Bio

Jonathan Bradfield, Bioinformatics Specialist

Jonathan Bradfield is a Bioinformatics Specialist at CAG. He entered the field of genomics after graduating from Cornell University with a Bachelor of Science in Biology. After a brief role as Director of Research for the Norchit Biomedical Research Institute, which he co-founded directly upon graduation, he moved to Reykjavik, Iceland to take a position at deCODE Genetics. His early work at deCODE was mainly in the area of gene expression, and he studied expression differences of peripheral mononuclear cells between responders and non-responders of numerous pharmaceutical products. He also worked on applying different machine learning algorithms in the hope of finding a robust model that could be used to predict response to these drugs.

In 2006, he moved to CAG. One of the earliest long-term projects that he became involved with at the Center was a genome wide association study of type 1 diabetes (T1D). In collaboration with investigators at McGill University, he published one of the first genome wide association studies of T1D. He found numerous new loci associated with T1D and followed up the association analysis with the largest meta-analysis of T1D to date.

He is also involved in studying the genetic aspects of obesity. There is a sizable population of obese children at CHOP, and he has performed genome wide association studies to find regions of the genome associated with pediatric obesity. CHOP is also part of a worldwide consortium called the Early Growth Genetics (EGG) consortium. While in the consortium, he has served as head analyst for the obesity project, and has performed a meta-analysis that has found two new loci associated with childhood obesity.

Publications

Key CAG Publications

A genome-wide association study identifies KIAA0350 as a type 1 diabetes gene.
Hakonarson H, Grant SF, Bradfield JP, Marchand L, Kim CE, Glessner JT, Grabs R, Casalunovo T, Taback SP, Frackelton EC, Lawson ML, Robinson LJ, Skraban R, Lu Y, Chiavacci RM, Stanley CA, Kirsch SE, Rappaport EF, Orange JS, Monos DS, Devoto M, Qu HQ, et al.
Nature. 2007 Aug 2;448(7153):591-4. Epub 2007 Jul 15.



Loci on 20q13 and 21q22 are associated with pediatric-onset inflammatory bowel disease.
Kugathasan S, Baldassano RN, Bradfield JP, Sleiman PM, Imielinski M, Guthery SL, Cucchiara S, Kim CE, Frackelton EC, Annaiah K, Glessner JT, Santa E, Willson T, Eckert AW, Bonkowski E, Shaner JL, Smith RM, Otieno FG, Peterson N, Abrams DJ, Chiavacci RM, Grundmeier R, et al.
Nat Genet. 2008 Oct;40(10):1211-5. doi: 10.1038/ng.203. Epub 2008 Aug 31.



A genome-wide meta-analysis of six type 1 diabetes cohorts identifies multiple associated loci.
Bradfield JP, Qu HQ, Wang K, Zhang H, Sleiman PM, Kim CE, Mentch FD, Qiu H, Glessner JT, Thomas KA, Frackelton EC, Chiavacci RM, Imielinski M, Monos DS, Pandey R, Bakay M, Grant SF, Polychronakos C, Hakonarson H.
PLoS Genet. 2011 Sep;7(9):e1002293. doi: 10.1371/journal.pgen.1002293. Epub 2011 Sep 29.



A genome-wide association meta-analysis identifies new childhood obesity loci.
Bradfield JP, Taal HR, Timpson NJ, Scherag A, Lecoeur C, Warrington NM, Hypponen E, Holst C, Valcarcel B, Thiering E, Salem RM, Schumacher FR, Cousminer DL, Sleiman PM, Zhao J, Berkowitz RI, Vimaleswaran KS, Jarick I, Pennell CE, Evans DM, St Pourcain B, Berry DJ, et al.
Nat Genet. 2012 May;44(5):526-31. doi: 10.1038/ng.2247.



Other CAG Publications**

**An updated list of publications is available at My NCBI Collections.

A Trans-ethnic Genome-wide Association Study Identifies Gender Specific Loci Influencing Pediatric aBMD and BMC at the Distal Radius.
Chesi A, Mitchell JA, Kalkwarf HJ, Bradfield JP, Lappe JM, McCormack SE, Gilsanz V, Oberfield SE, Hakonarson H, Shepherd JA, Kelly A, Zemel BS, Grant SF.
Hum Mol Genet. 2015 Jun 3. doi:pii: ddv210. [Epub ahead of print]



Cardiometabolic effects of genetic upregulation of the interleukin 1 receptor antagonist: a Mendelian randomisation analysis.
Interleukin 1 Genetics Consortium.
Lancet Diabetes Endocrinol. 2015 Apr;3(4):243-53. doi: 10.1016/S2213-8587(15)00034-0. Epub 2015 Feb 26.



The type 2 diabetes associated rs7903146 T allele within TCF7L2 is significantly under-represented in Hereditary Multiple Exostoses: insights into pathogenesis.
Sgariglia F, Pedrini E, Bradfield JP, Bhatti TR, D'Adamo P, Dormans JP, Gunawardena AT, Hakonarson H, Hecht JT, Sangiorgi L, Pacifici M, Enomoto-Iwamoto M, Grant SF.
Bone. 2015 Mar;72:123-7. doi: 10.1016/j.bone.2014.11.024. Epub 2014 Dec 9.



A novel common variant in DCST2 is associated with length in early life and height in adulthood.
van der Valk RJ, Kreiner-Møller E, Kooijman MN, Guxens M, Stergiakouli E, Sääf A, Bradfield JP, Geller F, Hayes MG, Cousminer DL, Körner A, Thiering E, Curtin JA, Myhre R, Huikari V, Joro R, Kerkhof M, Warrington NM, Pitkänen N, Ntalla I, Horikoshi M, Veijola R, et al.
Hum Mol Genet. 2015 Feb 15;24(4):1155-68. doi: 10.1093/hmg/ddu510. Epub 2014 Oct 3.



Genetic determinants of common epilepsies: a meta-analysis of genome-wide association studies.
International League Against Epilepsy Consortium on Complex Epilepsies. Electronic address: This email address is being protected from spambots. You need JavaScript enabled to view it..
Lancet Neurol. 2014 Sep;13(9):893-903. doi: 10.1016/S1474-4422(14)70171-1. Epub 2014 Jul 30.



Imputation of TPMT defective alleles for the identification of patients with high-risk phenotypes.
Almoguera B, Vazquez L, Connolly JJ, Bradfield J, Sleiman P, Keating B, Hakonarson H.
Front Genet. 2014;5:96. doi: 10.3389/fgene.2014.00096.



Assessing the functional consequence of loss of function variants using electronic medical record and large-scale genomics consortium efforts.
Sleiman P, Bradfield J, Mentch F, Almoguera B, Connolly J, Hakonarson H.
Front Genet. 2014;5:105. doi: 10.3389/fgene.2014.00105.



Genome-wide association study of sexual maturation in males and females highlights a role for body mass and menarche loci in male puberty.
Cousminer DL, Stergiakouli E, Berry DJ, Ang W, Groen-Blokhuis MM, Körner A, Siitonen N, Ntalla I, Marinelli M, Perry JR, Kettunen J, Jansen R, Surakka I, Timpson NJ, Ring S, Mcmahon G, Power C, Wang C, Kähönen M, Viikari J, Lehtimäki T, Middeldorp CM, et al.
Hum Mol Genet. 2014 Aug 15;23(16):4452-64. doi: 10.1093/hmg/ddu150. Epub 2014 Apr 25.



GATA factors promote ER integrity and β-cell survival and contribute to type 1 diabetes risk.
Sartori DJ, Wilbur CJ, Long SY, Rankin MM, Li C, Bradfield JP, Hakonarson H, Grant SF, Pu WT, Kushner JA.
Mol Endocrinol. 2014 Jan;28(1):28-39. doi: 10.1210/me.2013-1265. Epub 2013 Jan 1.



Whole-genome DNA/RNA sequencing identifies truncating mutations in RBCK1 in a novel Mendelian disease with neuromuscular and cardiac involvement.
Wang K, Kim C, Bradfield J, Guo Y, Toskala E, Otieno FG, Hou C, Thomas K, Cardinale C, Lyon GJ, Golhar R, Hakonarson H.
Genome Med. 2013;5(7):67. doi: 10.1186/gm471.



Dominant form of congenital hyperinsulinism maps to HK1 region on 10q.
Pinney SE, Ganapathy K, Bradfield J, Stokes D, Sasson A, Mackiewicz K, Boodhansingh K, Hughes N, Becker S, Givler S, Macmullen C, Monos D, Ganguly A, Hakonarson H, Stanley CA.
Horm Res Paediatr. 2013;80(1):18-27. doi: 10.1159/000351943. Epub 2013 Jul 13.



Large sample size, wide variant spectrum, and advanced machine-learning technique boost risk prediction for inflammatory bowel disease.
Wei Z, Wang W, Bradfield J, Li J, Cardinale C, Frackelton E, Kim C, Mentch F, Van Steen K, Visscher PM, Baldassano RN, Hakonarson H; International IBD Genetics Consortium.
Am J Hum Genet. 2013 Jun 6;92(6):1008-12. doi: 10.1016/j.ajhg.2013.05.002. Epub 2013 May 23.



A candidate-interactome" aggregate analysis of genome-wide association data in multiple sclerosis."
Mechelli R, Umeton R, Policano C, Annibali V, Coarelli G, Ricigliano VA, Vittori D, Fornasiero A, Buscarinu MC; International Multiple Sclerosis Genetics Consortium; Wellcome Trust Case Control Consortium,2, Romano S, Salvetti M, Ristori G.
PLoS One. 2013 May 16;8(5):e63300. doi: 10.1371/journal.pone.0063300. Print 2013.



A meta-analysis identifies new loci associated with body mass index in individuals of African ancestry.
Monda KL, Chen GK, Taylor KC, Palmer C, Edwards TL, Lange LA, Ng MC, Adeyemo AA, Allison MA, Bielak LF, Chen G, Graff M, Irvin MR, Rhie SK, Li G, Liu Y, Liu Y, Lu Y, Nalls MA, Sun YV, Wojczynski MK, Yanek LR, et al.
Nat Genet. 2013 Jun;45(6):690-6. doi: 10.1038/ng.2608. Epub 2013 Apr 14.



The missense variation landscape of FTO, MC4R, and TMEM18 in obese children of African Ancestry.
Deliard S, Panossian S, Mentch FD, Kim CE, Hou C, Frackelton EC, Bradfield JP, Glessner JT, Zhang H, Wang K, Sleiman PM, Chiavacci RM, Berkowitz RI, Hakonarson H, Zhao J, Grant SF.
Obesity (Silver Spring). 2013 Jan;21(1):159-63. doi: 10.1002/oby.20147.



Genome-wide association and longitudinal analyses reveal genetic loci linking pubertal height growth, pubertal timing and childhood adiposity.
Cousminer DL, Berry DJ, Timpson NJ, Ang W, Thiering E, Byrne EM, Taal HR, Huikari V, Bradfield JP, Kerkhof M, Groen-Blokhuis MM, Kreiner-Møller E, Marinelli M, Holst C, Leinonen JT, Perry JR, Surakka I, Pietiläinen O, Kettunen J, Anttila V, Kaakinen M, Sovio U, et al.
Hum Mol Genet. 2013 Jul 1;22(13):2735-47. doi: 10.1093/hmg/ddt104. Epub 2013 Feb 27.



GWAS of blood cell traits identifies novel associated loci and epistatic interactions in Caucasian and African-American children.
Li J, Glessner JT, Zhang H, Hou C, Wei Z, Bradfield JP, Mentch FD, Guo Y, Kim C, Xia Q, Chiavacci RM, Thomas KA, Qiu H, Grant SF, Furth SL, Hakonarson H, Sleiman PM.
Hum Mol Genet. 2013 Apr 1;22(7):1457-64. doi: 10.1093/hmg/dds534. Epub 2012 Dec 20.



New loci associated with birth weight identify genetic links between intrauterine growth and adult height and metabolism.
Horikoshi M, Yaghootkar H, Mook-Kanamori DO, Sovio U, Taal HR, Hennig BJ, Bradfield JP, St Pourcain B, Evans DM, Charoen P, Kaakinen M, Cousminer DL, Lehtimäki T, Kreiner-Møller E, Warrington NM, Bustamante M, Feenstra B, Berry DJ, Thiering E, Pfab T, Barton SJ, Shields BM, et al.
Nat Genet. 2013 Jan;45(1):76-82. doi: 10.1038/ng.2477. Epub 2012 Dec 2.



Common variants at 12q15 and 12q24 are associated with infant head circumference.
Taal HR, St Pourcain B, Thiering E, Das S, Mook-Kanamori DO, Warrington NM, Kaakinen M, Kreiner-Møller E, Bradfield JP, Freathy RM, Geller F, Guxens M, Cousminer DL, Kerkhof M, Timpson NJ, Ikram MA, Beilin LJ, Bønnelykke K, Buxton JL, Charoen P, Chawes BL, Eriksson J, et al.
Nat Genet. 2012 Apr 15;44(5):532-8. doi: 10.1038/ng.2238. Erratum in: Nat Genet. 2013 June;45(6):713. Sørensen, Thorkild I A [removed].



Translational studies of lipoprotein-associated phospholipase Aâ‚‚ in inflammation and atherosclerosis.
Ferguson JF, Hinkle CC, Mehta NN, Bagheri R, Derohannessian SL, Shah R, Mucksavage MI, Bradfield JP, Hakonarson H, Wang X, Master SR, Rader DJ, Li M, Reilly MP.
J Am Coll Cardiol. 2012 Feb 21;59(8):764-72. doi: 10.1016/j.jacc.2011.11.019.



Genome wide association identifies PPFIA1 as a candidate gene for acute lung injury risk following major trauma.
Christie JD, Wurfel MM, Feng R, O'Keefe GE, Bradfield J, Ware LB, Christiani DC, Calfee CS, Cohen MJ, Matthay M, Meyer NJ, Kim C, Li M, Akey J, Barnes KC, Sevransky J, Lanken PN, May AK, Aplenc R, Maloney JP, Hakonarson H; Trauma ALI SNP Consortium (TASC) investigators.
PLoS One. 2012;7(1):e28268. doi: 10.1371/journal.pone.0028268. Epub 2012 Jan 25.



Genome-wide copy number variation study associates metabotropic glutamate receptor gene networks with attention deficit hyperactivity disorder.
Elia J, Glessner JT, Wang K, Takahashi N, Shtir CJ, Hadley D, Sleiman PM, Zhang H, Kim CE, Robison R, Lyon GJ, Flory JH, Bradfield JP, Imielinski M, Hou C, Frackelton EC, Chiavacci RM, Sakurai T, Rabin C, Middleton FA, Thomas KA, Garris M, et al.
Nat Genet. 2011 Dec 4;44(1):78-84. doi: 10.1038/ng.1013.



Lack of relationship between mitochondrial heteroplasmy or variation and childhood obesity.
Grant SF, Glessner JT, Bradfield JP, Zhao J, Tirone JE, Berkowitz RI, Hakonarson H, Sondheimer N.
Int J Obes (Lond). 2012 Jan;36(1):80-3. doi: 10.1038/ijo.2011.206. Epub 2011 Oct 18.



Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
International Multiple Sclerosis Genetics Consortium; Wellcome Trust Case Control Consortium 2, Sawcer S, Hellenthal G, Pirinen M, Spencer CC, Patsopoulos NA, Moutsianas L, Dilthey A, Su Z, Freeman C, Hunt SE, Edkins S, Gray E, Booth DR, Potter SC, Goris A, Band G, Oturai AB, Strange A, Saarela J, Bellenguez C, et al.
Nature. 2011 Aug 10;476(7359):214-9. doi: 10.1038/nature10251.



Crohn's disease and genetic hitchhiking at IBD5.
Huff CD, Witherspoon DJ, Zhang Y, Gatenbee C, Denson LA, Kugathasan S, Hakonarson H, Whiting A, Davis CT, Wu W, Xing J, Watkins WS, Bamshad MJ, Bradfield JP, Bulayeva K, Simonson TS, Jorde LB, Guthery SL.
Mol Biol Evol. 2012 Jan;29(1):101-11. doi: 10.1093/molbev/msr151. Epub 2011 Aug 4.



Role of BMI-associated loci identified in GWAS meta-analyses in the context of common childhood obesity in European Americans.
Zhao J, Bradfield JP, Zhang H, Sleiman PM, Kim CE, Glessner JT, Deliard S, Thomas KA, Frackelton EC, Li M, Chiavacci RM, Berkowitz RI, Hakonarson H, Grant SF.
Obesity (Silver Spring). 2011 Dec;19(12):2436-9. doi: 10.1038/oby.2011.237. Epub 2011 Jul 21.



The novel atherosclerosis locus at 10q11 regulates plasma CXCL12 levels.
Mehta NN, Li M, William D, Khera AV, DerOhannessian S, Qu L, Ferguson JF, McLaughlin C, Shaikh LH, Shah R, Patel PN, Bradfield JP, He J, Stylianou IM, Hakonarson H, Rader DJ, Reilly MP.
Eur Heart J. 2011 Apr;32(8):963-71. doi: 10.1093/eurheartj/ehr091. Epub 2011 Mar 17. Review.



ANGPT2 genetic variant is associated with trauma-associated acute lung injury and altered plasma angiopoietin-2 isoform ratio.
Meyer NJ, Li M, Feng R, Bradfield J, Gallop R, Bellamy S, Fuchs BD, Lanken PN, Albelda SM, Rushefski M, Aplenc R, Abramova H, Atochina-Vasserman EN, Beers MF, Calfee CS, Cohen MJ, Pittet JF, Christiani DC, O'Keefe GE, Ware LB, May AK, Wurfel MM, et al.
Am J Respir Crit Care Med. 2011 May 15;183(10):1344-53. doi: 10.1164/rccm.201005-0701OC. Epub 2011 Jan 21.



Obesity-susceptibility loci have a limited influence on birth weight: a meta-analysis of up to 28,219 individuals.
Kilpeläinen TO, den Hoed M, Ong KK, Grøntved A, Brage S; Early Growth Genetics Consortium, Jameson K, Cooper C, Khaw KT, Ekelund U, Wareham NJ, Loos RJ.
Am J Clin Nutr. 2011 Apr;93(4):851-60. doi: 10.3945/ajcn.110.000828. Epub 2011 Jan 19.



BMD-associated variation at the Osterix locus is correlated with childhood obesity in females.
Zhao J, Bradfield JP, Li M, Zhang H, Mentch FD, Wang K, Sleiman PM, Kim CE, Glessner JT, Frackelton EC, Chiavacci RM, Berkowitz RI, Zemel BS, Hakonarson H, Grant SF.
Obesity (Silver Spring). 2011 Jun;19(6):1311-4. doi: 10.1038/oby.2010.324. Epub 2011 Jan 6.



Meta-analysis of Dense Genecentric Association Studies Reveals Common and Uncommon Variants Associated with Height.
Lanktree MB, Guo Y, Murtaza M, Glessner JT, Bailey SD, Onland-Moret NC, Lettre G, Ongen H, Rajagopalan R, Johnson T, Shen H, Nelson CP, Klopp N, Baumert J, Padmanabhan S, Pankratz N, Pankow JS, Shah S, Taylor K, Barnard J, Peters BJ, Maloney CM, et al.
Am J Hum Genet. 2011 Jan 7;88(1):6-18. doi: 10.1016/j.ajhg.2010.11.007. Epub 2010 Dec 30. Erratum in: Am J Hum Genet. 2012 Jun 8;90(6):1117. Tomaszweski, Maciej [corrected to Tomaszewski, Maciej].



Duplication of the SLIT3 locus on 5q35.1 predisposes to major depressive disorder.
Glessner JT, Wang K, Sleiman PM, Zhang H, Kim CE, Flory JH, Bradfield JP, Imielinski M, Frackelton EC, Qiu H, Mentch F, Grant SF, Hakonarson H.
PLoS One. 2010 Dec 1;5(12):e15463. doi: 10.1371/journal.pone.0015463.



The ubiquitin ligase adaptor Ndfip1 regulates T cell-mediated gastrointestinal inflammation and inflammatory bowel disease susceptibility.
Ramon HE, Riling CR, Bradfield J, Yang B, Hakonarson H, Oliver PM.
Mucosal Immunol. 2011 May;4(3):314-24. doi: 10.1038/mi.2010.69. Epub 2010 Oct 20.



A genome-wide study reveals copy number variants exclusive to childhood obesity cases.
Glessner JT, Bradfield JP, Wang K, Takahashi N, Zhang H, Sleiman PM, Mentch FD, Kim CE, Hou C, Thomas KA, Garris ML, Deliard S, Frackelton EC, Otieno FG, Zhao J, Chiavacci RM, Li M, Buxbaum JD, Berkowitz RI, Hakonarson H, Grant SF.
Am J Hum Genet. 2010 Nov 12;87(5):661-6. doi: 10.1016/j.ajhg.2010.09.014. Epub 2010 Oct 14.



The role of height-associated loci identified in genome wide association studies in the determination of pediatric stature.
Zhao J, Li M, Bradfield JP, Zhang H, Mentch FD, Wang K, Sleiman PM, Kim CE, Glessner JT, Hou C, Keating BJ, Thomas KA, Garris ML, Deliard S, Frackelton EC, Otieno FG, Chiavacci RM, Berkowitz RI, Hakonarson H, Grant SF.
BMC Med Genet. 2010 Jun 14;11:96. doi: 10.1186/1471-2350-11-96.



Strong synaptic transmission impact by copy number variations in schizophrenia.
Glessner JT, Reilly MP, Kim CE, Takahashi N, Albano A, Hou C, Bradfield JP, Zhang H, Sleiman PM, Flory JH, Imielinski M, Frackelton EC, Chiavacci R, Thomas KA, Garris M, Otieno FG, Davidson M, Weiser M, Reichenberg A, Davis KL, Friedman JI, Cappola TP, et al.
Proc Natl Acad Sci U S A. 2010 Jun 8;107(23):10584-9. doi: 10.1073/pnas.1000274107. Epub 2010 May 20.



In silico replication of the genome-wide association results of the Type 1 Diabetes Genetics Consortium.
Qu HQ, Bradfield JP, Li Q, Kim C, Frackelton E, Grant SF, Hakonarson H, Polychronakos C.
Hum Mol Genet. 2010 Jun 15;19(12):2534-8. doi: 10.1093/hmg/ddq133. Epub 2010 Apr 8.



Variants in ADCY5 and near CCNL1 are associated with fetal growth and birth weight.
Freathy RM, Mook-Kanamori DO, Sovio U, Prokopenko I, Timpson NJ, Berry DJ, Warrington NM, Widen E, Hottenga JJ, Kaakinen M, Lange LA, Bradfield JP, Kerkhof M, Marsh JA, Mägi R, Chen CM, Lyon HN, Kirin M, Adair LS, Aulchenko YS, Bennett AJ, Borja JB, et al.
Nat Genet. 2010 May;42(5):430-5. doi: 10.1038/ng.567. Epub 2010 Apr 6.



Comparative genetic analysis of inflammatory bowel disease and type 1 diabetes implicates multiple loci with opposite effects.
Wang K, Baldassano R, Zhang H, Qu HQ, Imielinski M, Kugathasan S, Annese V, Dubinsky M, Rotter JI, Russell RK, Bradfield JP, Sleiman PM, Glessner JT, Walters T, Hou C, Kim C, Frackelton EC, Garris M, Doran J, Romano C, Catassi C, Van Limbergen J, et al.
Hum Mol Genet. 2010 May 15;19(10):2059-67. doi: 10.1093/hmg/ddq078. Epub 2010 Feb 22.



Variants of DENND1B associated with asthma in children.
Sleiman PM, Flory J, Imielinski M, Bradfield JP, Annaiah K, Willis-Owen SA, Wang K, Rafaels NM, Michel S, Bonnelykke K, Zhang H, Kim CE, Frackelton EC, Glessner JT, Hou C, Otieno FG, Santa E, Thomas K, Smith RM, Glaberson WR, Garris M, Chiavacci RM, et al.
N Engl J Med. 2010 Jan 7;362(1):36-44. doi: 10.1056/NEJMoa0901867. Epub 2009 Dec 23. Erratum in: N Engl J Med. 2012 Feb 16;366(7):672. Orange, Jordan M [corrected to Orange, Jordan S]. N Engl J Med. 2010 Sep 2;363(10):994.



The type I diabetes association of the IL2RA locus.
Qu HQ, Bradfield JP, Bélisle A, Grant SF, Hakonarson H, Polychronakos C; Type I Diabetes Genetics Consortium.
Genes Immun. 2009 Dec;10 Suppl 1:S42-8. doi: 10.1038/gene.2009.90.



Remapping the type I diabetes association of the CTLA4 locus.
Qu HQ, Bradfield JP, Grant SF, Hakonarson H, Polychronakos C; Type I Diabetes Genetics Consortium.
Genes Immun. 2009 Dec;10 Suppl 1:S27-32. doi: 10.1038/gene.2009.88.



Examination of all type 2 diabetes GWAS loci reveals HHEX-IDE as a locus influencing pediatric BMI.
Zhao J, Bradfield JP, Zhang H, Annaiah K, Wang K, Kim CE, Glessner JT, Frackelton EC, Otieno FG, Doran J, Thomas KA, Garris M, Hou C, Chiavacci RM, Li M, Berkowitz RI, Hakonarson H, Grant SF.
Diabetes. 2010 Mar;59(3):751-5. doi: 10.2337/db09-0972. Epub 2009 Nov 23.



Common variants at five new loci associated with early-onset inflammatory bowel disease.
Imielinski M, Baldassano RN, Griffiths A, Russell RK, Annese V, Dubinsky M, Kugathasan S, Bradfield JP, Walters TD, Sleiman P, Kim CE, Muise A, Wang K, Glessner JT, Saeed S, Zhang H, Frackelton EC, Hou C, Flory JH, Otieno G, Chiavacci RM, Grundmeier R, et al.
Nat Genet. 2009 Dec;41(12):1335-40. doi: 10.1038/ng.489. Epub 2009 Nov 15.



From disease association to risk assessment: an optimistic view from genome-wide association studies on type 1 diabetes.
Wei Z, Wang K, Qu HQ, Zhang H, Bradfield J, Kim C, Frackleton E, Hou C, Glessner JT, Chiavacci R, Stanley C, Monos D, Grant SF, Polychronakos C, Hakonarson H.
PLoS Genet. 2009 Oct;5(10):e1000678. doi: 10.1371/journal.pgen.1000678. Epub 2009 Oct 9.



17q12-21 variants interact with smoke exposure as a risk factor for pediatric asthma but are equally associated with early-onset versus late-onset asthma in North Americans of European ancestry.
Flory JH, Sleiman PM, Christie JD, Annaiah K, Bradfield J, Kim CE, Glessner J, Imielinski M, Li H, Frackelton EC, Cuiping H, Otieno G, Thomas K, Smith R, Glaberson W, Garris M, Chiavacci R, Allen J, Spergel J, Grundmeier R, Grunstein M, Magnusson M, et al.
J Allergy Clin Immunol. 2009 Sep;124(3):605-7. doi: 10.1016/j.jaci.2009.05.047. Epub 2009 Aug 5. No abstract available.



A genome-wide association study identifies a locus for nonsyndromic cleft lip with or without cleft palate on 8q24.
Grant SF, Wang K, Zhang H, Glaberson W, Annaiah K, Kim CE, Bradfield JP, Glessner JT, Thomas KA, Garris M, Frackelton EC, Otieno FG, Chiavacci RM, Nah HD, Kirschner RE, Hakonarson H.
J Pediatr. 2009 Dec;155(6):909-13. doi: 10.1016/j.jpeds.2009.06.020. Epub 2009 Aug 4.



High-resolution mapping and analysis of copy number variations in the human genome: a data resource for clinical and research applications.
Shaikh TH, Gai X, Perin JC, Glessner JT, Xie H, Murphy K, O'Hara R, Casalunovo T, Conlin LK, D'Arcy M, Frackelton EC, Geiger EA, Haldeman-Englert C, Imielinski M, Kim CE, Medne L, Annaiah K, Bradfield JP, Dabaghyan E, Eckert A, Onyiah CC, Ostapenko S, et al.
Genome Res. 2009 Sep;19(9):1682-90. doi: 10.1101/gr.083501.108. Epub 2009 Jul 10.



Examination of type 2 diabetes loci implicates CDKAL1 as a birth weight gene.
Zhao J, Li M, Bradfield JP, Wang K, Zhang H, Sleiman P, Kim CE, Annaiah K, Glaberson W, Glessner JT, Otieno FG, Thomas KA, Garris M, Hou C, Frackelton EC, Chiavacci RM, Berkowitz RI, Hakonarson H, Grant SF.
Diabetes. 2009 Oct;58(10):2414-8. doi: 10.2337/db09-0506. Epub 2009 Jul 10.



Genome-wide analyses of exonic copy number variants in a family-based study point to novel autism susceptibility genes.
Bucan M, Abrahams BS, Wang K, Glessner JT, Herman EI, Sonnenblick LI, Alvarez Retuerto AI, Imielinski M, Hadley D, Bradfield JP, Kim C, Gidaya NB, Lindquist I, Hutman T, Sigman M, Kustanovich V, Lajonchere CM, Singleton A, Kim J, Wassink TH, McMahon WM, Owley T, et al.
PLoS Genet. 2009 Jun;5(6):e1000536. doi: 10.1371/journal.pgen.1000536. Epub 2009 Jun 26.



Copy number variation at 1q21.1 associated with neuroblastoma.
Diskin SJ, Hou C, Glessner JT, Attiyeh EF, Laudenslager M, Bosse K, Cole K, Mossé YP, Wood A, Lynch JE, Pecor K, Diamond M, Winter C, Wang K, Kim C, Geiger EA, McGrady PW, Blakemore AI, London WB, Shaikh TH, Bradfield J, Grant SF, et al.
Nature. 2009 Jun 18;459(7249):987-91. doi: 10.1038/nature08035.



The role of obesity-associated loci identified in genome-wide association studies in the determination of pediatric BMI.
Zhao J, Bradfield JP, Li M, Wang K, Zhang H, Kim CE, Annaiah K, Glessner JT, Thomas K, Garris M, Frackelton EC, Otieno FG, Shaner JL, Smith RM, Chiavacci RM, Berkowitz RI, Hakonarson H, Grant SF.
Obesity (Silver Spring). 2009 Dec;17(12):2254-7. doi: 10.1038/oby.2009.159. Epub 2009 May 28.



Association of RASGRP1 with type 1 diabetes is revealed by combined follow-up of two genome-wide studies.
Qu HQ, Grant SF, Bradfield JP, Kim C, Frackelton E, Hakonarson H, Polychronakos C.
J Med Genet. 2009 Aug;46(8):553-4. doi: 10.1136/jmg.2009.067140. Epub 2009 May 21.



Common variations in BARD1 influence susceptibility to high-risk neuroblastoma.
Capasso M, Devoto M, Hou C, Asgharzadeh S, Glessner JT, Attiyeh EF, Mosse YP, Kim C, Diskin SJ, Cole KA, Bosse K, Diamond M, Laudenslager M, Winter C, Bradfield JP, Scott RH, Jagannathan J, Garris M, McConville C, London WB, Seeger RC, Grant SF, et al.
Nat Genet. 2009 Jun;41(6):718-23. doi: 10.1038/ng.374. Epub 2009 May 3.



Autism genome-wide copy number variation reveals ubiquitin and neuronal genes.
Glessner JT, Wang K, Cai G, Korvatska O, Kim CE, Wood S, Zhang H, Estes A, Brune CW, Bradfield JP, Imielinski M, Frackelton EC, Reichert J, Crawford EL, Munson J, Sleiman PM, Chiavacci R, Annaiah K, Thomas K, Hou C, Glaberson W, Flory J, et al.
Nature. 2009 May 28;459(7246):569-73. doi: 10.1038/nature07953. Epub 2009 Apr 28.



Common genetic variants on 5p14.1 associate with autism spectrum disorders.
Wang K, Zhang H, Ma D, Bucan M, Glessner JT, Abrahams BS, Salyakina D, Imielinski M, Bradfield JP, Sleiman PM, Kim CE, Hou C, Frackelton E, Chiavacci R, Takahashi N, Sakurai T, Rappaport E, Lajonchere CM, Munson J, Estes A, Korvatska O, Piven J, et al.
Nature. 2009 May 28;459(7246):528-33. doi: 10.1038/nature07999. Epub 2009 Apr 28.



Investigation of the locus near MC4R with childhood obesity in Americans of European and African ancestry.
Grant SF, Bradfield JP, Zhang H, Wang K, Kim CE, Annaiah K, Santa E, Glessner JT, Thomas K, Garris M, Frackelton EC, Otieno FG, Shaner JL, Smith RM, Imielinski M, Chiavacci RM, Li M, Berkowitz RI, Hakonarson H.
Obesity (Silver Spring). 2009 Jul;17(7):1461-5. doi: 10.1038/oby.2009.53. Epub 2009 Mar 5.



Diverse genome-wide association studies associate the IL12/IL23 pathway with Crohn Disease.
Wang K, Zhang H, Kugathasan S, Annese V, Bradfield JP, Russell RK, Sleiman PM, Imielinski M, Glessner J, Hou C, Wilson DC, Walters T, Kim C, Frackelton EC, Lionetti P, Barabino A, Van Limbergen J, Guthery S, Denson L, Piccoli D, Li M, Dubinsky M, et al.
Am J Hum Genet. 2009 Mar;84(3):399-405. doi: 10.1016/j.ajhg.2009.01.026. Epub 2009 Feb 26.



Association of the BANK 1 R61H variant with systemic lupus erythematosus in Americans of European and African ancestry.
Grant SF, Petri M, Bradfield JP, Kim CE, Santa E, Annaiah K, Frackelton EC, Glessner JT, Otieno FG, Shaner JL, Smith RM, Eckert AW, Chiavacci RM, Imielinski M, Sullivan KE, Hakonarson H.
Appl Clin Genet. 2009 Dec 9;2:1-5. Print 2009.



Follow-up analysis of genome-wide association data identifies novel loci for type 1 diabetes.
Grant SF, Qu HQ, Bradfield JP, Marchand L, Kim CE, Glessner JT, Grabs R, Taback SP, Frackelton EC, Eckert AW, Annaiah K, Lawson ML, Otieno FG, Santa E, Shaner JL, Smith RM, Skraban R, Imielinski M, Chiavacci RM, Grundmeier RW, Stanley CA, Kirsch SE, et al.
Diabetes. 2009 Jan;58(1):290-5. doi: 10.2337/db08-1022. Epub 2008 Oct 7.



ORMDL3 variants associated with asthma susceptibility in North Americans of European ancestry.
Sleiman PM, Annaiah K, Imielinski M, Bradfield JP, Kim CE, Frackelton EC, Glessner JT, Eckert AW, Otieno FG, Santa E, Thomas K, Smith RM, Glaberson W, Garris M, Gunnlaugsson S, Chiavacci RM, Allen J, Spergel J, Grundmeier R, Grunstein MM, Magnusson M, Bisgaard H, et al.
J Allergy Clin Immunol. 2008 Dec;122(6):1225-7. doi: 10.1016/j.jaci.2008.06.041. Epub 2008 Aug 28. No abstract available.



Association of the TRAF1-C5 locus on chromosome 9 with juvenile idiopathic arthritis.
Behrens EM, Finkel TH, Bradfield JP, Kim CE, Linton L, Casalunovo T, Frackelton EC, Santa E, Otieno FG, Glessner JT, Chiavacci RM, Grant SF, Hakonarson H.
Arthritis Rheum. 2008 Jul;58(7):2206-7. doi: 10.1002/art.23603. No abstract available.



Chromosome 6p22 locus associated with clinically aggressive neuroblastoma.
Maris JM, Mosse YP, Bradfield JP, Hou C, Monni S, Scott RH, Asgharzadeh S, Attiyeh EF, Diskin SJ, Laudenslager M, Winter C, Cole KA, Glessner JT, Kim C, Frackelton EC, Casalunovo T, Eckert AW, Capasso M, Rappaport EF, McConville C, London WB, Seeger RC, et al.
N Engl J Med. 2008 Jun 12;358(24):2585-93. doi: 10.1056/NEJMoa0708698. Epub 2008 May 7.



Association analysis of type 2 diabetes Loci in type 1 diabetes.
Qu HQ, Grant SF, Bradfield JP, Kim C, Frackelton E, Hakonarson H, Polychronakos C.
Diabetes. 2008 Jul;57(7):1983-6. doi: 10.2337/db08-0270. Epub 2008 Apr 21.



Association analysis of the FTO gene with obesity in children of Caucasian and African ancestry reveals a common tagging SNP.
Grant SF, Li M, Bradfield JP, Kim CE, Annaiah K, Santa E, Glessner JT, Casalunovo T, Frackelton EC, Otieno FG, Shaner JL, Smith RM, Imielinski M, Eckert AW, Chiavacci RM, Berkowitz RI, Hakonarson H.
PLoS One. 2008 Mar 12;3(3):e1746. doi: 10.1371/journal.pone.0001746.



A novel susceptibility locus for type 1 diabetes on Chr12q13 identified by a genome-wide association study.
Hakonarson H, Qu HQ, Bradfield JP, Marchand L, Kim CE, Glessner JT, Grabs R, Casalunovo T, Taback SP, Frackelton EC, Eckert AW, Annaiah K, Lawson ML, Otieno FG, Santa E, Shaner JL, Smith RM, Onyiah CC, Skraban R, Chiavacci RM, Robinson LJ, Stanley CA, et al.
Diabetes. 2008 Apr;57(4):1143-6. doi: 10.2337/db07-1305. Epub 2008 Jan 15.



Association of the T300A non-synonymous variant of the ATG16L1 gene with susceptibility to paediatric Crohn's disease.
Baldassano RN, Bradfield JP, Monos DS, Kim CE, Glessner JT, Casalunovo T, Frackelton EC, Otieno FG, Kanterakis S, Shaner JL, Smith RM, Eckert AW, Robinson LJ, Onyiah CC, Abrams DJ, Chiavacci RM, Skraban R, Devoto M, Grant SF, Hakonarson H.
Gut. 2007 Aug;56(8):1171-3. No abstract available.



Association of variants of the interleukin-23 receptor gene with susceptibility to pediatric Crohn's disease.
Baldassano RN, Bradfield JP, Monos DS, Kim CE, Glessner JT, Casalunovo T, Frackelton EC, Otieno FG, Kanterakis S, Shaner JL, Smith RM, Eckert AW, Robinson LJ, Onyiah CC, Abrams DJ, Chiavacci RM, Skraban R, Devoto M, Grant SF, Hakonarson H.
Clin Gastroenterol Hepatol. 2007 Aug;5(8):972-6. Epub 2007 Jul 6.



Profiling of genes expressed in peripheral blood mononuclear cells predicts glucocorticoid sensitivity in asthma patients.
Hakonarson H, Bjornsdottir US, Halapi E, Bradfield J, Zink F, Mouy M, Helgadottir H, Gudmundsdottir AS, Andrason H, Adalsteinsdottir AE, Kristjansson K, Birkisson I, Arnason T, Andresdottir M, Gislason D, Gislason T, Gulcher JR, Stefansson K.
Proc Natl Acad Sci U S A. 2005 Oct 11;102(41):14789-94. Epub 2005 Oct 3.