalan SV, Orton SM, Morrison KM, Handunnetthi L, Handel AE, Chao MJ, Morahan J, Sadovnick AD, Breden F, Ebers GC. Revisiting the T-cell receptor alpha/delta locus and possible associations with multiple sclerosis. Genes and Immunity. 12: 59-66. PMID 21270827 DOI: 10.1038/Gene.2010.65 |
0.618 |
|
2011 |
Watson CT, Gray SM, Hoffmann M, Lubieniecki KP, Joy JB, Sandkam BA, Weigel D, Loew E, Dreyer C, Davidson WS, Breden F. Gene duplication and divergence of long wavelength-sensitive opsin genes in the guppy, Poecilia reticulata. Journal of Molecular Evolution. 72: 240-52. PMID 21170644 DOI: 10.1007/S00239-010-9426-Z |
0.702 |
|
2010 |
Ramagopalan SV, Heger A, Berlanga AJ, Maugeri NJ, Lincoln MR, Burrell A, Handunnetthi L, Handel AE, Disanto G, Orton SM, Watson CT, Morahan JM, Giovannoni G, Ponting CP, Ebers GC, et al. A ChIP-seq defined genome-wide map of vitamin D receptor binding: associations with disease and evolution. Genome Research. 20: 1352-60. PMID 20736230 DOI: 10.1101/Gr.107920.110 |
0.348 |
|
2010 |
Watson CT, Ramagopalan SV, Morrison KM, Ebers GC, Breden F. IGHV4-39 deletion polymorphism does not associate with risk or outcome of multiple sclerosis. Journal of Neuroimmunology. 225: 164-6. PMID 20471699 DOI: 10.1016/J.Jneuroim.2010.04.012 |
0.605 |
|
2010 |
Handel AE, Handunnetthi L, Berlanga AJ, Watson CT, Morahan JM, Ramagopalan SV. The effect of single nucleotide polymorphisms from genome wide association studies in multiple sclerosis on gene expression. Plos One. 5: e10142. PMID 20405052 DOI: 10.1371/Journal.Pone.0010142 |
0.39 |
|
2010 |
Watson CT, Lubieniecki KP, Loew E, Davidson WS, Breden F. Genomic organization of duplicated short wave-sensitive and long wave-sensitive opsin genes in the green swordtail, Xiphophorus helleri. Bmc Evolutionary Biology. 10: 87. PMID 20353595 DOI: 10.1186/1471-2148-10-87 |
0.672 |
|
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