Spatial & Functional
Genomics Affinity Group

SFG Publications

The Genetic Contribution to Type 1 Diabetes.

Bakay M1, Pandey R1, Grant SFA1,2,3,4, Hakonarson H5,6.

 

Curr Diab Rep. 2019 Nov 4;19(11):116.

doi: 10.1007/s11892-019-1235-1.

PMID: 31686270

Associations of autozygosity with a broad range of human phenotypes.

Clark DW1, Okada Y2,3,4, Moore KHS5, Mason D6, Pirastu N1, Gandin I7,8, Mattsson H9,10, Barnes CLK1, Lin K11, Zhao JH12,13, Deelen P14, Rohde R15, Schurmann C16, Guo X17, Giulianini F18, Zhang W19,20, Medina-Gomez C21,22,23, Karlsson R24, Bao Y25, Bartz TM26, Baumbach C27, Biino G28, Bixley MJ29, Brumat M8, Chai JF30, Corre T31,32,33, Cousminer DL34,35, Dekker AM36, Eccles DA37,38, van Eijk KR36, Fuchsberger C39, Gao H19,40, Germain M41,42, Gordon SD43, de Haan HG44, Harris SE45,46, Hofer E47,48, Huerta-Chagoya A49, Igartua C50, Jansen IE51,52, Jia Y17, Kacprowski T53,54, Karlsson T55, Kleber ME56, Li SA57, Li-Gao R44, Mahajan A58, Matsuda K59, Meidtner K60,61, Meng W62, Montasser ME63,64, van der Most PJ65, Munz M66,67,68,69, Nutile T70, Palviainen T71, Prasad G72, Prasad RB73, Priyanka TDS74, Rizzi F75,76, Salvi E76,77, Sapkota BR78, Shriner D79, Skotte L80, Smart MC25, Smith AV81,82, van der Spek A22, Spracklen CN83, Strawbridge RJ84,85, Tajuddin SM86, Trompet S87,88, Turman C89,90, Verweij N91, Viberti C92, Wang L93, Warren HR94,95, Wootton RE96,97, Yanek LR98, Yao J17, Yousri NA99,100, Zhao W101, Adeyemo AA79, Afaq S19, Aguilar-Salinas CA102,103, Akiyama M3,104, Albert ML105,106,107,108, Allison MA109, Alver M110, Aung T111,112,113, Azizi F114, Bentley AR79, Boeing H115, Boerwinkle E116, Borja JB117, de Borst GJ118, Bottinger EP16,119, Broer L21, Campbell H1, Chanock S120, Chee ML111, Chen G79, Chen YI17, Chen Z11, Chiu YF121, Cocca M122, Collins FS123, Concas MP122, Corley J45,124, Cugliari G92, van Dam RM30,125,126, Damulina A47, Daneshpour MS127, Day FR12, Delgado GE56, Dhana K22,126,128, Doney ASF129, Dörr M130,131, Doumatey AP79, Dzimiri N132, Ebenesersdóttir SS5,133, Elliott J19, Elliott P19,40,134,135,136, Ewert R130, Felix JF22,23,137, Fischer K110, Freedman BI138, Girotto G8,139, Goel A58,140, Gögele M39, Goodarzi MO141, Graff M15, Granot-Hershkovitz E142, Grodstein F89, Guarrera S92, Gudbjartsson DF5,143, Guity K127, Gunnarsson B5, Guo Y144, Hagenaars SP45,124,145, Haiman CA146, Halevy A142, Harris TB86, Hedayati M127, van Heel DA147, Hirata M148, Höfer I149, Hsiung CA121, Huang J150, Hung YJ151,152, Ikram MA22, Jagadeesan A5,133, Jousilahti P153, Kamatani Y3,154, Kanai M2,3,155, Kerrison ND12, Kessler T156, Khaw KT157, Khor CC111,158, de Kleijn DPV118, Koh WP30,159, Kolcic I160, Kraft P126, Krämer BK56, Kutalik Z32,33, Kuusisto J161,162, Langenberg C12, Launer LJ86, Lawlor DA96,163,164, Lee IT165,166,167, Lee WJ168, Lerch MM169, Li L170, Liu J125,158, Loh M19,171,172, London SJ173, Loomis S174, Lu Y16, Luan J12, Mägi R110, Manichaikul AW175, Manunta P176, Másson G5, Matoba N3, Mei XW11, Meisinger C177, Meitinger T178,179,180, Mezzavilla M139, Milani L181, Millwood IY11, Momozawa Y182, Moore A120, Morange PE183,184, Moreno-Macías H185, Mori TA186, Morrison AC187, Muka T22,188, Murakami Y189, Murray AD190, de Mutsert R44, Mychaleckyj JC175, Nalls MA191,192, Nauck M131,193, Neville MJ194,195, Nolte IM65, Ong KK12,196, Orozco L197, Padmanabhan S198, Pálsson G5, Pankow JS199, Pattaro C39, Pattie A124, Polasek O160,200, Poulter N201,202, Pramstaller PP39, Quintana-Murci L203,204,205, Räikkönen K206, Ralhan S207, Rao DC208, van Rheenen W36, Rich SS175, Ridker PM18,209, Rietveld CA210,211, Robino A122, van Rooij FJA22, Ruggiero D70,212, Saba Y213, Sabanayagam C111,112,113, Sabater-Lleal M85,214, Sala CF215, Salomaa V216, Sandow K17, Schmidt H213, Scott LJ217, Scott WR19, Sedaghati-Khayat B127, Sennblad B85,218, van Setten J219, Sever PJ201, Sheu WH152,165,220,221, Shi Y111, Shrestha S74,222, Shukla SR223,224, Sigurdsson JK5, Sikka TT110, Singh JR225, Smith BH226, Stančáková A161, Stanton A227, Starr JM45,228, Stefansdottir L5, Straker L229, Sulem P5, Sveinbjornsson G5, Swertz MA14, Taylor AM124, Taylor KD17, Terzikhan N22,230, Tham YC111,112, Thorleifsson G5, Thorsteinsdottir U5,82, Tillander A24, Tracy RP231, Tusié-Luna T232,233, Tzoulaki I19,40,234, Vaccargiu S235, Vangipurapu J161, Veldink JH36, Vitart V236, Völker U53,131, Vuoksimaa E237, Wakil SM132, Waldenberger M27, Wander GS238, Wang YX239, Wareham NJ12, Wild S240, Yajnik CS241, Yuan JM242, Zeng L156, Zhang L111, Zhou J79, Amin N22, Asselbergs FW243,244,245,246, Bakker SJL247, Becker DM98, Lehne B19, Bennett DA248,249, van den Berg LH36, Berndt SI120, Bharadwaj D250, Bielak LF101, Bochud M32, Boehnke M217, Bouchard C251, Bradfield JP252,253, Brody JA254, Campbell A46, Carmi S142, Caulfield MJ94,95, Cesarini D255,256, Chambers JC19,20,40,257,258, Chandak GR74, Cheng CY111,112,113, Ciullo M70,212, Cornelis M259, Cusi D76,260,261, Smith GD96,164, Deary IJ45,124, Dorajoo R158, van Duijn CM11,22, Ellinghaus D262, Erdmann J66, Eriksson JG263,264,265,266,267, Evangelou E19,234, Evans MK86, Faul JD268, Feenstra B80, Feitosa M93, Foisy S269, Franke A262, Friedlander Y142, Gasparini P8,139, Gieger C27,61, Gonzalez C270, Goyette P269, Grant SFA35,252,271, Griffiths LR37, Groop L71,73, Gudnason V81,82, Gyllensten U55, Hakonarson H252,271, Hamsten A272, van der Harst P91, Heng CK273,274, Hicks AA39, Hochner H142, Huikuri H275, Hunt SC99,276, Jaddoe VWV22,23,137, De Jager PL277,278, Johannesson M279, Johansson Å55, Jonas JB239,280, Jukema JW87, Junttila J275, Kaprio J71,281, Kardia SLR101, Karpe F194,282, Kumari M25, Laakso M161,162, van der Laan SW283, Lahti J206,284, Laudes M285, Lea RA37, Lieb W286, Lumley T287, Martin NG43, März W56,288,289, Matullo G92, McCarthy MI58,194,282, Medland SE43, Merriman TR29, Metspalu A110, Meyer BF290, Mohlke KL83, Montgomery GW43,291, Mook-Kanamori D44,292, Munroe PB94,95, North KE15, Nyholt DR43,293, O'connell JR63,64, Ober C50, Oldehinkel AJ294, Palmas W295, Palmer C296, Pasterkamp GG149, Patin E203,204,205, Pennell CE297,298, Perusse L299,300, Peyser PA101, Pirastu M301, Polderman TJC51, Porteous DJ45,46, Posthuma D51,302, Psaty BM303,304, Rioux JD269,305, Rivadeneira F21,22,23, Rotimi C79, Rotter JI17, Rudan I1, Den Ruijter HM306, Sanghera DK78,307, Sattar N198, Schmidt R47, Schulze MB60,61,308, Schunkert H156,309, Scott RA12, Shuldiner AR63,64,310, Sim X30, Small N311, Smith JA101,268, Sotoodehnia N312, Tai ES30,125,313, Teumer A131,314, Timpson NJ96,315,316, Toniolo D215, Tregouet DA41, Tuomi T10,317,318,319, Vollenweider P320, Wang CA297,298, Weir DR268, Whitfield JB43, Wijmenga C14, Wong TY111,112, Wright J6, Yang J248,249, Yu L248,249, Zemel BS271,321, Zonderman AB86, Perola M322, Magnusson PKE24, Uitterlinden AG21,22,23, Kooner JS20,40,258,323, Chasman DI18,209, Loos RJF16,324, Franceschini N15, Franke L14, Haley CS236,325, Hayward C236, Walters RG11, Perry JRB12, Esko T110,326, Helgason A5,133, Stefansson K5,82, Joshi PK1, Kubo M182, Wilson JF327,328.

 

Nat Commun. 2019 Oct 31;10(1):4957.

doi: 10.1038/s41467-019-12283-6.

PMID: 31673082

GWAS on longitudinal growth traits reveals different genetic factors influencing infant, child, and adult BMI

Alexessander Couto Alves1,2,*, N. Maneka G. De Silva1,*, Ville Karhunen1, Ulla Sovio3,4, Shikta Das1,5, H. Rob Taal6,7, Nicole M. Warrington8,9, Alexandra M. Lewin1,10, Marika Kaakinen11,12,13, Diana L. Cousminer14,15,16, Elisabeth Thiering17,18, Nicholas J. Timpson19,20, Tom A. Bond1, Estelle Lowry21, Christopher D. Brown22, Xavier Estivill23,24,25,26, Virpi Lindi15, Jonathan P. Bradfield28, Frank Geller29, Doug Speed30,31, Lachlan J. M. Coin1,32, Marie Loh1,21,33, Sheila J. Barton34,35, Lawrence J. Beilin36, Hans Bisgaard37, Klaus Bønnelykke37, Rohia Alili38, Ida J. Hatoum38,39,40, Katharina Schramm41,42, Rufus Cartwright1,43, Marie-Aline Charles44, Vincenzo Salerno1, Karine Clément38,44, Annique A. J. Claringbould45, BIOS Consortium, Cornelia M. van Duijn46, Elena Moltchanova47, Johan G. Eriksson48,49,50, Cathy Elks51, Bjarke Feenstra29, Claudia Flexeder17, Stephen Franks43, Timothy M. Frayling52, Rachel M. Freathy52, Paul Elliott1,53,54, Elisabeth Widén16, Hakon Hakonarson14,28,55,56, Andrew T. Hattersley52, Alina Rodriguez1,57, Marco Banterle10, Joachim Heinrich17, Barbara Heude44, John W. Holloway58, Albert Hofman6,46, Elina Hyppönen59,60,61, Hazel Inskip34,62, Lee M. Kaplan39,40, Asa K. Hedman63,64, Esa Läärä65, Holger Prokisch41,42, Harald Grallert66,67, Timo A. Lakka15,68,69, Debbie A. Lawlor19,20, Mads Melbye29,70,71, Tarunveer S. Ahluwalia37, Marcella Marinelli25,26,72, Iona Y. Millwood73,74, Lyle J. Palmer75, Craig E. Pennell8, John R. Perry51, Susan M. Ring19,20,76, Markku J. Savolainen77, Fernando Rivadeneira46,78, Marie Standl17, Jordi Sunyer24,25,26,72, Carla M. T. Tiesler17,18, Andre G. Uitterlinden46,78, William Schierding79, Justin M. O’Sullivan79,80, Inga Prokopenko11,13,63,81, Karl-Heinz Herzig82,83,84,85, George Davey Smith19,20, Paul O'Reilly1,86, Janine F. Felix6,7,46, Jessica L. Buxton87, Alexandra I. F. Blakemore88,89, Ken K. Ong51, Vincent W. V. Jaddoe6,46,†, Struan F. A. Grant14,28,55,56,†,‡, Sylvain Sebert1,21,82,†,‡, Mark I. McCarthy63,81,90,†,‡,§, Marjo-Riitta Järvelin1,21,82,84,88,91,†,‡, Early Growth Genetics (EGG) Consortium

 

Science Advances  04 Sep 2019:
Vol. 5, no. 9, eaaw3095
DOI: 10.1126/sciadv.aaw3095

PMID: https://advances.sciencemag.org/content/5/9/eaaw3095

Variants in the fetal genome near pro-inflammatory cytokine genes on 2q13 associate with gestational duration.

Liu X1, Helenius D2,3, Skotte L1, Beaumont RN4, Wielscher M5, Geller F1, Juodakis J6, Mahajan A7, Bradfield JP8,9, Lin FTJ10, Vogelezang S11,12,13, Bustamante M14,15,16, Ahluwalia TS17, Pitkänen N18, Wang CA19, Bacelis J20, Borges MC21,22, Zhang G23,24,25, Bedell BA26, Rossi RM25,27, Skogstrand K2,28, Peng S29,30, Thompson WK2,3, Appadurai V2,3, Lawlor DA21,22,31, Kalliala I32,33, Power C34, McCarthy MI7,35,36, Boyd HA1, Marazita ML37,38, Hakonarson H8,39,40, Hayes MG10,41,42, Scholtens DM43, Rivadeneira F11,13,44, Jaddoe VWV11,12,13, Vinding RK17, Bisgaard H17, Knight BA45, Pahkala K18,46, Raitakari O18,47, Helgeland Ø48,49,50, Johansson S48,51, Njølstad PR48,49, Fadista J1,52, Schork AJ2,3, Nudel R2,3, Miller DE53, Chen X53, Weirauch MT27,53,54, Mortensen PB2,55,56, Børglum AD2,56,57, Nordentoft M2,58,59, Mors O2,60, Hao K29,30, Ryckman KK26,61, Hougaard DM2,28, Kottyan LC27,53, Pennell CE19, Lyytikainen LP62,63, Bønnelykke K17, Vrijheid M14,15,16, Felix JF11,12,13, Lowe WL Jr10, Grant SFA8,39,40, Hyppönen E34,64,65, Jacobsson B6,66, Jarvelin MR67,68, Muglia LJ23,24,26,27, Murray JC26, Freathy RM4,69, Werge TM2,3,59, Melbye M1,59,70, Buil A2,3, Feenstra B71.

 

Nat Commun. 2019 Sep 2;10(1):3927.

doi: 10.1038/s41467-019-11881-8.

PMID: 31477735

The TCF7L2 Locus: A Genetic Window Into the Pathogenesis of Type 1 and Type 2 Diabetes.

PMID: 31409726

A Trans-ancestral Meta-Analysis of Genome-Wide Association Studies Reveals Loci Associated with Childhood Obesity

Jonathan P Bradfield,  Suzanne Vogelezang,  Janine F Felix,  Alessandra Chesi, Øyvind Helgeland,  Momoko Horikoshi,  Ville Karhunen,  Estelle Lowry,  Diana L Cousminer, Tarunveer S Ahluwalia,  Elisabeth Thiering,  Eileen Tai-Hui Boh,  Mohammad H Zafarmand, Natalia Vilor-Tejedor,  Carol A Wang,  Raimo Joro,  Zhanghua Chen,  William J Gauderman, Niina Pitkänen,  Esteban J Parra,  Lindsay Fernandez-Rhodes,  Akram Alyass, Claire Monnereau,  John A Curtin,  Christian T Have,  Shana E McCormack, Mette Hollensted,  Christine Frithioff-Bøjsøe,  Adan Valladares-Salgado, Jesus Peralta-Romero,  Yik-Ying Teo,  Marie Standl,  Jaakko T Leinonen, Jens-Christian Holm,  Triinu Peters,  Jesus Vioque,  Martine Vrijheid,  Angela Simpson, Adnan Custovic,  Marc Vaudel,  Mickaël Canouil,  Virpi Lindi,  Mustafa Atalay,  Mika Kähönen, Olli T Raitakari,  Barbera D C van Schaik,  Robert I Berkowitz,  Shelley A Cole, V Saroja Voruganti,  Yujie Wang,  Heather M Highland,  Anthony G Comuzzie,  Nancy F Butte, Anne E Justice,  Sheila Gahagan,  Estela Blanco,  Terho Lehtimäki,  Timo A Lakka, Johannes Hebebrand,  Amélie Bonnefond,  Niels Grarup,  Philippe Froguel, Leo-Pekka Lyytikäinen,  Miguel Cruz,  Sayuko Kobes,  Robert L Hanson,  Babette S Zemel, Anke Hinney,  Koon K Teo,  David Meyre,  Kari E North,  Frank D Gilliland,  Hans Bisgaard, Mariona Bustamante,  Klaus Bonnelykke,  Craig E Pennell,  Fernando Rivadeneira, André G Uitterlinden,  Leslie J Baier,  Tanja G M Vrijkotte,  Joachim Heinrich, Thorkild I A Sørensen,  Seang-Mei Saw,  Oluf Pedersen,  Torben Hansen,  Johan Eriksson, Elisabeth Widén,  Mark I McCarthy,  Pål R Njølstad,  Christine Power,  Elina Hyppönen, Sylvain Sebert,  Christopher D Brown,  Marjo-Riitta Järvelin,  Nicholas J Timpson, Stefan Johansson,  Hakon Hakonarson,  Vincent W V Jaddoe,  Struan F A Grant, for the Early Growth Genetics Consortium

 

Human Molecular Genetics, ddz161, 05 July 2019.

PMID: LINK

Genetic and Epigenetic Fine Mapping of Complex Trait Associated Loci in the Human Liver.

Çalışkan M, Manduchi E, Rao HS, Segert JA, Beltrame MH, Trizzino M, Park Y, Baker SW, Chesi A, Johnson ME, Hodge KM, Leonard ME, Loza B, Xin D, Berrido AM, Hand NJ, Bauer RC, Wells AD, Olthoff KM, Shaked A, Rader DJ, Grant SFA, Brown CD.

Am J Hum Genet. 2019 Jul 3;105(1):89-107.

PMID: 31204013

Childhood sleep duration modifies the polygenic risk for obesity in youth through leptin pathway: the Beijing Child and Adolescent Metabolic Syndrome cohort study.

Fu J, Wang Y, Li G, Han L, Li Y, Li L, Feng D, Wu Y, Xiao X, Li M, Grant SFA, Li M, Gao S.

International Journal of Obesity, volume 43, pages1556–1567 (2019)

PMID: 31285522

Intersections and clinical translations of diabetes mellitus with cancer promotion, progression and prognosis.

Schwartz SS, Grant SFA, Herman ME.

Postgraduate Medicine, 2019.

PMID: 31419922

T follicular helper cells in human efferent lymph retain lymphoid characteristics

Vella LA, Buggert M, Manne S, Herati RS, Sayin I, Kuri-Cervantes L, Bukh Brody I, O'Boyle KC, Kaprielian H, Giles JR, Nguyen S, Muselman A, Antel JP, Bar-Or A, Johnson ME, Canaday DH, Naji A, Ganusov VV, Laufer TM, Wells AD, Dori Y, Itkin MG, Betts MR, Wherry EJ.

J Clin Invest. 2019;129(8):3185–3200.

PMID: 31264971

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