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1. Large-scale sequencing identifies multiple genes and rare variants associated with Crohn’s disease susceptibility

Author: Sazonovs, A., Stevens, C.R., Venkataraman, G.R., Yuan, K., Avila, B., Abreu, M.T., Ahmad, T., Allez, M., Ananthakrishnan, A.N., Atzmon, G., Baras, A., Barrett, J.C., Barzilai, N., Beaugerie, L., Beecham, A., Bernstein, C.N., Bitton, A., Bokemeyer, B., Chan, A., Chung, D., Cleynen, I., Cosnes, J., Cutler, D.J., Daly, A., Damas, O.M., Datta, L.W., Dawany, N., Devoto, M., Dodge, S., Ellinghaus, E., Fachal, L., Farkkila, M., Faubion, W., Ferreira, M., Franchimont, D., Gabriel, S.B., Ge, T., Georges, M., Gettler, K., Giri, M., Glaser, B., Goerg, S., Goyette, P., Graham, D., Hamalainen, E., Haritunians, T., Heap, G.A., Hiltunen, M., Hoeppner, M., Horowitz, J.E., Irving, P., Iyer, V., Jalas, C., Kelsen, J., Khalili, H., Kirschner, B.S., Kontula, K., Koskela, J.T., Kugathasan, S., Kupcinskas, J., Lamb, C.A., Laudes, M., Levesque, C., Levine, A.P., Lewis, J.D., Liefferinckx, C., Loescher, B.S., Louis, E., Mansfield, J., May, S., McCauley, J.L., Mengesha, E., Mni, M., Moayyedi, P., Moran, C.J., Newberry, R.D., O'Charoen, S., Okou, D.T., Oldenburg, B., Ostrer, H., Palotie, A., Paquette, J., Pekow, J., Peter, I., Pierik, M.J., Ponsioen, C.Y., Pontikos, N., Prescott, N., Pulver, A.E., Rahmouni, S., Rice, D.L., Saavalainen, P., Sands, B., Sartor, R.B., Schiff, E.R., Schreiber, S., Schumm, L.P., Segal, A.W., Seksik, P., Shawky, R., Sheikh, S.Z., Silverberg, M.S., Simmons, A., Skeiceviciene, J., Sokol, H., Solomonson, M., Somineni, H., Sun, D., Targan, S., Turner, D., Uhlig, H.H., Meulen, A.E. van der, Vermeire, S., Verstockt, S., Voskuil, M.D., Winter, H.S., Young, J., Duerr, R.H., Franke, A., Brant, S.R., Cho, J., Weersma, R.K., Parkes, M., Xavier, R.J., Rivas, M.A., Rioux, J.D., McGovern, D.P.B., Huang, H.L., Anderson, C.A., Daly, M.J., Belgium IBD Consortium, Cedars-Sinai IBD, International IBD Genetics Consortium, NIDDK IBD Genetics Consortium, NIHR IBD BioResource, Regeneron Genetics Center, SHARE Consortium, SPARC IBD Network, UK IBD Genetics Consortium, Interne Geneeskunde, MUMC+: MA Maag Darm Lever (9), RS: NUTRIM - R2 - Liver and digestive health, Gastroenterology and Hepatology, AGEM - Amsterdam Gastroenterology Endocrinology Metabolism, and Groningen Institute for Gastro Intestinal Genetics and Immunology (3GI)
Subjects: Crohn Disease, Genetics, Humans, Genetic Predisposition to Disease, Polymorphism, Single Nucleotide, Article, Genome-Wide Association Study
Abstract: Genome-wide association studies (GWASs) have identified hundreds of loci associated with Crohn's disease (CD). However, as with all complex diseases, robust identification of the genes dysregulated by noncoding variants typically driving GWAS discoveries has been challenging. Here, to complement GWASs and better define actionable biological targets, we analyzed sequence data from more than 30,000 patients with CD and 80,000 population controls. We directly implicate ten genes in general onset CD for the first time to our knowledge via association to coding variation, four of which lie within established CD GWAS loci. In nine instances, a single coding variant is significantly associated, and in the tenth, ATG4C, we see additionally a significantly increased burden of very rare coding variants in CD cases. In addition to reiterating the central role of innate and adaptive immune cells as well as autophagy in CD pathogenesis, these newly associated genes highlight the emerging role of mesenchymal cells in the development and maintenance of intestinal inflammation.Large-scale sequence-based analyses identify novel risk variants and susceptibility genes for Crohn's disease, and implicate mesenchymal cell-mediated intestinal homeostasis in disease etiology.
Published: 2022

2. Multi-ancestry genome-wide association study of gestational diabetes mellitus highlights genetic links with type 2 diabetes

Author: Pervjakova, N. (Natalia), Moen, G.-H. (Gunn-Helen), Borges, M.-C. (Maria-Carolina), Ferreira, T. (Teresa), Cook, J. P. (James P.), Allard, C. (Catherine), Beaumont, R. N. (Robin N.), Canouil, M. (Mickael), Hatem, G. (Gad), Heiskala, A. (Anni), Joensuu, A. (Anni), Karhunen, V. (Ville), Kwak, S. H. (Soo Heon), Lin, F. T. (Frederick T. J.), Liu, J. (Jun), Rifas-Shiman, S. (Sheryl), Tam, C. H. (Claudia H.), Tam, W. H. (Wing Hung), Thorleifsson, G. (Gudmar), Andrew, T. (Toby), Auvinen, J. (Juha), Bhowmik, B. (Bishwajit), Bonnefond, A. (Amelie), Delahaye, F. (Fabien), Demirkan, A. (Ayse), Froguel, P. (Philippe), Haller-Kikkatalo, K. (Kadri), Hardardottir, H. (Hildur), Hummel, S. (Sandra), Hussain, A. (Akhtar), Kajantie, E. (Eero), Keikkala, E. (Elina), Khamis, A. (Amna), Lahti, J. (Jari), Lekva, T. (Tove), Mustaniemi, S. (Sanna), Sommer, C. (Christine), Tagoma, A. (Aili), Tzala, E. (Evangelia), Uibo, R. (Raivo), Vääräsmäki, M. (Marja), Villa, P. M. (Pia M.), Birkeland, K. I. (Kare, I), Bouchard, L. (Luigi), Duijn, C. M. (Cornelia M.), Finer, S. (Sarah), Groop, L. (Leif), Hamalainen, E. (Esa), Hayes, G. M. (Geoffrey M.), Hitman, G. A. (Graham A.), Jang, H. C. (Hak C.), Järvelin, M.-R. (Marjo-Riitta), Jenum, A. K. (Anne Karen), Laivuori, H. (Hannele), Ma, R. C. (Ronald C.), Melander, O. (Olle), Oken, E. (Emily), Park, K. S. (Kyong Soo), Perron, P. (Patrice), Prasad, R. B. (Rashmi B.), Qvigstad, E. (Elisabeth), Sebert, S. (Sylvain), Stefansson, K. (Kari), Steinthorsdottir, V. (Valgerdur), Tuomi, T. (Tiinamaija), Hivert, M.-F. (Marie-France), Franks, P. W. (Paul W.), McCarthy, M. I. (Mark, I), Lindgren, C. M. (Cecilia M.), Freathy, R. M. (Rachel M.), Lawlor, D. A. (Deborah A.), Morris, A. P. (Andrew P.), Magi, R. (Reedik), Pervjakova, N. (Natalia), Moen, G.-H. (Gunn-Helen), Borges, M.-C. (Maria-Carolina), Ferreira, T. (Teresa), Cook, J. P. (James P.), Allard, C. (Catherine), Beaumont, R. N. (Robin N.), Canouil, M. (Mickael), Hatem, G. (Gad), Heiskala, A. (Anni), Joensuu, A. (Anni), Karhunen, V. (Ville), Kwak, S. H. (Soo Heon), Lin, F. T. (Frederick T. J.), Liu, J. (Jun), Rifas-Shiman, S. (Sheryl), Tam, C. H. (Claudia H.), Tam, W. H. (Wing Hung), Thorleifsson, G. (Gudmar), Andrew, T. (Toby), Auvinen, J. (Juha), Bhowmik, B. (Bishwajit), Bonnefond, A. (Amelie), Delahaye, F. (Fabien), Demirkan, A. (Ayse), Froguel, P. (Philippe), Haller-Kikkatalo, K. (Kadri), Hardardottir, H. (Hildur), Hummel, S. (Sandra), Hussain, A. (Akhtar), Kajantie, E. (Eero), Keikkala, E. (Elina), Khamis, A. (Amna), Lahti, J. (Jari), Lekva, T. (Tove), Mustaniemi, S. (Sanna), Sommer, C. (Christine), Tagoma, A. (Aili), Tzala, E. (Evangelia), Uibo, R. (Raivo), Vääräsmäki, M. (Marja), Villa, P. M. (Pia M.), Birkeland, K. I. (Kare, I), Bouchard, L. (Luigi), Duijn, C. M. (Cornelia M.), Finer, S. (Sarah), Groop, L. (Leif), Hamalainen, E. (Esa), Hayes, G. M. (Geoffrey M.), Hitman, G. A. (Graham A.), Jang, H. C. (Hak C.), Järvelin, M.-R. (Marjo-Riitta), Jenum, A. K. (Anne Karen), Laivuori, H. (Hannele), Ma, R. C. (Ronald C.), Melander, O. (Olle), Oken, E. (Emily), Park, K. S. (Kyong Soo), Perron, P. (Patrice), Prasad, R. B. (Rashmi B.), Qvigstad, E. (Elisabeth), Sebert, S. (Sylvain), Stefansson, K. (Kari), Steinthorsdottir, V. (Valgerdur), Tuomi, T. (Tiinamaija), Hivert, M.-F. (Marie-France), Franks, P. W. (Paul W.), McCarthy, M. I. (Mark, I), Lindgren, C. M. (Cecilia M.), Freathy, R. M. (Rachel M.), Lawlor, D. A. (Deborah A.), Morris, A. P. (Andrew P.), and Magi, R. (Reedik)
Abstract: Gestational diabetes mellitus (GDM) is associated with increased risk of pregnancy complications and adverse perinatal outcomes. GDM often reoccurs and is associated with increased risk of subsequent diagnosis of type 2 diabetes (T2D). To improve our understanding of the aetiological factors and molecular processes driving the occurrence of GDM, including the extent to which these overlap with T2D pathophysiology, the GENetics of Diabetes In Pregnancy Consortium assembled genome-wide association studies of diverse ancestry in a total of 5485 women with GDM and 347 856 without GDM. Through multi-ancestry meta-analysis, we identified five loci with genome-wide significant association (P < 5 x 10-8) with GDM, mapping to/near MTNR1B (P = 4.3 x 10-54), TCF7L2 (P = 4.0 x 10-16), CDKAL1 (P = 1.6 x 10-14), CDKN2A-CDKN2B (P = 4.1 x 10-9) and HKDC1 (P = 2.9 x 10-8). Multiple lines of evidence pointed to the shared pathophysiology of GDM and T2D: (i) four of the five GDM loci (not HKDC1) have been previously reported at genome-wide significance for T2D; (ii) significant enrichment for associations with GDM at previously reported T2D loci; (iii) strong genetic correlation between GDM and T2D and (iv) enrichment of GDM associations mapping to genomic annotations in diabetes-relevant tissues and transcription factor binding sites. Mendelian randomization analyses demonstrated significant causal association (5% false discovery rate) of higher body mass index on increased GDM risk. Our results provide support for the hypothesis that GDM and T2D are part of the same underlying pathology but that, as exemplified by the HKDC1 locus, there are genetic determinants of GDM that are specific to glucose regulation in pregnancy.
Published: 2022

3. Genetic identification of cell types underlying brain complex traits yields insights into the etiology of Parkinson’s disease

Author: Bryois, J. Skene, N.G. Hansen, T.F. Kogelman, L.J.A. Watson, H.J. Liu, Z. Adan, R. Alfredsson, L. Ando, T. Andreassen, O. Baker, J. Bergen, A. Berrettini, W. Birgegård, A. Boden, J. Boehm, I. Boni, C. Boraska Perica, V. Brandt, H. Breen, G. Bryois, J. Buehren, K. Bulik, C. Burghardt, R. Cassina, M. Cichon, S. Clementi, M. Coleman, J. Cone, R. Courtet, P. Crawford, S. Crow, S. Crowley, J. Danner, U. Davis, O. de Zwaan, M. Dedoussis, G. Degortes, D. DeSocio, J. Dick, D. Dikeos, D. Dina, C. Dmitrzak-Weglarz, M. Docampo Martinez, E. Duncan, L. Egberts, K. Ehrlich, S. Escaramís, G. Esko, T. Estivill, X. Farmer, A. Favaro, A. Fernández-Aranda, F. Fichter, M. Fischer, K. Föcker, M. Foretova, L. Forstner, A. Forzan, M. Franklin, C. Gallinger, S. Gaspar, H. Giegling, I. Giuranna, J. Giusti-Rodríquez, P. Gonidakis, F. Gordon, S. Gorwood, P. Gratacos Mayora, M. Grove, J. Guillaume, S. Guo, Y. Hakonarson, H. Halmi, K. Hanscombe, K. Hatzikotoulas, K. Hauser, J. Hebebrand, J. Helder, S. Henders, A. Herms, S. Herpertz-Dahlmann, B. Herzog, W. Hinney, A. Horwood, L.J. Hübel, C. Huckins, L. Hudson, J. Imgart, H. Inoko, H. Janout, V. Jiménez-Murcia, S. Johnson, C. Jordan, J. Julià, A. Juréus, A. Kalsi, G. Kaminská, D. Kaplan, A. Kaprio, J. Karhunen, L. Karwautz, A. Kas, M. Kaye, W. Kennedy, J. Kennedy, M. Keski-Rahkonen, A. Kiezebrink, K. Kim, Y.-R. Kirk, K. Klareskog, L. Klump, K. Knudsen, G.P. La Via, M. Landén, M. Larsen, J. Le Hellard, S. Leppä, V. Levitan, R. Li, D. Lichtenstein, P. Lilenfeld, L. Lin, B.D. Lissowska, J. Luykx, J. Magistretti, P. Maj, M. Mannik, K. Marsal, S. Marshall, C. Martin, N. Mattheisen, M. Mattingsdal, M. McDevitt, S. McGuffin, P. Medland, S. Metspalu, A. Meulenbelt, I. Micali, N. Mitchell, J. Mitchell, K. Monteleone, P. Monteleone, A.M. Montgomery, G. Mortensen, P.B. Munn-Chernoff, M. Nacmias, B. Navratilova, M. Norring, C. Ntalla, I. Olsen, C. Ophoff, R. O’Toole, J. Padyukov, L. Palotie, A. Pantel, J. Papezova, H. Parker, R. Pearson, J. Pedersen, N. Petersen, L. Pinto, D. Purves, K. Rabionet, R. Raevuori, A. Ramoz, N. Reichborn-Kjennerud, T. Ricca, V. Ripatti, S. Ripke, S. Ritschel, F. Roberts, M. Rotondo, A. Rujescu, D. Rybakowski, F. Santonastaso, P. Scherag, A. Scherer, S. Schmidt, U. Schork, N. Schosser, A. Seitz, J. Slachtova, L. Slagboom, P.E. Slof-Op ‘t Landt, M. Slopien, A. Sorbi, S. Strober, M. Stuber, G. Sullivan, P. Świątkowska, B. Szatkiewicz, J. Tachmazidou, I. Tenconi, E. Thornton, L. Tortorella, A. Tozzi, F. Treasure, J. Tsitsika, A. Tyszkiewicz-Nwafor, M. Tziouvas, K. van Elburg, A. van Furth, E. Wade, T. Wagner, G. Walton, E. Watson, H. Werge, T. Whiteman, D. Widen, E. Woodside, D.B. Yao, S. Yilmaz, Z. Zeggini, E. Zerwas, S. Zipfel, S. Anttila, V. Artto, V. Belin, A.C. de Boer, I. Boomsma, D.I. Børte, S. Chasman, D.I. Cherkas, L. Christensen, A.F. Cormand, B. Cuenca-Leon, E. Davey-Smith, G. Dichgans, M. van Duijn, C. Esko, T. Esserlind, A.L. Ferrari, M. Frants, R.R. Freilinger, T. Furlotte, N. Gormley, P. Griffiths, L. Hamalainen, E. Hiekkala, M. Ikram, M.A. Ingason, A. Järvelin, M.-R. Kajanne, R. Kallela, M. Kaprio, J. Kaunisto, M. Kogelman, L.J.A. Kubisch, C. Kurki, M. Kurth, T. Launer, L. Lehtimaki, T. Lessel, D. Ligthart, L. Litterman, N. Maagdenberg, A. Macaya, A. Malik, R. Mangino, M. McMahon, G. Muller-Myhsok, B. Neale, B.M. Northover, C. Nyholt, D.R. Olesen, J. Palotie, A. Palta, P. Pedersen, L. Pedersen, N. Posthuma, D. Pozo-Rosich, P. Pressman, A. Raitakari, O. Schürks, M. Sintas, C. Stefansson, K. Stefansson, H. Steinberg, S. Strachan, D. Terwindt, G. Vila-Pueyo, M. Wessman, M. Winsvold, B.S. Zhao, H. Zwart, J.A. Agee, M. Alipanahi, B. Auton, A. Bell, R. Bryc, K. Elson, S. Fontanillas, P. Furlotte, N. Heilbron, K. Hinds, D. Huber, K. Kleinman, A. Litterman, N. McCreight, J. McIntyre, M. Mountain, J. Noblin, E. Northover, C. Pitts, S. Sathirapongsasuti, J. Sazonova, O. Shelton, J. Shringarpure, S. Tian, C. Tung, J. Vacic, V. Wilson, C. Brueggeman, L. Bulik, C.M. Arenas, E. Hjerling-Leffler, J. Sullivan, P.F. International Headache Genetics Consortium Eating Disorders Working Group of the Psychiatric Genomics Consortium
Abstract: Genome-wide association studies have discovered hundreds of loci associated with complex brain disorders, but it remains unclear in which cell types these loci are active. Here we integrate genome-wide association study results with single-cell transcriptomic data from the entire mouse nervous system to systematically identify cell types underlying brain complex traits. We show that psychiatric disorders are predominantly associated with projecting excitatory and inhibitory neurons. Neurological diseases were associated with different cell types, which is consistent with other lines of evidence. Notably, Parkinson’s disease was genetically associated not only with cholinergic and monoaminergic neurons (which include dopaminergic neurons) but also with enteric neurons and oligodendrocytes. Using post-mortem brain transcriptomic data, we confirmed alterations in these cells, even at the earliest stages of disease progression. Our study provides an important framework for understanding the cellular basis of complex brain maladies, and reveals an unexpected role of oligodendrocytes in Parkinson’s disease. © 2020, The Author(s), under exclusive licence to Springer Nature America, Inc.
Published: 2020

4. Cord blood DNA methylation reflects cord blood C-reactive protein levels but not maternal levels: a longitudinal study and meta-analysis

Author: Yeung, EWH, Guan, WH, Zeng, XH, Salas, LA, Mumford, SL, Bert, PD, van Meel, ER, Malmberg, A, Sunyer, J, Duijts, Liesbeth, Felix, Janine, Czamara, D, Hamalainen, E, Binder, EB, Raikkonen, K, Lahti, J, London, SJ, Silver, RM, Schisterman, EF, Yeung, EWH, Guan, WH, Zeng, XH, Salas, LA, Mumford, SL, Bert, PD, van Meel, ER, Malmberg, A, Sunyer, J, Duijts, Liesbeth, Felix, Janine, Czamara, D, Hamalainen, E, Binder, EB, Raikkonen, K, Lahti, J, London, SJ, Silver, RM, and Schisterman, EF
Published: 2020

5. Trait components provide tools to dissect the genetic susceptibility of migraine

Author: Anttila, V., Kallela, M., Oswell, G., Kaunisto, M. A., Nyholt, D. R., Hamalainen, E., Havanka, H., Ilmavirta, M., Terwilliger, J., Sobel, E., Peltonen, L., Kaprio, J., Farkkila, M., Wessman, M., and Palotie, A.
Subjects: Migraine -- Diagnosis, X chromosome -- Health aspects, X chromosome -- Research, Biological sciences
Abstract: An alternative strategy is introduced using trait components, that is, individual clinical symptoms of migraine in order to determine affection status in genomewide linkage analyses of migraine-affected families. The findings suggest that the use of symptom components of migraine instead of the end diagnosis provides a useful tool in stratifying the sample for genetic studies.
Published: 2006

6. Genetic identification of cell types underlying brain complex traits yields insights into the etiology of Parkinson's disease

Author: Bryois J., Skene N. G., Hansen T. F., Kogelman L. J. A., Watson H. J., Liu Z., Adan R., Alfredsson L., Ando T., Andreassen O., Baker J., Bergen A., Berrettini W., Birgegard A., Boden J., Boehm I., Boni C., Boraska Perica V., Brandt H., Breen G., Buehren K., Bulik C., Burghardt R., Cassina M., Cichon S., Clementi M., Coleman J., Cone R., Courtet P., Crawford S., Crow S., Crowley J., Danner U., Davis O., de Zwaan M., Dedoussis G., Degortes D., DeSocio J., Dick D., Dikeos D., Dina C., Dmitrzak-Weglarz M., Docampo Martinez E., Duncan L., Egberts K., Ehrlich S., Escaramis G., Esko T., Estivill X., Farmer A., Favaro A., Fernandez-Aranda F., Fichter M., Fischer K., Focker M., Foretova L., Forstner A., Forzan M., Franklin C., Gallinger S., Gaspar H., Giegling I., Giuranna J., Giusti-Rodriquez P., Gonidakis F., Gordon S., Gorwood P., Gratacos Mayora M., Grove J., Guillaume S., Guo Y., Hakonarson H., Halmi K., Hanscombe K., Hatzikotoulas K., Hauser J., Hebebrand J., Helder S., Henders A., Herms S., Herpertz-Dahlmann B., Herzog W., Hinney A., Horwood L. J., Hubel C., Huckins L., Hudson J., Imgart H., Inoko H., Janout V., Jimenez-Murcia S., Johnson C., Jordan J., Julia A., Jureus A., Kalsi G., Kaminska D., Kaplan A., Kaprio J., Karhunen L., Karwautz A., Kas M., Kaye W., Kennedy J., Kennedy M., Keski-Rahkonen A., Kiezebrink K., Kim Y. -R., Kirk K., Klareskog L., Klump K., Knudsen G. P., La Via M., Landen M., Larsen J., Le Hellard S., Leppa V., Levitan R., Li D., Lichtenstein P., Lilenfeld L., Lin B. D., Lissowska J., Luykx J., Magistretti P., Maj M., Mannik K., Marsal S., Marshall C., Martin N., Mattheisen M., Mattingsdal M., McDevitt S., McGuffin P., Medland S., Metspalu A., Meulenbelt I., Micali N., Mitchell J., Mitchell K., Monteleone P., Monteleone A. M., Montgomery G., Mortensen P. B., Munn-Chernoff M., Nacmias B., Navratilova M., Norring C., Ntalla I., Olsen C., Ophoff R., O'Toole J., Padyukov L., Palotie A., Pantel J., Papezova H., Parker R., Pearson J., Pedersen N., Petersen L., Pinto D., Purves K., Rabionet R., Raevuori A., Ramoz N., Reichborn-Kjennerud T., Ricca V., Ripatti S., Ripke S., Ritschel F., Roberts M., Rotondo A., Rujescu D., Rybakowski F., Santonastaso P., Scherag A., Scherer S., Schmidt U., Schork N., Schosser A., Seitz J., Slachtova L., Slagboom P. E., Slof-Op 't Landt M., Slopien A., Sorbi S., Strober M., Stuber G., Sullivan P., Swiatkowska B., Szatkiewicz J., Tachmazidou I., Tenconi E., Thornton L., Tortorella A., Tozzi F., Treasure J., Tsitsika A., Tyszkiewicz-Nwafor M., Tziouvas K., van Elburg A., van Furth E., Wade T., Wagner G., Walton E., Watson H., Werge T., Whiteman D., Widen E., Woodside D. B., Yao S., Yilmaz Z., Zeggini E., Zerwas S., Zipfel S., Anttila V., Artto V., Belin A. C., de Boer I., Boomsma D. I., Borte S., Chasman D. I., Cherkas L., Christensen A. F., Cormand B., Cuenca-Leon E., Davey-Smith G., Dichgans M., van Duijn C., Esserlind A. L., Ferrari M., Frants R. R., Freilinger T., Furlotte N., Gormley P., Griffiths L., Hamalainen E., Hiekkala M., Ikram M. A., Ingason A., Jarvelin M. -R., Kajanne R., Kallela M., Kaunisto M., Kubisch C., Kurki M., Kurth T., Launer L., Lehtimaki T., Lessel D., Ligthart L., Litterman N., Maagdenberg A., Macaya A., Malik R., Mangino M., McMahon G., Muller-Myhsok B., Neale B. M., Northover C., Nyholt D. R., Olesen J., Palta P., Pedersen L., Posthuma D., Pozo-Rosich P., Pressman A., Raitakari O., Schurks M., Sintas C., Stefansson K., Stefansson H., Steinberg S., Strachan D., Terwindt G., Vila-Pueyo M., Wessman M., Winsvold B. S., Zhao H., Zwart J. A., Agee M., Alipanahi B., Auton A., Bell R., Bryc K., Elson S., Fontanillas P., Heilbron K., Hinds D., Huber K., Kleinman A., McCreight J., McIntyre M., Mountain J., Noblin E., Pitts S., Sathirapongsasuti J., Sazonova O., Shelton J., Shringarpure S., Tian C., Tung J., Vacic V., Wilson C., Brueggeman L., Bulik C. M., Arenas E., Hjerling-Leffler J., Sullivan P. F., Functional Genomics, APH - Methodology, APH - Mental Health, Biological Psychology, APH - Personalized Medicine, Amsterdam Neuroscience - Complex Trait Genetics, Complex Trait Genetics, Bryois, Julien, Hansen, Thomas Folkmann, Kogelman, Lisette J A, Watson, Hunna J, Breen, Gerome, Bulik, Cynthia M, Micali, Nadia, van Duijn, C, Kas lab, Bryois, J., Skene, N. G., Hansen, T. F., Kogelman, L. J. A., Watson, H. J., Liu, Z., Adan, R., Alfredsson, L., Ando, T., Andreassen, O., Baker, J., Bergen, A., Berrettini, W., Birgegard, A., Boden, J., Boehm, I., Boni, C., Boraska Perica, V., Brandt, H., Breen, G., Buehren, K., Bulik, C., Burghardt, R., Cassina, M., Cichon, S., Clementi, M., Coleman, J., Cone, R., Courtet, P., Crawford, S., Crow, S., Crowley, J., Danner, U., Davis, O., de Zwaan, M., Dedoussis, G., Degortes, D., Desocio, J., Dick, D., Dikeos, D., Dina, C., Dmitrzak-Weglarz, M., Docampo Martinez, E., Duncan, L., Egberts, K., Ehrlich, S., Escaramis, G., Esko, T., Estivill, X., Farmer, A., Favaro, A., Fernandez-Aranda, F., Fichter, M., Fischer, K., Focker, M., Foretova, L., Forstner, A., Forzan, M., Franklin, C., Gallinger, S., Gaspar, H., Giegling, I., Giuranna, J., Giusti-Rodriquez, P., Gonidakis, F., Gordon, S., Gorwood, P., Gratacos Mayora, M., Grove, J., Guillaume, S., Guo, Y., Hakonarson, H., Halmi, K., Hanscombe, K., Hatzikotoulas, K., Hauser, J., Hebebrand, J., Helder, S., Henders, A., Herms, S., Herpertz-Dahlmann, B., Herzog, W., Hinney, A., Horwood, L. J., Hubel, C., Huckins, L., Hudson, J., Imgart, H., Inoko, H., Janout, V., Jimenez-Murcia, S., Johnson, C., Jordan, J., Julia, A., Jureus, A., Kalsi, G., Kaminska, D., Kaplan, A., Kaprio, J., Karhunen, L., Karwautz, A., Kas, M., Kaye, W., Kennedy, J., Kennedy, M., Keski-Rahkonen, A., Kiezebrink, K., Kim, Y. -R., Kirk, K., Klareskog, L., Klump, K., Knudsen, G. P., La Via, M., Landen, M., Larsen, J., Le Hellard, S., Leppa, V., Levitan, R., Li, D., Lichtenstein, P., Lilenfeld, L., Lin, B. D., Lissowska, J., Luykx, J., Magistretti, P., Maj, M., Mannik, K., Marsal, S., Marshall, C., Martin, N., Mattheisen, M., Mattingsdal, M., Mcdevitt, S., Mcguffin, P., Medland, S., Metspalu, A., Meulenbelt, I., Micali, N., Mitchell, J., Mitchell, K., Monteleone, P., Monteleone, A. M., Montgomery, G., Mortensen, P. B., Munn-Chernoff, M., Nacmias, B., Navratilova, M., Norring, C., Ntalla, I., Olsen, C., Ophoff, R., O'Toole, J., Padyukov, L., Palotie, A., Pantel, J., Papezova, H., Parker, R., Pearson, J., Pedersen, N., Petersen, L., Pinto, D., Purves, K., Rabionet, R., Raevuori, A., Ramoz, N., Reichborn-Kjennerud, T., Ricca, V., Ripatti, S., Ripke, S., Ritschel, F., Roberts, M., Rotondo, A., Rujescu, D., Rybakowski, F., Santonastaso, P., Scherag, A., Scherer, S., Schmidt, U., Schork, N., Schosser, A., Seitz, J., Slachtova, L., Slagboom, P. E., Slof-Op 't Landt, M., Slopien, A., Sorbi, S., Strober, M., Stuber, G., Sullivan, P., Swiatkowska, B., Szatkiewicz, J., Tachmazidou, I., Tenconi, E., Thornton, L., Tortorella, A., Tozzi, F., Treasure, J., Tsitsika, A., Tyszkiewicz-Nwafor, M., Tziouvas, K., van Elburg, A., van Furth, E., Wade, T., Wagner, G., Walton, E., Watson, H., Werge, T., Whiteman, D., Widen, E., Woodside, D. 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A., Agee, M., Alipanahi, B., Auton, A., Bell, R., Bryc, K., Elson, S., Fontanillas, P., Heilbron, K., Hinds, D., Huber, K., Kleinman, A., Mccreight, J., Mcintyre, M., Mountain, J., Noblin, E., Pitts, S., Sathirapongsasuti, J., Sazonova, O., Shelton, J., Shringarpure, S., Tian, C., Tung, J., Vacic, V., Wilson, C., Brueggeman, L., Bulik, C. M., Arenas, E., Hjerling-Leffler, J., and Sullivan, P. F.
Subjects: Nervous system, Netherlands Twin Register (NTR), Aging, Parkinson's disease, Medizin, Genome-wide association study, Disease, Neurodegenerative, Medical and Health Sciences, ddc:616.89, Mice, 0302 clinical medicine, Malaltia de Parkinson, Monoaminergic, Eating Disorders Working Group of the Psychiatric Genomics Consortium, 2.1 Biological and endogenous factors, Aetiology, Cervell, ALZHEIMERS, NEURONS, Animals, Brain, Genome-Wide Association Study, Humans, Neurons, Parkinson Disease, Transcriptome, 11 Medical and Health Sciences, Genetics & Heredity, 0303 health sciences, Parkinson Disease/etiology/genetics/pathology, HERITABILITY, International Headache Genetics Consortium, Biological Sciences, Transcriptome/genetics, medicine.anatomical_structure, Neurological, Genome-Wide Association Study/methods, Alzheimer's disease, Life Sciences & Biomedicine, Gens, Cell type, TISSUES, 1.1 Normal biological development and functioning, Biology, IMMUNITY, 23andMe Research Team, Article, 03 medical and health sciences, ENTERIC NERVOUS-SYSTEM, SDG 3 - Good Health and Well-being, Underpinning research, medicine, Genetics, Brain/pathology, GENOME-WIDE ASSOCIATION, NUCLEUS, METAANALYSIS, 030304 developmental biology, Science & Technology, Neurons/pathology, Human Genome, Neurosciences, 06 Biological Sciences, medicine.disease, RISK LOCI, Brain Disorders, Genes, Enteric nervous system, Neuroscience, 030217 neurology & neurosurgery, Developmental Biology
Abstract: Genome-wide association studies have discovered hundreds of loci associated with complex brain disorders, but it remains unclear in which cell types these loci are active. Here we integrate genome-wide association study results with single-cell transcriptomic data from the entire mouse nervous system to systematically identify cell types underlying brain complex traits. We show that psychiatric disorders are predominantly associated with projecting excitatory and inhibitory neurons. Neurological diseases were associated with different cell types, which is consistent with other lines of evidence. Notably, Parkinson’s disease was genetically associated not only with cholinergic and monoaminergic neurons (which include dopaminergic neurons) but also with enteric neurons and oligodendrocytes. Using post-mortem brain transcriptomic data, we confirmed alterations in these cells, even at the earliest stages of disease progression. Our study provides an important framework for understanding the cellular basis of complex brain maladies, and reveals an unexpected role of oligodendrocytes in Parkinson’s disease. Eating Disorders Working Group of the Psychiatric Genomics Consortium Roger Adan17,18,19, Lars Alfredsson20, Tetsuya Ando21, Ole Andreassen22, Jessica Baker9, Andrew Bergen23,24, Wade Berrettini25, Andreas Birgegård26,27, Joseph Boden28, Ilka Boehm29, Claudette Boni30, Vesna Boraska Perica31,32, Harry Brandt33, Gerome Breen13,14, Julien Bryois1, Katharina Buehren34, Cynthia Bulik1,9,15, Roland Burghardt35, Matteo Cassina36, Sven Cichon37, Maurizio Clementi36, Jonathan Coleman13,14, Roger Cone38, Philippe Courtet39, Steven Crawford33, Scott Crow40, James Crowley16,26, unna Danner18, Oliver Davis41,42, Martina de Zwaan43, George Dedoussis44, Daniela Degortes45, Janiece DeSocio46, Danielle Dick47, Dimitris Dikeos48, Christian Dina49,50, Monika Dmitrzak-Weglarz51, Elisa Docampo Martinez52,53,54, Laramie Duncan55, Karin Egberts56, Stefan Ehrlich29, Geòrgia Escaramís52,53,54, Tõnu Esko57,58, Xavier Estivill52,53,54,59, Anne Farmer13, Angela Favaro45, Fernando Fernández-Aranda60,61, Manfred Fichter62,63, Krista Fischer57, Manuel Föcker64, Lenka Foretova65, Andreas Forstner37,66,67,68,69, Monica Forzan36, Christopher Franklin31, Steven Gallinger70, Héléna Gaspar13,14, Ina Giegling71, Johanna Giuranna64, Paola Giusti-Rodríquez16, Fragiskos Gonidakis72, Scott Gordon73, Philip Gorwood30,74, Monica Gratacos Mayora52,53,54, Jakob Grove75,76,77,78, Sébastien Guillaume39, Yiran Guo79, Hakon Hakonarson79,80, Katherine Halmi81, Ken Hanscombe82, Konstantinos Hatzikotoulas31, Joanna Hauser83, Johannes Hebebrand64, Sietske Helder13,84, Anjali Henders85, Stefan Herms37,69, Beate Herpertz-Dahlmann34, Wolfgang Herzog86, Anke Hinney64, L. John Horwood28, Christopher Hübel1,13, Laura Huckins31,87, James Hudson88, Hartmut Imgart89, Hidetoshi Inoko90, Vladimir Janout91, Susana Jiménez-Murcia60,61, Craig Johnson92, Jennifer Jordan93,94, Antonio Julià95, Anders Juréus1, Gursharan Kalsi13, Deborah Kaminská96, Allan Kaplan97, Jaakko Kaprio98,99, Leila Karhunen100, Andreas Karwautz101, Martien Kas17,102, Walter Kaye103, James Kennedy97, Martin Kennedy104, Anna Keski-Rahkonen98, Kirsty Kiezebrink105, Youl-Ri Kim106, Katherine Kirk73, Lars Klareskog107, Kelly Klump108, Gun Peggy Knudsen109, Maria La Via9, Mikael Landén1,19, Janne Larsen76,110,111, Stephanie Le Hellard112,113,114, Virpi Leppä1, Robert Levitan115, Dong Li79, Paul Lichtenstein1, Lisa Lilenfeld116, Bochao Danae Lin17, Jolanta Lissowska117, Jurjen Luykx17, Pierre Magistretti118,119, Mario Maj120, Katrin Mannik57,121, Sara Marsal95, Christian Marshall122, Nicholas Martin73, Manuel Mattheisen26,27,75,123, Morten Mattingsdal22, Sara McDevitt124,125, Peter McGuffin13, Sarah Medland73, Andres Metspalu57,126, Ingrid Meulenbelt127, Nadia Micali128,129, James Mitchell130, Karen Mitchell131, Palmiero Monteleone132, Alessio Maria Monteleone120, Grant Montgomery73,85,133, Preben Bo Mortensen76,110,111, Melissa Munn-Chernoff9, Benedetta Nacmias134, Marie Navratilova65, Claes Norring26,27, Ioanna Ntalla44, Catherine Olsen73, Roel Ophoff17,135, Julie O’Toole136, Leonid Padyukov107, Aarno Palotie58,99,137, Jacques Pantel30, Hana Papezova96, Richard Parker73, John Pearson138, Nancy Pedersen1, Liselotte Petersen76,110,111, Dalila Pinto87, Kirstin Purves13, Raquel Rabionet139,140,141, Anu Raevuori98, Nicolas Ramoz30, Ted Reichborn-Kjennerud109,142, Valdo Ricca134,143, Samuli Ripatti144, Stephan Ripke145,146,147, Franziska Ritschel29,148, Marion Roberts13, Alessandro Rotondo149, Dan Rujescu62,71, Filip Rybakowski150, Paolo Santonastaso151, André Scherag152, Stephen Scherer153, ulrike Schmidt13, Nicholas Schork154, Alexandra Schosser155, Jochen Seitz34, Lenka Slachtova156, P. Eline Slagboom127, Margarita Slof-Op ‘t Landt157,158, Agnieszka Slopien159, Sandro Sorbi134,160, Michael Strober161,162, Garret Stuber9,163, Patrick Sullivan1,16, Beata Świątkowska164, Jin Szatkiewicz16, Ioanna Tachmazidou31, Elena Tenconi45, Laura Thornton9, Alfonso Tortorella165,166, Federica Tozzi167, Janet Treasure13, Artemis Tsitsika168, Marta Tyszkiewicz-Nwafor150, Konstantinos Tziouvas169, Annemarie van Elburg18,170, Eric van Furth157,158, Tracey Wade171, Gudrun Wagner101, Esther Walton29, Hunna Watson9,10,11, Thomas Werge172, David Whiteman73, Elisabeth Widen99, D. Blake Woodside173,174, Shuyang Yao1, Zeynep Yilmaz9,16, Eleftheria Zeggini31,175, Stephanie Zerwas9 and Stephan Zipfel176 17Brain Center Rudolf Magnus, Department of Translational Neuroscience, University Medical Center Utrecht, Utrecht, the Netherlands. 18Center for Eating Disorders Rintveld, Altrecht Mental Health Institute, Zeist, the Netherlands. 19Sahlgrenska Academy, University of Gothenburg, Gothenburg, Sweden. 20Institute of Environmental Medicine, Karolinska Institutet, Stockholm, Sweden. 21Department of Behavioral Medicine, National Institute of Mental Health, National Center of Neurology and Psychiatry, Tokyo, Japan. 22NORMENT KG Jebsen Centre, Division of Mental Health and Addiction, University of Oslo, Oslo University Hospital, Oslo, Norway. 23BioRealm, LLC, Walnut, CA, USA. 24Oregon Research Institute, Eugene, OR, USA. 25Department of Psychiatry, Center for Neurobiology and Behavior, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA, USA. 26Department of Clinical Neuroscience, Karolinska Institutet, Stockholm, Sweden. 27Center for Psychiatry Research, Stockholm Health Care Services, Stockholm City Council, Stockholm, Sweden. 28Christchurch Health and Development Study, University of Otago, Christchurch, New Zealand. 29Division of Psychological and Social Medicine and Developmental Neurosciences, Faculty of Medicine, Technische Universität Dresden, Dresden, Germany. 30INSERM U894, Centre of Psychiatry and Neuroscience, Paris, France. 31Wellcome Sanger Institute, Hinxton, Cambridge, UK. 32Department of Medical Biology, School of Medicine, University of Split, Split, Croatia. 33The Center for Eating Disorders at Sheppard Pratt, Baltimore, MD, USA. 34Department of Child and Adolescent Psychiatry, Psychosomatics and Psychotherapy, RWTH Aachen University, Aachen, Germany. 35Klinikum Frankfurt/Oder, Frankfurt, Germany. 36Clinical Genetics Unit, Department of Woman and Child Health, University of Padova, Padua, Italy. 37Institute of Medical Genetics and Pathology, University Hospital Basel, Basel, Switzerland. 38Life Sciences Institute and Department of Molecular and Integrative Physiology, University of Michigan, Ann Arbor, MI, USA. 39Department of Emergency Psychiatry and Post-Acute Care, CHRU Montpellier, University of Montpellier, Montpellier, France. 40Department of Psychiatry, University of Minnesota, Minneapolis, MN, USA. 41MRC Integrative Epidemiology Unit, University of Bristol, Bristol, UK. 42School of Social and Community Medicine, University of Bristol, Bristol, UK. 43Department of Psychosomatic Medicine and Psychotherapy, Hannover Medical School, Hannover, Germany. 44Department of Nutrition and Dietetics, Harokopio University, Athens, Greece. 45Department of Neurosciences, University of Padova, Padua, Italy. 46College of Nursing, Seattle University, Seattle, WA, USA. 47Department of Psychology, Virginia Commonwealth University, Richmond, VA, USA. 48Department of Psychiatry, Athens University Medical School, Athens University, Athens, Greece. 49L’institut du thorax, INSERM, CNRS, UNIV Nantes, Nantes, France. 50L’institut du thorax, CHU Nantes, Nantes, France. 51Department of Psychiatric Genetics, Poznań University of Medical Sciences, Poznań, Poland. 52Barcelona Institute of Science and Technology, Barcelona, Spain. 53Universitat Pompeu Fabra, Barcelona, Spain. 54Centro de Investigación Biomédica en Red en Epidemiología y Salud Pública (CIBERESP), Barcelona, Spain. 55Department of Psychiatry and Behavioral Sciences, Stanford University Stanford, CA, USA. 56Department of Child and Adolescent Psychiatry, Psychosomatics and Psychotherapy, University Hospital of Würzburg, Centre for Mental Health, Würzburg, Germany. 57Estonian Genome Center, University of Tartu, Tartu, Estonia. 58Program in Medical and Population Genetics, Broad Institute of the Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA. 59Genomics and Disease, Bioinformatics and Genomics Programme, Centre for Genomic Regulation, Barcelona, Spain. 60Department of Psychiatry, University Hospital of Bellvitge –IDIBELL and CIBERobn, Barcelona, Spain. 61Department of Clinical Sciences, School of Medicine, University of Barcelona, Barcelona, Spain. 62Department of Psychiatry and Psychotherapy, Ludwig-Maximilians-University (LMU), Munich, Germany. 63Schön Klinik Roseneck affiliated with the Medical Faculty of the University of Munich (LMU), Munich, Germany. 64Department of Child and Adolescent Psychiatry, University Hospital Essen, University of Duisburg-Essen, Essen, Germany. 65Department of Cancer, Epidemiology and Genetics, Masaryk Memorial Cancer Institute, Brno, Czech Republic. 66Institute of Human Genetics, University of Bonn School of Medicine & University Hospital Bonn, Bonn, Germany. 67Department of Genomics, Life and Brain Center, University of Bonn, Bonn, Germany. 68Department of Psychiatry (UPK), University of Basel, Basel, Switzerland. 69Department of Biomedicine, University of Basel, Basel, Switzerland. 70Department of Surgery, Faculty of Medicine, University of Toronto, Toronto, Ontario, Canada. 71Department of Psychiatry, Psychotherapy and Psychosomatics, Martin Luther University of Halle-Wittenberg, Halle, Germany. 721st Psychiatric Department, National and Kapodistrian University of Athens, Medical School, Eginition Hospital, Athens, Greece. 73QIMR Berghofer Medical Research Institute, Brisbane, Queensland, Australia. 74CMME (Groupe Hospitalier Sainte-Anne), Paris Descartes University, Paris, France. 75Department of Biomedicine, Aarhus University, Aarhus, Denmark. 76The Lundbeck Foundation Initiative for Integrative Psychiatric Research (iPSyCH), Aarhus, Denmark. 77Centre for Integrative Sequencing, iSEQ, Aarhus University, Aarhus, Denmark. 78Bioinformatics Research Centre, Aarhus University, Aarhus, Denmark. 79Center for Applied Genomics, Children’s Hospital of Philadelphia, Philadelphia, PA, USA. 80Department of Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA. 81Department of Psychiatry, Weill Cornell Medical College, New york, Ny, USA. 82Department of Medical and Molecular Genetics, King’s College London, Guy’s Hospital, London, UK. 83Department of Adult Psychiatry, Poznań University of Medical Sciences, Poznań, Poland. 84Zorg op Orde, Leidschendam, the Netherlands. 85Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia. 86Department of General Internal Medicine and Psychosomatics, Heidelberg University Hospital, Heidelberg University, Heidelberg, Germany. 87Department of Psychiatry, and Genetics and Genomics Sciences, Division of Psychiatric Genomics, Icahn School of Medicine at Mount Sinai, New york, Ny, USA. 88Biological Psychiatry Laboratory, McLean Hospital/Harvard Medical School, Boston, MA, USA. 89Eating Disorders Unit, Parklandklinik, Bad Wildungen, Germany. 90Department of Molecular Life Science, Division of Basic Medical Science and Molecular Medicine, School of Medicine, Tokai University, Isehara, Japan. 91Faculty of Health Sciences, Palacky University, Olomouc, Czech Republic. 92Eating Recovery Center, Denver, CO, USA. 93Department of Psychological Medicine, University of Otago, Christchurch, New Zealand. 94Canterbury District Health Board, Christchurch, New Zealand. 95Rheumatology Research Group, Vall d’Hebron Research Institute, Barcelona, Spain. 96Department of Psychiatry, First Faculty of Medicine, Charles University, Prague, Czech Republic. 97Center for Addiction and Mental Health, Department of Psychiatry, Institute of Medical Science, University of Toronto, Toronto, Ontario, Canada. 98Department of Public Health, University of Helsinki, Helsinki, Finland. 99Institute for Molecular Medicine Finland, Helsinki Institute of Life Science, University of Helsinki, Helsinki, Finland. 100Institute of Public Health and Clinical Nutrition, Department of Clinical Nutrition, University of Eastern Finland, Kuopio, Finland. 101Eating Disorders Unit, Department of Child and Adolescent Psychiatry, Medical University of Vienna, Vienna, Austria. 102Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, the Netherlands. 103Department of Psychiatry, University of California San Diego, San Diego, CA, USA. 104Department of Pathology and Biomedical Science, University of Otago, Christchurch, New Zealand. 105Health Services Research Unit, University of Aberdeen, Aberdeen, UK. 106Department of Psychiatry, Seoul Paik Hospital, Inje University, Seoul, Korea. 107Rheumatology Unit, Department of Medicine, Center for Molecular Medicine, Karolinska Institutet and Karolinska University Hospital, Stockholm, Sweden. 108Department of Psychology, Michigan State University, East Lansing, MI, USA. 109Department of Mental Disorders, Norwegian Institute of Public Health, Oslo, Norway. 110National Centre for Register-Based Research, Aarhus BSS, Aarhus University, Aarhus, Denmark. 111Centre for Integrated Register-based Research (CIRRAU), Aarhus University, Aarhus, Denmark. 112Department of Clinical Science, K.G. Jebsen Centre for Psychosis Research, Norwegian Centre for Mental Disorders Research (NORMENT), University of Bergen, Bergen, Norway. 113Dr. Einar Martens Research Group for Biological Psychiatry, Center for Medical Genetics and Molecular Medicine, Haukeland University Hospital, Bergen, Norway. 114Department of Clinical Medicine, Laboratory Building, Haukeland University Hospital, Bergen, Norway. 115Institute of Medical Science, University of Toronto, Toronto, Ontario, Canada. 116American School of Professional Psychology, Argosy University, Northern Virginia, Arlington, VA, USA. 117Department of Cancer Epidemiology and Prevention, M Skłodowska-Curie Cancer Center - Oncology Center, Warsaw, Poland. 118BESE Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia. 119Department of Psychiatry, University of Lausanne-University Hospital of Lausanne (UNIL-CHUV), Lausanne, Switzerland. 120Department of Psychiatry, University of Campania ‘Luigi Vanvitelli’, Naples, Italy. 121Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland. 122Department of Paediatric Laboratory Medicine, The Hospital for Sick Children, Toronto, Ontario, Canada. 123Department of Psychiatry, Psychosomatics and Psychotherapy, University of Würzburg, Würzburg, Germany. 124Department of Psychiatry, University College Cork, Cork, Ireland. 125Eist Linn Adolescent Unit, Bessborough, Health Service Executive South, Cork, Ireland. 126Institute of Molecular and Cell Biology, University of Tartu, Tartu, Estonia. 127Molecular Epidemiology Section (Department of Medical Statistics), Leiden University Medical Centre, Leiden, the Netherlands. 128Department of Psychiatry, Faculty of Medicine, University of Geneva, Geneva, Switzerland. 129Division of Child and Adolescent Psychiatry, Geneva University Hospital, Geneva, Switzerland. 130Department of Psychiatry and Behavioral Science, University of North Dakota School of Medicine and Health Sciences, Fargo, ND, USA. 131National Center for PTSD, VA Boston Healthcare System, Department of Psychiatry, Boston University School of Medicine, Boston, MA, USA. 132Department of Medicine, Surgery and Dentistry ‘Scuola Medica Salernitana’, University of Salerno, Salerno, Italy. 133Queensland Brain Institute, University of Queensland, Brisbane, Queensland, Australia. 134Department of Neuroscience, Psychology, Drug Research and Child Health (NEUROFARBA), University of Florence, Florence, Italy. 135Center for Neurobehavioral Genetics, Semel Institute for Neuroscience and Human Behavior, University of California Los Angeles, Los Angeles, CA, USA. 136Kartini Clinic, Portland, OR, USA. 137Center for Human Genome Research at the Massachusetts General Hospital, Boston, MA, USA. 138Biostatistics and Computational Biology Unit, University of Otago, Christchurch, New Zealand. 139Saint Joan de Déu Research Institute, Saint Joan de Déu Barcelona Children’s Hospital, Barcelona, Spain. 140Institute of Biomedicine (IBUB), University of Barcelona, Barcelona, Spain. 141Department of Genetics, Microbiology and Statistics, University of Barcelona, Barcelona, Spain. 142Institute of Clinical Medicine, University of Oslo, Oslo, Norway. 143Department of Health Science, University of Florence, Florence, Italy. 144Department of Biometry, University of Helsinki, Helsinki, Finland. 145Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA. 146Stanley Center for Psychiatric Research, Broad Institute of the Massachusetts Institute of Technology and Harvard University, Cambridge, MA, USA. 147Department of Psychiatry and Psychotherapy, Charité - Universitätsmedizin, Berlin, Germany. 148Eating Disorders Research and Treatment Center, Department of Child and Adolescent Psychiatry, Faculty of Medicine, Technische Universität Dresden, Dresden, Germany. 149Department of Psychiatry, Neurobiology, Pharmacology, and Biotechnologies, University of Pisa, Pisa, Italy. 150Department of Psychiatry, Poznań University of Medical Sciences, Poznań, Poland. 151Department of Neurosciences, Padua Neuroscience Center, University of Padova, Padua, Italy. 152Institute of Medical Statistics, Computer and Data Sciences, Jena University Hospital, Jena, Germany. 153Department of Genetics and Genomic Biology, The Hospital for Sick Children, Toronto, Ontario, Canada. 154J. Craig Venter Institute (JCVI), La Jolla, CA, USA. 155Department of Psychiatry and Psychotherapy, Medical University of Vienna, Vienna, Austria. 156Department of Pediatrics and Center of Applied Genomics, First Faculty of Medicine, Charles University, Prague, Czech Republic. 157Center for Eating Disorders Ursula, Rivierduinen, Leiden, the Netherlands. 158Department of Psychiatry, Leiden University Medical Centre, Leiden, the Netherlands. 159Department of Child and Adolescent Psychiatry, Poznań University of Medical Sciences, Poznań, Poland. 160IRCCS Fondazione Don Carlo Gnocchi, Florence, Italy. 161Department of Psychiatry and Biobehavioral Science, Semel Institute for Neuroscience and Human Behavior, University of California Los Angeles, Los Angeles, CA, USA. 162David Geffen School of Medicine, University of California Los Angeles, Los Angeles, CA, USA. 163Department of Cell Biology and Physiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. 164Department of Environmental Epidemiology, Nofer Institute of Occupational Medicine, Lodz, Poland. 165Department of Psychiatry, University of Naples SUN, Naples, Italy. 166Department of Psychiatry, University of Perugia, Perugia, Italy. 167Brain Sciences Department, Stremble Ventures, Limassol, Cyprus. 168Adolescent Health Unit, Second Department of Pediatrics, ‘P. & A. Kyriakou’ Children’s Hospital, University of Athens, Athens, Greece. 169Pediatric Intensive Care Unit, ‘P. & A. Kyriakou’ Children’s Hospital, University of Athens, Athens, Greece. 170Faculty of Social and Behavioral Sciences, Utrecht University, Utrecht, the Netherlands. 171School of Psychology, Flinders University, Adelaide, South Australia, Australia. 172Department of Clinical Medicine, University of Copenhagen, Copenhagen, Denmark. 173Department of Psychiatry, Faculty of Medicine, University of Toronto, Toronto, Ontario, Canada. 174Toronto General Hospital, Toronto, Ontario, Canada. 175Institute of Translational Genomics, Helmholtz Zentrum München, Neuherberg, Germany. 176Department of Internal Medicine VI, Psychosomatic Medicine and Psychotherapy, University Medical Hospital Tübingen, Tübingen, Germany International Headache Genetics Consortium Verneri Anttila177, Ville Artto178, Andrea Carmine Belin179, Irene de Boer180, Dorret I. Boomsma181, Sigrid Børte182, Daniel I. Chasman183, Lynn Cherkas184, Anne Francke Christensen185, Bru Cormand186, Ester Cuenca-Leon177, George Davey-Smith187, Martin Dichgans188, Cornelia van Duijn189, Tonu Esko57, Ann Louise Esserlind190, Michel Ferrari180, Rune R. Frants180, Tobias Freilinger191, Nick Furlotte192, Padhraig Gormley177, Lyn Griffiths193, Eija Hamalainen194, Thomas Folkmann Hansen6, Marjo Hiekkala195, M. Arfan Ikram189, Andres Ingason196, Marjo-Riitta Järvelin197, Risto Kajanne194, Mikko Kallela178, Jaakko Kaprio98,99, Mari Kaunisto195, Lisette J. A. Kogelman6, Christian Kubisch198, Mitja Kurki177, Tobias Kurth199, Lenore Launer200, Terho Lehtimaki201, Davor Lessel198, Lannie Ligthart181, Nadia Litterman192, Arn van den Maagdenberg180, Alfons Macaya202, Rainer Malik188, Massimo Mangino184, George McMahon187, Bertram Muller-Myhsok203, Benjamin M. Neale177, Carrie Northover192, Dale R. Nyholt193, Jes Olesen190, Aarno Palotie58,99,137, Priit Palta194, Linda Pedersen182, Nancy Pedersen1, Danielle Posthuma181, Patricia Pozo-Rosich204, Alice Pressman205, Olli Raitakari206, Markus Schürks199, Celia Sintas186, Kari Stefansson196, Hreinn Stefansson196, Stacy Steinberg196, David Strachan207, Gisela Terwindt180, Marta Vila-Pueyo202, Maija Wessman195, Bendik S. Winsvold182, Huiying Zhao193 and John Anker Zwart182 177Broad Institute of MIT and Harvard, Cambridge, MA, USA. 178Department of Neurology, Helsinki University Central Hospital, Helsinki, Finland. 179Karolinska Institutet, Stockholm, Sweden. 180Leiden University Medical Centre, Leiden, the Netherlands. 181VU University, Amsterdam, the Netherlands. 182Oslo University Hospital and University of Oslo, Oslo, Norway. 183Harvard Medical School, Cambridge, MA, USA. 184Department of Twin Research and Genetic Epidemiology, King’s College London, London, UK. 185Danish Headache Center, Copenhagen University Hospital, Copenhagen, Denmark. 186University of Barcelona, Barcelona, Spain. 187Medical Research Council (MRC) Integrative Epidemiology Unit, University of Bristol, Bristol, UK. 188Institute for Stroke and Dementia Research, Munich, Germany. 189Erasmus University Medical Centre, Rotterdam, the Netherlands. 190Danish Headache Center, Department of Neurology, Rigshospitalet, Glostrup, Denmark. 191University of Tübingen, Tübingen, Germany. 19223&Me Inc., Mountain View, CA, USA. 193Institute of Health and Biomedical Innovation, Queensland University of Technology, Brisbane, Queensland, Australia. 194Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Helsinki, Finland. 195Folkhälsan Institute of Genetics, Helsinki, Finland. 196Decode genetics Inc., Reykjavik, Iceland. 197University of Oulu, Biocenter Oulu, Finland. 198University Medical Center Hamburg-Eppendorf, Hamburg, Germany. 199Harvard Medical School, Boston, MA, USA. 200National Institute on Aging, Bethesda, MD, USA. 201School of Medicine, University of Tampere, Tampere, Finland. 202Vall d’Hebron Research Institute, Barcelona, Spain. 203Max Planck Institute of Psychiatry, Munich, Germany. 204Headache Research Group, Universitat Autònoma de Barcelona, Barcelona, Spain. 205Sutter Health, Sacramento, CA, USA. 206Department of Medicine, University of Turku, Turku, Finland. 207Population Health Research Institute, St George’s University of London, London, UK. 23andMe Research Team Michelle Agee208, Babak Alipanahi208, Adam Auton208, Robert Bell208, Katarzyna Bryc208, Sarah Elson208, Pierre Fontanillas208, Nicholas Furlotte208, Karl Heilbron208, David Hinds208, Karen Huber208, Aaron Kleinman208, Nadia Litterman208, Jennifer McCreight208, Matthew McIntyre208, Joanna Mountain208, Elizabeth Noblin208, Carrie Northover208, Steven Pitts208, J. Sathirapongsasuti208, Olga Sazonova208, Janie Shelton208, Suyash Shringarpure208, Chao Tian208, Joyce Tung208, Vladimir Vacic208 and Catherine Wilson208 20823andMe, Inc., Mountain View, CA, US
Published: 2020

7. Integrated analysis of environmental and genetic influences on cord blood DNA methylation in new-borns

Author: Czamara, D, Eraslan, G, Page, CM, Lahti, J, Lahti-Pulkkinen, M, Hamalainen, E, Kajantie, E, Laivuori, H, Villa, PM, Reynolds, RM, Nystad, W, Haberg, SE, London, SJ, O'Donnell, KJ, Garg, E, Meaney, MJ, Entringer, S, Wadhwa, PD, Buss, C, Jones, MJ, Lin, DTS, MacIsaac, JL, Kobor, MS, Koen, N, Zar, HJ, Koenen, KC, Dalvie, S, Stein, DJ, Kondofersky, I, Mueller, NS, Theis, FJ, Raikkonen, K, Binder, EB, Wray, NR, Ripke, S, Mattheisen, M, Trzaskowski, M, Byrne, EM, Abdellaoui, A, Adams, MJ, Agerbo, E, Air, TM, Andlauer, TFM, Bacanu, S-A, Baekvad-Hansen, M, Beekman, ATF, Bigdeli, TB, Blackwood, DHR, Bryois, J, Buttenschon, HN, Bybjerg-Grauholm, J, Cai, N, Castelao, E, Christensen, JH, Clarke, T-K, Coleman, JR, Colodro-Conde, L, Couvy-Duchesne, B, Craddock, N, Crawford, GE, Davies, G, Deary, IJ, Degenhardt, F, Derks, EM, Direk, N, Dolan, C, Dunn, EC, Eley, TC, Escott-Price, V, Kiadeh, FFH, Finucane, HK, Forstner, AJ, Frank, J, Gaspar, HA, Gill, M, Goes, FS, Gordon, SD, Grove, J, Hall, LS, Hansen, CS, Hansen, TF, Herms, S, Hickie, IB, Hoffmann, P, Homuth, G, Horn, C, Hottenga, J-J, Hougaard, DM, Ising, M, Jansen, R, Jorgenson, E, Knowles, JA, Kohane, IS, Kraft, J, Kretzschmar, WW, Krogh, J, Kutalik, Z, Li, Y, Lind, PA, MacIntyre, DJ, MacKinnon, DF, Maier, RM, Maier, W, Marchini, J, Mbarek, H, McGrath, P, McGuffin, P, Medland, SE, Mehta, D, Middeldorp, CM, Mihailov, E, Milaneschi, Y, Milani, L, Mondimore, FM, Montgomery, GW, Mostafavi, S, Mullins, N, Nauck, M, Ng, B, Nivard, MG, Nyholt, DR, O'Reilly, PF, Oskarsson, H, Owen, MJ, Painter, JN, Pedersen, CB, Pedersen, MG, Peterson, RE, Pettersson, E, Peyrot, WJ, Pistis, G, Posthuma, D, Quiroz, JA, Qvist, P, Rice, JP, Riley, BP, Rivera, M, Mirza, SS, Schoevers, R, Schulte, EC, Shen, L, Shi, J, Shyn, S, Sigurdsson, E, Sinnamon, GCB, Smit, JH, Smith, DJ, Stefansson, H, Steinberg, S, Streit, F, Strohmaier, J, Tansey, KE, Teismann, H, Teumer, A, Thompson, W, Thomson, PA, Thorgeirsson, TE, Traylor, M, Treutlein, J, Trubetskoy, V, Uitterlinden, AG, Umbricht, D, Van der Auwera, S, van Hemert, AM, Viktorin, A, Visscher, PM, Wang, Y, Webb, BT, Weinsheimer, SM, Wellmann, J, Willemsen, G, Witt, SH, Wu, Y, Xi, HS, Yang, J, Zhang, F, Arolt, V, Baune, BT, Berger, K, Boomsma, D, Cichon, S, Dannlowski, U, de Geus, EJC, DePaulo, JR, Domenici, E, Domschke, K, Esko, T, Grabe, HJ, Hamilton, SP, Hayward, C, Heath, AC, Kendler, KS, Kloiber, S, Lewis, G, Li, QS, Lucae, S, Madden, PAF, Magnusson, PK, Martin, NG, McIntosh, AM, Metspalu, A, Mors, O, Mortensen, PB, Mueller-Myhsok, B, Nordentoft, M, Noethen, MM, O'Donovan, MC, Paciga, SA, Pedersen, NL, Penninx, BWJH, Perlis, RH, Porteous, DJ, Potash, JB, Preisig, M, Rietschel, M, Schaefer, C, Schulze, TG, Smoller, JW, Stefansson, K, Tiemeier, H, Uher, R, Voelzke, H, Weissman, MM, Werge, T, Lewis, CM, Levinson, DF, Breen, G, Borglum, AD, Sullivan, PF, Czamara, D, Eraslan, G, Page, CM, Lahti, J, Lahti-Pulkkinen, M, Hamalainen, E, Kajantie, E, Laivuori, H, Villa, PM, Reynolds, RM, Nystad, W, Haberg, SE, London, SJ, O'Donnell, KJ, Garg, E, Meaney, MJ, Entringer, S, Wadhwa, PD, Buss, C, Jones, MJ, Lin, DTS, MacIsaac, JL, Kobor, MS, Koen, N, Zar, HJ, Koenen, KC, Dalvie, S, Stein, DJ, Kondofersky, I, Mueller, NS, Theis, FJ, Raikkonen, K, Binder, EB, Wray, NR, Ripke, S, Mattheisen, M, Trzaskowski, M, Byrne, EM, Abdellaoui, A, Adams, MJ, Agerbo, E, Air, TM, Andlauer, TFM, Bacanu, S-A, Baekvad-Hansen, M, Beekman, ATF, Bigdeli, TB, Blackwood, DHR, Bryois, J, Buttenschon, HN, Bybjerg-Grauholm, J, Cai, N, Castelao, E, Christensen, JH, Clarke, T-K, Coleman, JR, Colodro-Conde, L, Couvy-Duchesne, B, Craddock, N, Crawford, GE, Davies, G, Deary, IJ, Degenhardt, F, Derks, EM, Direk, N, Dolan, C, Dunn, EC, Eley, TC, Escott-Price, V, Kiadeh, FFH, Finucane, HK, Forstner, AJ, Frank, J, Gaspar, HA, Gill, M, Goes, FS, Gordon, SD, Grove, J, Hall, LS, Hansen, CS, Hansen, TF, Herms, S, Hickie, IB, Hoffmann, P, Homuth, G, Horn, C, Hottenga, J-J, Hougaard, DM, Ising, M, Jansen, R, Jorgenson, E, Knowles, JA, Kohane, IS, Kraft, J, Kretzschmar, WW, Krogh, J, Kutalik, Z, Li, Y, Lind, PA, MacIntyre, DJ, MacKinnon, DF, Maier, RM, Maier, W, Marchini, J, Mbarek, H, McGrath, P, McGuffin, P, Medland, SE, Mehta, D, Middeldorp, CM, Mihailov, E, Milaneschi, Y, Milani, L, Mondimore, FM, Montgomery, GW, Mostafavi, S, Mullins, N, Nauck, M, Ng, B, Nivard, MG, Nyholt, DR, O'Reilly, PF, Oskarsson, H, Owen, MJ, Painter, JN, Pedersen, CB, Pedersen, MG, Peterson, RE, Pettersson, E, Peyrot, WJ, Pistis, G, Posthuma, D, Quiroz, JA, Qvist, P, Rice, JP, Riley, BP, Rivera, M, Mirza, SS, Schoevers, R, Schulte, EC, Shen, L, Shi, J, Shyn, S, Sigurdsson, E, Sinnamon, GCB, Smit, JH, Smith, DJ, Stefansson, H, Steinberg, S, Streit, F, Strohmaier, J, Tansey, KE, Teismann, H, Teumer, A, Thompson, W, Thomson, PA, Thorgeirsson, TE, Traylor, M, Treutlein, J, Trubetskoy, V, Uitterlinden, AG, Umbricht, D, Van der Auwera, S, van Hemert, AM, Viktorin, A, Visscher, PM, Wang, Y, Webb, BT, Weinsheimer, SM, Wellmann, J, Willemsen, G, Witt, SH, Wu, Y, Xi, HS, Yang, J, Zhang, F, Arolt, V, Baune, BT, Berger, K, Boomsma, D, Cichon, S, Dannlowski, U, de Geus, EJC, DePaulo, JR, Domenici, E, Domschke, K, Esko, T, Grabe, HJ, Hamilton, SP, Hayward, C, Heath, AC, Kendler, KS, Kloiber, S, Lewis, G, Li, QS, Lucae, S, Madden, PAF, Magnusson, PK, Martin, NG, McIntosh, AM, Metspalu, A, Mors, O, Mortensen, PB, Mueller-Myhsok, B, Nordentoft, M, Noethen, MM, O'Donovan, MC, Paciga, SA, Pedersen, NL, Penninx, BWJH, Perlis, RH, Porteous, DJ, Potash, JB, Preisig, M, Rietschel, M, Schaefer, C, Schulze, TG, Smoller, JW, Stefansson, K, Tiemeier, H, Uher, R, Voelzke, H, Weissman, MM, Werge, T, Lewis, CM, Levinson, DF, Breen, G, Borglum, AD, and Sullivan, PF
Abstract: Epigenetic processes, including DNA methylation (DNAm), are among the mechanisms allowing integration of genetic and environmental factors to shape cellular function. While many studies have investigated either environmental or genetic contributions to DNAm, few have assessed their integrated effects. Here we examine the relative contributions of prenatal environmental factors and genotype on DNA methylation in neonatal blood at variably methylated regions (VMRs) in 4 independent cohorts (overall n = 2365). We use Akaike's information criterion to test which factors best explain variability of methylation in the cohort-specific VMRs: several prenatal environmental factors (E), genotypes in cis (G), or their additive (G + E) or interaction (GxE) effects. Genetic and environmental factors in combination best explain DNAm at the majority of VMRs. The CpGs best explained by either G, G + E or GxE are functionally distinct. The enrichment of genetic variants from GxE models in GWAS for complex disorders supports their importance for disease risk.
Published: 2019

8. Integrated analysis of environmental and genetic influences on cord blood DNA methylation in new-borns

Author: Czamara, D. (Darina), Eraslan, G. (Goekcen), Page, C. M. (Christian M.), Lahti, J. (Jari), Lahti-Pulkkinen, M. (Marius), Hamalainen, E. (Esa), Kajantie, E. (Eero), Laivuori, H. (Hannele), Villa, P. M. (Pia M.), Reynolds, R. M. (Rebecca M.), Nystad, W. (Wenche), Haberg, S. E. (Siri E.), London, S. J. (Stephanie J.), O'Donnell, K. J. (Kieran J.), Garg, E. (Elika), Meaney, M. J. (Michael J.), Entringer, S. (Sonja), Wadhwa, P. D. (Pathik D.), Buss, C. (Claudia), Jones, M. J. (Meaghan J.), Lin, D. T. (David T. S.), MacIsaac, J. L. (Julie L.), Kobor, M. S. (Michael S.), Koen, N. (Nastassja), Zar, H. J. (Heather J.), Koenen, K. C. (Karestan C.), Dalvie, S. (Shareefa), Stein, D. J. (Dan J.), Kondofersky, I. (Ivan), Mueller, N. S. (Nikola S.), Theis, F. J. (Fabian J.), Raikkonen, K. (Katri), Binder, E. B. (Elisabeth B.), Wray, N. R. (Naomi R.), Ripke, S. (Stephan), Mattheisen, M. (Manuel), Trzaskowski, M. (Maciej), Byrne, E. M. (Enda M.), Abdellaoui, A. (Abdel), Adams, M. J. (Mark J.), Agerbo, E. (Esben), Air, T. M. (Tracy M.), Andlauer, T. F. (Till F. M.), Bacanu, S.-A. (Silviu-Alin), Baekvad-Hansen, M. (Marie), Beekman, A. T. (Aartjan T. F.), Bigdeli, T. B. (Tim B.), Blackwood, D. H. (Douglas H. R.), Bryois, J. (Julien), Buttenschon, H. N. (Henriette N.), Bybjerg-Grauholm, J. (Jonas), Cai, N. (Na), Castelao, E. (Enrique), Christensen, J. H. (Jane Hvarregaard), Clarke, T.-K. (Toni-Kim), Coleman, J. R. (Jonathan R., I), Colodro-Conde, L. (Lucia), Couvy-Duchesne, B. (Baptiste), Craddock, N. (Nick), Crawford, G. E. (Gregory E.), Davies, G. (Gail), Deary, I. J. (Ian J.), Degenhardt, F. (Franziska), Derks, E. M. (Eske M.), Direk, N. (Nese), Dolan, C. V. (Conor, V), Dunn, E. C. (Erin C.), Eley, T. C. (Thalia C.), Escott-Price, V. (Valentina), Kiadeh, F. F. (Farnush Farhadi Hassan), Finucane, H. K. (Hilary K.), Forstner, A. J. (Andreas J.), Frank, J. (Josef), Gaspar, H. A. (Helena A.), Gill, M. (Michael), Goes, F. S. (Fernando S.), Gordon, S. D. (Scott D.), Grove, J. (Jakob), Hall, L. S. (Lynsey S.), Hansen, C. S. (Christine Soholm), Hansen, T. F. (Thomas F.), Herms, S. (Stefan), Hickie, I. B. (Ian B.), Hoffmann, P. (Per), Homuth, G. (Georg), Horn, C. (Carsten), Hottenga, J.-J. (Jouke-Jan), Hougaard, D. M. (David M.), Ising, M. (Marcus), Jansen, R. (Rick), Jorgenson, E. (Eric), Knowles, J. A. (James A.), Kohane, I. S. (Isaac S.), Kraft, J. (Julia), Kretzschmar, W. W. (Warren W.), Krogh, J. (Jesper), Kutalik, Z. (Zoltan), Li, Y. (Yihan), Lind, P. A. (Penelope A.), MacIntyre, D. J. (Donald J.), MacKinnon, D. F. (Dean F.), Maier, R. M. (Robert M.), Maier, W. (Wolfgang), Marchini, J. (Jonathan), Mbarek, H. (Hamdi), McGrath, P. (Patrick), McGuffin, P. (Peter), Medland, S. E. (Sarah E.), Mehta, D. (Divya), Middeldorp, C. M. (Christel M.), Mihailov, E. (Evelin), Milaneschi, Y. (Yuri), Milani, L. (Lili), Mondimore, F. M. (Francis M.), Montgomery, G. W. (Grant W.), Mostafavi, S. (Sara), Mullins, N. (Niamh), Nauck, M. (Matthias), Ng, B. (Bernard), Nivard, M. G. (Michel G.), Nyholt, D. R. (Dale R.), O'Reilly, P. F. (Paul F.), Oskarsson, H. (Hogni), Owen, M. J. (Michael J.), Painter, J. N. (Jodie N.), Pedersen, C. B. (Carsten Bocker), Pedersen, M. G. (Marianne Girtz), Peterson, R. E. (Roseann E.), Pettersson, E. (Erik), Peyrot, W. J. (Wouter J.), Pistis, G. (Giorgio), Posthuma, D. (Danielle), Quiroz, J. A. (Jorge A.), Qvist, P. (Per), Rice, J. P. (John P.), Riley, B. P. (Brien P.), Rivera, M. (Margarita), Mirza, S. S. (Saira Saeed), Schoevers, R. (Robert), Schulte, E. C. (Eva C.), Shen, L. (Ling), Shi, J. (Jianxin), Shyn, S. I. (Stanley, I), Sigurdsson, E. (Engilbert), Sinnamon, G. C. (Grant C. B.), Smit, J. H. (Johannes H.), Smith, D. J. (Daniel J.), Stefansson, H. (Hreinn), Steinberg, S. (Stacy), Streit, F. (Fabian), Strohmaier, J. (Jana), Tansey, K. E. (Katherine E.), Teismann, H. (Henning), Teumer, A. (Alexander), Thompson, W. (Wesley), Thomson, P. A. (Pippa A.), Thorgeirsson, T. E. (Thorgeir E.), Traylor, M. (Matthew), Treutlein, J. (Jens), Trubetskoy, V. (Vassily), Uitterlinden, A. G. (Andre G.), Umbricht, D. (Daniel), Van der Auwera, S. (Sandra), van Hemert, A. M. (Albert M.), Viktorin, A. (Alexander), Visscher, P. M. (Peter M.), Wang, Y. (Yunpeng), Webb, B. T. (Bradley T.), Weinsheimer, S. M. (Shantel Marie), Wellmann, J. (Juergen), Willemsen, G. (Gonneke), Witt, S. H. (Stephanie H.), Wu, Y. (Yang), Xi, H. S. (Hualin S.), Yang, J. (Jian), Zhang, F. (Futao), Arolt, V. (Volker), Baune, B. T. (Bernhard T.), Berger, K. (Klaus), Boomsma, D. I. (Dorret, I), Cichon, S. (Sven), Dannlowski, U. (Udo), de Geus, E. J. (E. J. C.), DePaulo, J. R. (J. Raymond), Domenici, E. (Enrico), Domschke, K. (Katharina), Esko, T. (Tonu), Grabe, H. J. (Hans J.), Hamilton, S. P. (Steven P.), Hayward, C. (Caroline), Heath, A. C. (Andrew C.), Kendler, K. S. (Kenneth S.), Kloiber, S. (Stefan), Lewis, G. (Glyn), Li, Q. S. (Qingqin S.), Lucae, S. (Susanne), Madden, P. A. (Pamela A. F.), Magnusson, P. K. (Patrik K.), Martin, N. G. (Nicholas G.), McIntosh, A. M. (Andrew M.), Metspalu, A. (Andres), Mors, O. (Ole), Mortensen, P. B. (Preben Bo), Mueller-Myhsok, B. (Bertram), Nordentoft, M. (Merete), Noethen, M. M. (Markus M.), O'Donovan, M. C. (Michael C.), Paciga, S. A. (Sara A.), Pedersen, N. L. (Nancy L.), Penninx, B. W. (Brenda W. J. H.), Perlis, R. H. (Roy H.), Porteous, D. J. (David J.), Potash, J. B. (James B.), Preisig, M. (Martin), Rietschel, M. (Marcella), Schaefer, C. (Catherine), Schulze, T. G. (Thomas G.), Smoller, J. W. (Jordan W.), Stefansson, K. (Kari), Tiemeier, H. (Henning), Uher, R. (Rudolf), Voelzke, H. (Henry), Weissman, M. M. (Myrna M.), Werge, T. (Thomas), Lewis, C. M. (Cathryn M.), Levinson, D. F. (Douglas F.), Breen, G. (Gerome), Borglum, A. D. (Anders D.), Sullivan, P. F. (Patrick F.), Czamara, D. (Darina), Eraslan, G. (Goekcen), Page, C. M. (Christian M.), Lahti, J. (Jari), Lahti-Pulkkinen, M. (Marius), Hamalainen, E. (Esa), Kajantie, E. (Eero), Laivuori, H. (Hannele), Villa, P. M. (Pia M.), Reynolds, R. M. (Rebecca M.), Nystad, W. (Wenche), Haberg, S. E. (Siri E.), London, S. J. (Stephanie J.), O'Donnell, K. J. (Kieran J.), Garg, E. (Elika), Meaney, M. J. (Michael J.), Entringer, S. (Sonja), Wadhwa, P. D. (Pathik D.), Buss, C. (Claudia), Jones, M. J. (Meaghan J.), Lin, D. T. (David T. S.), MacIsaac, J. L. (Julie L.), Kobor, M. S. (Michael S.), Koen, N. (Nastassja), Zar, H. J. (Heather J.), Koenen, K. C. (Karestan C.), Dalvie, S. (Shareefa), Stein, D. J. (Dan J.), Kondofersky, I. (Ivan), Mueller, N. S. (Nikola S.), Theis, F. J. (Fabian J.), Raikkonen, K. (Katri), Binder, E. B. (Elisabeth B.), Wray, N. R. (Naomi R.), Ripke, S. (Stephan), Mattheisen, M. (Manuel), Trzaskowski, M. (Maciej), Byrne, E. M. (Enda M.), Abdellaoui, A. (Abdel), Adams, M. J. (Mark J.), Agerbo, E. (Esben), Air, T. M. (Tracy M.), Andlauer, T. F. (Till F. M.), Bacanu, S.-A. (Silviu-Alin), Baekvad-Hansen, M. (Marie), Beekman, A. T. (Aartjan T. F.), Bigdeli, T. B. (Tim B.), Blackwood, D. H. (Douglas H. R.), Bryois, J. (Julien), Buttenschon, H. N. (Henriette N.), Bybjerg-Grauholm, J. (Jonas), Cai, N. (Na), Castelao, E. (Enrique), Christensen, J. H. (Jane Hvarregaard), Clarke, T.-K. (Toni-Kim), Coleman, J. R. (Jonathan R., I), Colodro-Conde, L. (Lucia), Couvy-Duchesne, B. (Baptiste), Craddock, N. (Nick), Crawford, G. E. (Gregory E.), Davies, G. (Gail), Deary, I. J. (Ian J.), Degenhardt, F. (Franziska), Derks, E. M. (Eske M.), Direk, N. (Nese), Dolan, C. V. (Conor, V), Dunn, E. C. (Erin C.), Eley, T. C. (Thalia C.), Escott-Price, V. (Valentina), Kiadeh, F. F. (Farnush Farhadi Hassan), Finucane, H. K. (Hilary K.), Forstner, A. J. (Andreas J.), Frank, J. (Josef), Gaspar, H. A. (Helena A.), Gill, M. (Michael), Goes, F. S. (Fernando S.), Gordon, S. D. (Scott D.), Grove, J. (Jakob), Hall, L. S. (Lynsey S.), Hansen, C. S. (Christine Soholm), Hansen, T. F. (Thomas F.), Herms, S. (Stefan), Hickie, I. B. (Ian B.), Hoffmann, P. (Per), Homuth, G. (Georg), Horn, C. (Carsten), Hottenga, J.-J. (Jouke-Jan), Hougaard, D. M. (David M.), Ising, M. (Marcus), Jansen, R. (Rick), Jorgenson, E. (Eric), Knowles, J. A. (James A.), Kohane, I. S. (Isaac S.), Kraft, J. (Julia), Kretzschmar, W. W. (Warren W.), Krogh, J. (Jesper), Kutalik, Z. (Zoltan), Li, Y. (Yihan), Lind, P. A. (Penelope A.), MacIntyre, D. J. (Donald J.), MacKinnon, D. F. (Dean F.), Maier, R. M. (Robert M.), Maier, W. (Wolfgang), Marchini, J. (Jonathan), Mbarek, H. (Hamdi), McGrath, P. (Patrick), McGuffin, P. (Peter), Medland, S. E. (Sarah E.), Mehta, D. (Divya), Middeldorp, C. M. (Christel M.), Mihailov, E. (Evelin), Milaneschi, Y. (Yuri), Milani, L. (Lili), Mondimore, F. M. (Francis M.), Montgomery, G. W. (Grant W.), Mostafavi, S. (Sara), Mullins, N. (Niamh), Nauck, M. (Matthias), Ng, B. (Bernard), Nivard, M. G. (Michel G.), Nyholt, D. R. (Dale R.), O'Reilly, P. F. (Paul F.), Oskarsson, H. (Hogni), Owen, M. J. (Michael J.), Painter, J. N. (Jodie N.), Pedersen, C. B. (Carsten Bocker), Pedersen, M. G. (Marianne Girtz), Peterson, R. E. (Roseann E.), Pettersson, E. (Erik), Peyrot, W. J. (Wouter J.), Pistis, G. (Giorgio), Posthuma, D. (Danielle), Quiroz, J. A. (Jorge A.), Qvist, P. (Per), Rice, J. P. (John P.), Riley, B. P. (Brien P.), Rivera, M. (Margarita), Mirza, S. S. (Saira Saeed), Schoevers, R. (Robert), Schulte, E. C. (Eva C.), Shen, L. (Ling), Shi, J. (Jianxin), Shyn, S. I. (Stanley, I), Sigurdsson, E. (Engilbert), Sinnamon, G. C. (Grant C. B.), Smit, J. H. (Johannes H.), Smith, D. J. (Daniel J.), Stefansson, H. (Hreinn), Steinberg, S. (Stacy), Streit, F. (Fabian), Strohmaier, J. (Jana), Tansey, K. E. (Katherine E.), Teismann, H. (Henning), Teumer, A. (Alexander), Thompson, W. (Wesley), Thomson, P. A. (Pippa A.), Thorgeirsson, T. E. (Thorgeir E.), Traylor, M. (Matthew), Treutlein, J. (Jens), Trubetskoy, V. (Vassily), Uitterlinden, A. G. (Andre G.), Umbricht, D. (Daniel), Van der Auwera, S. (Sandra), van Hemert, A. M. (Albert M.), Viktorin, A. (Alexander), Visscher, P. M. (Peter M.), Wang, Y. (Yunpeng), Webb, B. T. (Bradley T.), Weinsheimer, S. M. (Shantel Marie), Wellmann, J. (Juergen), Willemsen, G. (Gonneke), Witt, S. H. (Stephanie H.), Wu, Y. (Yang), Xi, H. S. (Hualin S.), Yang, J. (Jian), Zhang, F. (Futao), Arolt, V. (Volker), Baune, B. T. (Bernhard T.), Berger, K. (Klaus), Boomsma, D. I. (Dorret, I), Cichon, S. (Sven), Dannlowski, U. (Udo), de Geus, E. J. (E. J. C.), DePaulo, J. R. (J. Raymond), Domenici, E. (Enrico), Domschke, K. (Katharina), Esko, T. (Tonu), Grabe, H. J. (Hans J.), Hamilton, S. P. (Steven P.), Hayward, C. (Caroline), Heath, A. C. (Andrew C.), Kendler, K. S. (Kenneth S.), Kloiber, S. (Stefan), Lewis, G. (Glyn), Li, Q. S. (Qingqin S.), Lucae, S. (Susanne), Madden, P. A. (Pamela A. F.), Magnusson, P. K. (Patrik K.), Martin, N. G. (Nicholas G.), McIntosh, A. M. (Andrew M.), Metspalu, A. (Andres), Mors, O. (Ole), Mortensen, P. B. (Preben Bo), Mueller-Myhsok, B. (Bertram), Nordentoft, M. (Merete), Noethen, M. M. (Markus M.), O'Donovan, M. C. (Michael C.), Paciga, S. A. (Sara A.), Pedersen, N. L. (Nancy L.), Penninx, B. W. (Brenda W. J. H.), Perlis, R. H. (Roy H.), Porteous, D. J. (David J.), Potash, J. B. (James B.), Preisig, M. (Martin), Rietschel, M. (Marcella), Schaefer, C. (Catherine), Schulze, T. G. (Thomas G.), Smoller, J. W. (Jordan W.), Stefansson, K. (Kari), Tiemeier, H. (Henning), Uher, R. (Rudolf), Voelzke, H. (Henry), Weissman, M. M. (Myrna M.), Werge, T. (Thomas), Lewis, C. M. (Cathryn M.), Levinson, D. F. (Douglas F.), Breen, G. (Gerome), Borglum, A. D. (Anders D.), and Sullivan, P. F. (Patrick F.)
Abstract: Epigenetic processes, including DNA methylation (DNAm), are among the mechanisms allowing integration of genetic and environmental factors to shape cellular function. While many studies have investigated either environmental or genetic contributions to DNAm, few have assessed their integrated effects. Here we examine the relative contributions of prenatal environmental factors and genotype on DNA methylation in neonatal blood at variably methylated regions (VMRs) in 4 independent cohorts (overall n = 2365). We use Akaike’s information criterion to test which factors best explain variability of methylation in the cohort-specific VMRs: several prenatal environmental factors (E), genotypes in cis (G), or their additive (G + E) or interaction (GxE) effects. Genetic and environmental factors in combination best explain DNAm at the majority of VMRs. The CpGs best explained by either G, G + E or GxE are functionally distinct. The enrichment of genetic variants from GxE models in GWAS for complex disorders supports their importance for disease risk.
Published: 2019

9. Meta-analysis of epigenome-wide association studies in neonates reveals widespread differential DNA methylation associated with birthweight

Author: Kupers, L. K. (Leanne K.), Monnereau, C. (Claire), Sharp, G. C. (Gemma C.), Yousefi, P. (Paul), Salas, L. A. (Lucas A.), Ghantous, A. (Akram), Page, C. M. (Christian M.), Reese, S. E. (Sarah E.), Wilcox, A. J. (Allen J.), Czamara, D. (Darina), Starling, A. P. (Anne P.), Novoloaca, A. (Alexei), Lent, S. (Samantha), Roy, R. (Ritu), Hoyo, C. (Cathrine), Breton, C. V. (Carrie, V), Allard, C. (Catherine), Just, A. C. (Allan C.), Bakulski, K. M. (Kelly M.), Holloway, J. W. (John W.), Everson, T. M. (Todd M.), Xu, C.-J. (Cheng-Jian), Huang, R.-C. (Rae-Chi), van der Plaat, D. A. (Diana A.), Wielscher, M. (Matthias), Merid, S. K. (Simon Kebede), Ullemar, V. (Vilhelmina), Rezwan, F. I. (Faisal, I), Lahti, J. (Jari), van Dongen, J. (Jenny), Langie, S. A. (Sabine A. S.), Richardson, T. G. (Tom G.), Magnus, M. C. (Maria C.), Nohr, E. A. (Ellen A.), Xu, Z. (Zongli), Duijts, L. (Liesbeth), Zhao, S. (Shanshan), Zhang, W. (Weiming), Plusquin, M. (Michelle), DeMeo, D. L. (Dawn L.), Solomon, O. (Olivia), Heimovaara, J. H. (Joosje H.), Jima, D. D. (Dereje D.), Gao, L. (Lu), Bustamante, M. (Mariona), Perron, P. (Patrice), Wright, R. O. (Robert O.), Hertz-Picciotto, I. (Irva), Zhang, H. (Hongmei), Karagas, M. R. (Margaret R.), Gehring, U. (Ulrike), Marsit, C. J. (Carmen J.), Beilin, L. J. (Lawrence J.), Vonk, J. M. (Judith M.), Jarvelin, M.-R. (Marjo-Riitta), Bergstrom, A. (Anna), Ortqvist, A. K. (Anne K.), Ewart, S. (Susan), Villa, P. M. (Pia M.), Moore, S. E. (Sophie E.), Willemsen, G. (Gonneke), Standaert, A. R. (Arnout R. L.), Haberg, S. E. (Siri E.), Sorensen, T. I. (Thorkild I. A.), Taylor, J. A. (Jack A.), Raikkonen, K. (Katri), Yang, I. V. (Ivana, V), Kechris, K. (Katerina), Nawrot, T. S. (Tim S.), Silver, M. J. (Matt J.), Gong, Y. Y. (Yun Yun), Richiardi, L. (Lorenzo), Kogevinas, M. (Manolis), Litonjua, A. A. (Augusto A.), Eskenazi, B. (Brenda), Huen, K. (Karen), Mbarek, H. (Hamdi), Maguire, R. L. (Rachel L.), Dwyer, T. (Terence), Vrijheid, M. (Martine), Bouchard, L. (Luigi), Baccarelli, A. A. (Andrea A.), Croen, L. A. (Lisa A.), Karmaus, W. (Wilfried), Anderson, D. (Denise), de Vries, M. (Maaike), Sebert, S. (Sylvain), Kere, J. (Juha), Karlsson, R. (Robert), Arshad, S. H. (Syed Hasan), Hamalainen, E. (Esa), Routledge, M. N. (Michael N.), Boomsma, D. I. (Dorret, I), Feinberg, A. P. (Andrew P.), Newschaffer, C. J. (Craig J.), Govarts, E. (Eva), Moisse, M. (Matthieu), Fallin, M. D. (M. Daniele), Melen, E. (Erik), Prentice, A. M. (Andrew M.), Kajantie, E. (Eero), Almqvist, C. (Catarina), Oken, E. (Emily), Dabelea, D. (Dana), Boezen, H. M. (H. Marike), Melton, P. E. (Phillip E.), Wright, R. J. (Rosalind J.), Koppelman, G. H. (Gerard H.), Trevisi, L. (Letizia), Hivert, M.-F. (Marie-France), Sunyer, J. (Jordi), Munthe-Kaas, M. C. (Monica C.), Murphy, S. K. (Susan K.), Corpeleijn, E. (Eva), Wiemels, J. (Joseph), Holland, N. (Nina), Herceg, Z. (Zdenko), Binder, E. B. (Elisabeth B.), Smith, G. D. (George Davey), Jaddoe, V. W. (Vincent W. V.), Lie, R. T. (Rolv T.), Nystad, W. (Wenche), London, S. J. (Stephanie J.), Lawlor, D. A. (Debbie A.), Relton, C. L. (Caroline L.), Snieder, H. (Harold), Felix, J. F. (Janine F.), Kupers, L. K. (Leanne K.), Monnereau, C. (Claire), Sharp, G. C. (Gemma C.), Yousefi, P. (Paul), Salas, L. A. (Lucas A.), Ghantous, A. (Akram), Page, C. M. (Christian M.), Reese, S. E. (Sarah E.), Wilcox, A. J. (Allen J.), Czamara, D. (Darina), Starling, A. P. (Anne P.), Novoloaca, A. (Alexei), Lent, S. (Samantha), Roy, R. (Ritu), Hoyo, C. (Cathrine), Breton, C. V. (Carrie, V), Allard, C. (Catherine), Just, A. C. (Allan C.), Bakulski, K. M. (Kelly M.), Holloway, J. W. (John W.), Everson, T. M. (Todd M.), Xu, C.-J. (Cheng-Jian), Huang, R.-C. (Rae-Chi), van der Plaat, D. A. (Diana A.), Wielscher, M. (Matthias), Merid, S. K. (Simon Kebede), Ullemar, V. (Vilhelmina), Rezwan, F. I. (Faisal, I), Lahti, J. (Jari), van Dongen, J. (Jenny), Langie, S. A. (Sabine A. S.), Richardson, T. G. (Tom G.), Magnus, M. C. (Maria C.), Nohr, E. A. (Ellen A.), Xu, Z. (Zongli), Duijts, L. (Liesbeth), Zhao, S. (Shanshan), Zhang, W. (Weiming), Plusquin, M. (Michelle), DeMeo, D. L. (Dawn L.), Solomon, O. (Olivia), Heimovaara, J. H. (Joosje H.), Jima, D. D. (Dereje D.), Gao, L. (Lu), Bustamante, M. (Mariona), Perron, P. (Patrice), Wright, R. O. (Robert O.), Hertz-Picciotto, I. (Irva), Zhang, H. (Hongmei), Karagas, M. R. (Margaret R.), Gehring, U. (Ulrike), Marsit, C. J. (Carmen J.), Beilin, L. J. (Lawrence J.), Vonk, J. M. (Judith M.), Jarvelin, M.-R. (Marjo-Riitta), Bergstrom, A. (Anna), Ortqvist, A. K. (Anne K.), Ewart, S. (Susan), Villa, P. M. (Pia M.), Moore, S. E. (Sophie E.), Willemsen, G. (Gonneke), Standaert, A. R. (Arnout R. L.), Haberg, S. E. (Siri E.), Sorensen, T. I. (Thorkild I. A.), Taylor, J. A. (Jack A.), Raikkonen, K. (Katri), Yang, I. V. (Ivana, V), Kechris, K. (Katerina), Nawrot, T. S. (Tim S.), Silver, M. J. (Matt J.), Gong, Y. Y. (Yun Yun), Richiardi, L. (Lorenzo), Kogevinas, M. (Manolis), Litonjua, A. A. (Augusto A.), Eskenazi, B. (Brenda), Huen, K. (Karen), Mbarek, H. (Hamdi), Maguire, R. L. (Rachel L.), Dwyer, T. (Terence), Vrijheid, M. (Martine), Bouchard, L. (Luigi), Baccarelli, A. A. (Andrea A.), Croen, L. A. (Lisa A.), Karmaus, W. (Wilfried), Anderson, D. (Denise), de Vries, M. (Maaike), Sebert, S. (Sylvain), Kere, J. (Juha), Karlsson, R. (Robert), Arshad, S. H. (Syed Hasan), Hamalainen, E. (Esa), Routledge, M. N. (Michael N.), Boomsma, D. I. (Dorret, I), Feinberg, A. P. (Andrew P.), Newschaffer, C. J. (Craig J.), Govarts, E. (Eva), Moisse, M. (Matthieu), Fallin, M. D. (M. Daniele), Melen, E. (Erik), Prentice, A. M. (Andrew M.), Kajantie, E. (Eero), Almqvist, C. (Catarina), Oken, E. (Emily), Dabelea, D. (Dana), Boezen, H. M. (H. Marike), Melton, P. E. (Phillip E.), Wright, R. J. (Rosalind J.), Koppelman, G. H. (Gerard H.), Trevisi, L. (Letizia), Hivert, M.-F. (Marie-France), Sunyer, J. (Jordi), Munthe-Kaas, M. C. (Monica C.), Murphy, S. K. (Susan K.), Corpeleijn, E. (Eva), Wiemels, J. (Joseph), Holland, N. (Nina), Herceg, Z. (Zdenko), Binder, E. B. (Elisabeth B.), Smith, G. D. (George Davey), Jaddoe, V. W. (Vincent W. V.), Lie, R. T. (Rolv T.), Nystad, W. (Wenche), London, S. J. (Stephanie J.), Lawlor, D. A. (Debbie A.), Relton, C. L. (Caroline L.), Snieder, H. (Harold), and Felix, J. F. (Janine F.)
Abstract: Birthweight is associated with health outcomes across the life course, DNA methylation may be an underlying mechanism. In this meta-analysis of epigenome-wide association studies of 8,825 neonates from 24 birth cohorts in the Pregnancy And Childhood Epigenetics Consortium, we find that DNA methylation in neonatal blood is associated with birthweight at 914 sites, with a difference in birthweight ranging from −183 to 178 grams per 10% increase in methylation (PBonferroni < 1.06 x 10−7). In additional analyses in 7,278 participants, <1.3% of birthweight-associated differential methylation is also observed in childhood and adolescence, but not adulthood. Birthweight-related CpGs overlap with some Bonferroni-significant CpGs that were previously reported to be related to maternal smoking (55/914, p = 6.12 x 10−74) and BMI in pregnancy (3/914, p = 1.13x10−3), but not with those related to folate levels in pregnancy. Whether the associations that we observe are causal or explained by confounding or fetal growth influencing DNA methylation (i.e. reverse causality) requires further research.
Published: 2019

10. Migraine polygenic risk score associates with efficacy of migraine-specific drugs

Author: Kogelman, L. J. (Lisette J. A.), Esserlind, A.-L. (Ann-Louise), Christensen, A. F. (Anne Francke), Awasthi, S. (Swapnil), Ripke, S. (Stephan), Ingason, A. (Andres), Davidsson, O. B. (Olafur B.), Erikstrup, C. (Christian), Hjalgrim, H. (Henrik), Ullum, H. (Henrik), Olesen, J. (Jes), Hansen, T. F. (Thomas Folkmann), Gudbjartsson, D. (Daniel), Gastafsson, O. (Omar), Stefansson, K. (Kari), Stefansson, H. (Hreinn), Porsteinsdottir, U. (Unnur), Andersen, S. (Steffen), Banasik, K. (Karina), Brunak, S. (Soren), Buil, A. (Alfonso), Burgdorf, K. (Kristoffer), Gregor, J. (Jemec), Jennum, P. (Poul), Nielsen, K. R. (Kasper Rene), Nyegaard, M. (Mette), Paarup, H. M. (Helene Mariana), Pedersen, O. B. (Ole Birger), Sorensen, E. (Erik), Werge, T. (Thomas), Anttila, V. (Verneri), Artto, V. (Ville), Belin, A. C. (Andrea Carmine), de Boer, I. (Irene), Boomsma, D. I. (Dorret, I), Borte, S. (Sigrid), Chasman, D. I. (Daniel, I), Cherkas, L. (Lynn), Cormand, B. (Bru), Cuenca-Leon, E. (Ester), Davey-Smith, G. (George), Dichgans, M. (Martin), van Duijn, C. (Cornelia), Esko, T. (Tonu), Ferrari, M. (Michel), Frants, R. R. (Rune R.), Freilinger, T. (Tobias), Furlotte, N. (Nick), Gormley, P. (Padhraig), Griffiths, L. (Lyn), Hamalainen, E. (Eija), Hiekkala, M. (Marjo), Ikram, M. A. (M. Arfan), Järvelin, M.-R. (Marjo-Riitta), Kajanne, R. (Risto), Kallela, M. (Mikko), Kaprio, J. (Jaakko), Kaunisto, M. (Mari), Kubisch, C. (Christian), Kurki, M. (Mitja), Kurth, T. (Tobias), Launer, L. (Lenore), Lehtimaki, T. (Terho), Lessel, D. (Davor), Ligthart, L. (Lannie), Litterman, N. (Nadia), van den Maagdenberg, A. (Arn), Macaya, A. (Alfons), Malik, R. (Rainer), Mangino, M. (Massimo), McMahon, G. (George), Muller-Myhsok, B. (Bertram), Neale, B. M. (Benjamin M.), Northover, C. (Carrie), Nyholt, D. R. (Dale R.), Palotie, A. (Aarno), Palta, P. (Priit), Pedersen, L. (Linda), Pedersen, N. (Nancy), Posthuma, D. (Danielle), Pozo-Rosich, P. (Patricia), Pressman, A. (Alice), Raitakari, O. (Olli), Schurks, M. (Markus), Sintas, C. (Celia), Steinberg, S. (Stacy), Strachan, D. (David), Terwindt, G. (Gisela), Vila-Pueyo, M. (Marta), Wessman, M. (Maija), Winsvold, B. S. (Bendik S.), Zhao, H. (Huiying), Zwart, J.-A. (John-Anker), Kogelman, L. J. (Lisette J. A.), Esserlind, A.-L. (Ann-Louise), Christensen, A. F. (Anne Francke), Awasthi, S. (Swapnil), Ripke, S. (Stephan), Ingason, A. (Andres), Davidsson, O. B. (Olafur B.), Erikstrup, C. (Christian), Hjalgrim, H. (Henrik), Ullum, H. (Henrik), Olesen, J. (Jes), Hansen, T. F. (Thomas Folkmann), Gudbjartsson, D. (Daniel), Gastafsson, O. (Omar), Stefansson, K. (Kari), Stefansson, H. (Hreinn), Porsteinsdottir, U. (Unnur), Andersen, S. (Steffen), Banasik, K. (Karina), Brunak, S. (Soren), Buil, A. (Alfonso), Burgdorf, K. (Kristoffer), Gregor, J. (Jemec), Jennum, P. (Poul), Nielsen, K. R. (Kasper Rene), Nyegaard, M. (Mette), Paarup, H. M. (Helene Mariana), Pedersen, O. B. (Ole Birger), Sorensen, E. (Erik), Werge, T. (Thomas), Anttila, V. (Verneri), Artto, V. (Ville), Belin, A. C. (Andrea Carmine), de Boer, I. (Irene), Boomsma, D. I. (Dorret, I), Borte, S. (Sigrid), Chasman, D. I. (Daniel, I), Cherkas, L. (Lynn), Cormand, B. (Bru), Cuenca-Leon, E. (Ester), Davey-Smith, G. (George), Dichgans, M. (Martin), van Duijn, C. (Cornelia), Esko, T. (Tonu), Ferrari, M. (Michel), Frants, R. R. (Rune R.), Freilinger, T. (Tobias), Furlotte, N. (Nick), Gormley, P. (Padhraig), Griffiths, L. (Lyn), Hamalainen, E. (Eija), Hiekkala, M. (Marjo), Ikram, M. A. (M. Arfan), Järvelin, M.-R. (Marjo-Riitta), Kajanne, R. (Risto), Kallela, M. (Mikko), Kaprio, J. (Jaakko), Kaunisto, M. (Mari), Kubisch, C. (Christian), Kurki, M. (Mitja), Kurth, T. (Tobias), Launer, L. (Lenore), Lehtimaki, T. (Terho), Lessel, D. (Davor), Ligthart, L. (Lannie), Litterman, N. (Nadia), van den Maagdenberg, A. (Arn), Macaya, A. (Alfons), Malik, R. (Rainer), Mangino, M. (Massimo), McMahon, G. (George), Muller-Myhsok, B. (Bertram), Neale, B. M. (Benjamin M.), Northover, C. (Carrie), Nyholt, D. R. (Dale R.), Palotie, A. (Aarno), Palta, P. (Priit), Pedersen, L. (Linda), Pedersen, N. (Nancy), Posthuma, D. (Danielle), Pozo-Rosich, P. (Patricia), Pressman, A. (Alice), Raitakari, O. (Olli), Schurks, M. (Markus), Sintas, C. (Celia), Steinberg, S. (Stacy), Strachan, D. (David), Terwindt, G. (Gisela), Vila-Pueyo, M. (Marta), Wessman, M. (Maija), Winsvold, B. S. (Bendik S.), Zhao, H. (Huiying), and Zwart, J.-A. (John-Anker)
Abstract: Objective: To assess whether the polygenic risk score (PRS) for migraine is associated with acute and/or prophylactic migraine treatment response. Methods: We interviewed 2,219 unrelated patients at the Danish Headache Center using a semistructured interview to diagnose migraine and assess acute and prophylactic drug response. All patients were genotyped. A PRS was calculated with the linkage disequilibrium pred algorithm using summary statistics from the most recent migraine genome-wide association study comprising ∼375,000 cases and controls. The PRS was scaled to a unit corresponding to a twofold increase in migraine risk, using 929 unrelated Danish controls as reference. The association of the PRS with treatment response was assessed by logistic regression, and the predictive power of the model by area under the curve using a case-control design with treatment response as outcome. Results: A twofold increase in migraine risk associates with positive response to migraine-specific acute treatment (odds ratio [OR] = 1.25 [95% confidence interval (CI) = 1.05–1.49]). The association between migraine risk and migraine-specific acute treatment was replicated in an independent cohort consisting of 5,616 triptan users with prescription history (OR = 3.20 [95% CI = 1.26–8.14]). No association was found for acute treatment with non–migraine-specific weak analgesics and prophylactic treatment response. Conclusions: The migraine PRS can significantly identify subgroups of patients with a higher-than-average likelihood of a positive response to triptans, which provides a first step toward genetics-based precision medicine in migraine.
Published: 2019

11. Estrogen metabolism and excretion in Oriental and Caucasian women

Author: Adlercreutz, H., Gorbach, S.L., Goldin, B.R., Woods, M.N., Dwyer, J.T., and Hamalainen, E.
Subjects: Estrogen -- Physiological aspects, Breast cancer -- Risk factors, Disease susceptibility -- Physiological aspects, Health
Published: 1994

12. Meta-analysis of 375,000 individuals identifies 38 susceptibility loci for migraine (vol 48, pg 856, 2016)

Author: Gormley, P., Anttila, V., Winsvold, B.S., Palta, P., Esko, T., Pers, T.H., Farh, K.H., Cuenca-Leon, E., Muona, M., Furlotte, N.A., Kurth, T., Ingason, A., McMahon, G., Ligthart, L., Terwindt, G.M., Kallela, M., Freilinger, T.M., Ran, C., Gordon, S.G., Stam, A.H., Steinberg, S., Borck, G., Koiranen, M., Quaye, L., Adams, H.H.H., Lehtimaki, T., Sarin, A.P., Wedenoja, J., Hinds, D.A., Buring, J.E., Schurks, M., Ridker, P.M., Hrafnsdottir, M.G., Stefansson, H., Ring, S.M., Hottenga, J.J., Penninx, B.W.J.H., Farkkila, M., Artto, V., Kaunisto, M., Vepsalainen, S., Malik, R., Heath, A.C., Madden, P.A.F., Martin, N.G., Montgomery, G.W., Kurki, M.I., Kals, M., Magi, R., Parn, K., Hamalainen, E., Huang, H.L., Byrnes, A.E., Franke, L., Huang, J., Stergiakouli, E., Lee, P.H., Sandor, C., Webber, C., Cader, Z., Muller-Myhsok, B., Schreiber, S., Meitinger, T., Eriksson, J.G., Salomaa, V., Heikkila, K., Loehrer, E., Uitterlinden, A.G., Hofman, A., Duijn, C.M. van, Cherkas, L., Pedersen, L.M., Stubhaug, A., Nielsen, C.S., Mannikko, M., Mihailov, E., Milani, L., Gobel, H., Esserlind, A.L., Christensen, A.F., Hansen, T.F., Werge, T., Kaprio, J., Aromaa, A.J., Raitakari, O., Ikram, M.A., Spector, T., Jarvelin, M.R., Metspalu, A., Kubisch, C., Strachan, D.P., Ferrari, M.D., Belin, A.C., Dichgans, M., Wessman, M., Maagdenberg, A.M.J.M. van den, Zwart, J.A., Boomsma, D.I., Smith, G.D., Stefansson, K., Eriksson, N., Daly, M.J., Neale, B.M., Olesen, J., Chasman, D.I., Nyholt, D.R., Palotie, A., and Int Headache Genetics Consortium
Published: 2016

13. An epigenetic clock for gestational age at birth based on blood methylation data

Author: Knight, AK, Craig, JM, Theda, C, Baekvad-Hansen, M, Bybjerg-Grauholm, J, Hansen, CS, Hollegaard, MV, Hougaard, DM, Mortensen, PB, Weinsheimer, SM, Werge, TM, Brennan, PA, Cubells, JF, Newport, DJ, Stowe, ZN, Cheong, JLY, Dalach, P, Doyle, LW, Loke, YJ, Baccarelli, AA, Just, AC, Wright, RO, Tellez-Rojo, MM, Svensson, K, Trevisi, L, Kennedy, EM, Binder, EB, Iurato, S, Czamara, D, Raikkonen, K, Lahti, JMT, Pesonen, A-K, Kajantie, E, Villa, PM, Laivuori, H, Hamalainen, E, Park, HJ, Bailey, LB, Parets, SE, Kilaru, V, Menon, R, Horvath, S, Bush, NR, LeWinn, KZ, Tylavsky, FA, Conneely, KN, Smith, AK, Knight, AK, Craig, JM, Theda, C, Baekvad-Hansen, M, Bybjerg-Grauholm, J, Hansen, CS, Hollegaard, MV, Hougaard, DM, Mortensen, PB, Weinsheimer, SM, Werge, TM, Brennan, PA, Cubells, JF, Newport, DJ, Stowe, ZN, Cheong, JLY, Dalach, P, Doyle, LW, Loke, YJ, Baccarelli, AA, Just, AC, Wright, RO, Tellez-Rojo, MM, Svensson, K, Trevisi, L, Kennedy, EM, Binder, EB, Iurato, S, Czamara, D, Raikkonen, K, Lahti, JMT, Pesonen, A-K, Kajantie, E, Villa, PM, Laivuori, H, Hamalainen, E, Park, HJ, Bailey, LB, Parets, SE, Kilaru, V, Menon, R, Horvath, S, Bush, NR, LeWinn, KZ, Tylavsky, FA, Conneely, KN, and Smith, AK
Abstract: BACKGROUND: Gestational age is often used as a proxy for developmental maturity by clinicians and researchers alike. DNA methylation has previously been shown to be associated with age and has been used to accurately estimate chronological age in children and adults. In the current study, we examine whether DNA methylation in cord blood can be used to estimate gestational age at birth. RESULTS: We find that gestational age can be accurately estimated from DNA methylation of neonatal cord blood and blood spot samples. We calculate a DNA methylation gestational age using 148 CpG sites selected through elastic net regression in six training datasets. We evaluate predictive accuracy in nine testing datasets and find that the accuracy of the DNA methylation gestational age is consistent with that of gestational age estimates based on established methods, such as ultrasound. We also find that an increased DNA methylation gestational age relative to clinical gestational age is associated with birthweight independent of gestational age, sex, and ancestry. CONCLUSIONS: DNA methylation can be used to accurately estimate gestational age at or near birth and may provide additional information relevant to developmental stage. Further studies of this predictor are warranted to determine its utility in clinical settings and for research purposes. When clinical estimates are available this measure may increase accuracy in the testing of hypotheses related to developmental age and other early life circumstances.
Published: 2016

14. Pitfalls in genetic testing: the story of missed SCN1A mutations

Author: Djemie, T, Weckhuysen, S, von Spiczak, S, Carvill, GL, Jaehn, J, Anttonen, A-K, Brilstra, E, Caglayan, HS, de Kovel, CG, Depienne, C, Gaily, E, Hamalainen, E, Giraldez, BG, Gormley, P, Guerrero-Lopez, R, Guerrini, R, Hartmann, C, Hernandez-Hernandez, L, Hjalgrim, H, Koeleman, BPC, Leguern, E, Lehesjoki, A-E, Lemke, JR, Leu, C, Marini, C, McMahon, JM, Mei, D, Moller, RS, Muhle, H, Myers, CT, Nava, C, Serratosa, JM, Sisodiya, SM, Stephani, U, Striano, P, van Kempen, MJA, Verbeek, NE, Usluer, S, Zara, F, Palotie, A, Mefford, HC, Scheffer, IE, De Jonghe, P, Helbig, I, Suls, A, Djemie, T, Weckhuysen, S, von Spiczak, S, Carvill, GL, Jaehn, J, Anttonen, A-K, Brilstra, E, Caglayan, HS, de Kovel, CG, Depienne, C, Gaily, E, Hamalainen, E, Giraldez, BG, Gormley, P, Guerrero-Lopez, R, Guerrini, R, Hartmann, C, Hernandez-Hernandez, L, Hjalgrim, H, Koeleman, BPC, Leguern, E, Lehesjoki, A-E, Lemke, JR, Leu, C, Marini, C, McMahon, JM, Mei, D, Moller, RS, Muhle, H, Myers, CT, Nava, C, Serratosa, JM, Sisodiya, SM, Stephani, U, Striano, P, van Kempen, MJA, Verbeek, NE, Usluer, S, Zara, F, Palotie, A, Mefford, HC, Scheffer, IE, De Jonghe, P, Helbig, I, and Suls, A
Abstract: BACKGROUND: Sanger sequencing, still the standard technique for genetic testing in most diagnostic laboratories and until recently widely used in research, is gradually being complemented by next-generation sequencing (NGS). No single mutation detection technique is however perfect in identifying all mutations. Therefore, we wondered to what extent inconsistencies between Sanger sequencing and NGS affect the molecular diagnosis of patients. Since mutations in SCN1A, the major gene implicated in epilepsy, are found in the majority of Dravet syndrome (DS) patients, we focused on missed SCN1A mutations. METHODS: We sent out a survey to 16 genetic centers performing SCN1A testing. RESULTS: We collected data on 28 mutations initially missed using Sanger sequencing. All patients were falsely reported as SCN1A mutation-negative, both due to technical limitations and human errors. CONCLUSION: We illustrate the pitfalls of Sanger sequencing and most importantly provide evidence that SCN1A mutations are an even more frequent cause of DS than already anticipated.
Published: 2016

15. A Genome-wide Scan Identifies a Genetic Locus for Migraine with Aura

Author: Wessman, M., Kallela, M., Oswell, G., Kaunisto, M., Hartiala, J., Broas, P., Hamalainen, E., Marttila, P., Hiekkalinna, T., Joslyn, G. Papp, J., Leal, S.M., Cantor, R., Sobel, E., Ott, J., Havanka, H., Farkkila, M., Peltonen, L., and Palotie, A.
Subjects: Genetic disorders -- Research, Migraine -- Genetic aspects, Aura, Biological sciences
Published: 2001

16. Exclusion of CACNA1A and KCNN1 as candidate genes for migraine in three 19p13-linked Finnish families

Author: Kaunisto, M., Hamalainen, E., Kallela, M., Harno, H., Marttila, P., Hovatta, I., Orpana, A., Peltonen, L., Farkkila, M., Palotie, A., and Wessman, M.
Subjects: Genetic research -- Analysis, Human genetics -- Research, Migraine -- Genetic aspects, Hemiplegia -- Genetic aspects, Biological sciences
Published: 2000

17. Genome-wide Polygenic Burden of Rare Deleterious Variants in Sudden Unexpected Death in Epilepsy

Author: Leu, C, Balestrini, S, Maher, B, Hernandez-Hernandez, L, Gormley, P, Hamalainen, E, Heggeli, K, Schoeler, N, Novy, J, Willis, J, Plagnol, V, Ellis, R, Reavey, E, O'Regan, M, Pickrell, WO, Thomas, RH, Chung, S-K, Delanty, N, McMahon, JM, Malone, S, Sadleir, LG, Berkovic, SF, Nashef, L, Zuberi, SM, Rees, MI, Cavalleri, GL, Sander, JW, Hughes, E, Cross, JH, Scheffer, IE, Palotie, A, Sisodiya, SM, Leu, C, Balestrini, S, Maher, B, Hernandez-Hernandez, L, Gormley, P, Hamalainen, E, Heggeli, K, Schoeler, N, Novy, J, Willis, J, Plagnol, V, Ellis, R, Reavey, E, O'Regan, M, Pickrell, WO, Thomas, RH, Chung, S-K, Delanty, N, McMahon, JM, Malone, S, Sadleir, LG, Berkovic, SF, Nashef, L, Zuberi, SM, Rees, MI, Cavalleri, GL, Sander, JW, Hughes, E, Cross, JH, Scheffer, IE, Palotie, A, and Sisodiya, SM
Abstract: Sudden unexpected death in epilepsy (SUDEP) represents the most severe degree of the spectrum of epilepsy severity and is the commonest cause of epilepsy-related premature mortality. The precise pathophysiology and the genetic architecture of SUDEP remain elusive. Aiming to elucidate the genetic basis of SUDEP, we analysed rare, protein-changing variants from whole-exome sequences of 18 people who died of SUDEP, 87 living people with epilepsy and 1479 non-epilepsy disease controls. Association analysis revealed a significantly increased genome-wide polygenic burden per individual in the SUDEP cohort when compared to epilepsy (P = 5.7 × 10(- 3)) and non-epilepsy disease controls (P = 1.2 × 10(- 3)). The polygenic burden was driven both by the number of variants per individual, and over-representation of variants likely to be deleterious in the SUDEP cohort. As determined by this study, more than a thousand genes contribute to the observed polygenic burden within the framework of this study. Subsequent gene-based association analysis revealed five possible candidate genes significantly associated with SUDEP or epilepsy, but no one single gene emerges as common to the SUDEP cases. Our findings provide further evidence for a genetic susceptibility to SUDEP, and suggest an extensive polygenic contribution to SUDEP causation. Thus, an overall increased burden of deleterious variants in a highly polygenic background might be important in rendering a given individual more susceptible to SUDEP. Our findings suggest that exome sequencing in people with epilepsy might eventually contribute to generating SUDEP risk estimates, promoting stratified medicine in epilepsy, with the eventual aim of reducing an individual patient's risk of SUDEP.
Published: 2015

18. Genome-wide association study of migraine implicates a common susceptibility variant on 8q22.1

Author: Anttila, V., Stefansson, H., Kallela, M., Todt, U., Terwindt, G.M., Calafato, M.S., Nyholt, D.R., Dimas, A.S., Freilinger, T., Muller-Myhsok, B., Artto, V., Inouye, M., Alakurtti, K., Kaunisto, M.A., Hamalainen, E., Vries, B. de, Stam, A.H., Weller, C.M., Heinze, A., Heinze-Kuhn, K., Goebel, I., Borck, G., Gobel, H., Steinberg, S., Wolf, C., Bjornsson, A., Gudmundsson, G., Kirchmann, M., Hauge, A., Werge, T., Schoenen, J., Eriksson, J.G., Hagen, K., Stovner, L., Wichmann, E., Meitinger, T., Alexander, M., Moebus, S., Schreiber, S., Aulchenko, Y.S., Breteler, M.M.B., Uitterlinden, A.G., Hofman, A., Duijn, C.M. van, Tikka-Kleemola, P., Vepsalainen, Lucae, S., Tozzi, F., Muglia, P., Barrett, J., Kaprio, J., Farkkila, M., Peltonen, L., Stefansson, K., Zwart, J.A., Ferrari, M.D., Olesen, J., Daly, M., Wessman, M., Maagdenberg, A.M.J.M. van den, Dichgans, M., Kubisch, C., Dermitzakis, E.T., Frants, R.R., Palotie, A., and Int Headache Genetics Consortium
Subjects: familial hemiplegic migraine lymphoblastoid cell-lines gene-expression episodic ataxia spreading depression confers risk mutation type-2 involvement mechanisms
Abstract: Migraine is a common episodic neurological disorder, typically presenting with recurrent attacks of severe headache and autonomic dysfunction. Apart from rare monogenic subtypes, no genetic or molecular markers for migraine have been convincingly established. We identified the minor allele of rs1835740 on chromosome 8q22.1 to be associated with migraine (P = 5.38 x 10(-9), odds ratio = 1.23, 95% CI 1.150-1.324) in a genome-wide association study of 2,731 migraine cases ascertained from three European headache clinics and 10,747 population-matched controls. The association was replicated in 3,202 cases and 40,062 controls for an overall meta-analysis P value of 1.69 x 10(-11) (odds ratio = 1.18, 95% CI 1.127-1.244). rs1835740 is located between MTDH (astrocyte elevated gene 1, also known as AEG-1) and PGCP (encoding plasma glutamate carboxypeptidase). In an expression quantitative trait study in lymphoblastoid cell lines, transcript levels of the MTDH were found to have a significant correlation to rs1835740 (P = 3.96 x 10(-5), permuted threshold for genome-wide significance 7.7 x 10(-5)). To our knowledge, our data establish rs1835740 as the first genetic risk factor for migraine.
Published: 2010

19. Distribution and Medical Impact of Loss-of-Function Variants in the Finnish Founder Population

Author: Cutler, D, Lim, ET, Wuertz, P, Havulinna, AS, Palta, P, Tukiainen, T, Rehnstrom, K, Esko, T, Magi, R, Inouye, M, Lappalainen, T, Chan, Y, Salem, RM, Lek, M, Flannick, J, Sim, X, Manning, A, Ladenvall, C, Bumpstead, S, Hamalainen, E, Aalto, K, Maksimow, M, Salmi, M, Blankenberg, S, Ardissino, D, Shah, S, Horne, B, McPherson, R, Hovingh, GK, Reilly, MP, Watkins, H, Goel, A, Farrall, M, Girelli, D, Reiner, AP, Stitziel, NO, Kathiresan, S, Gabriel, S, Barrett, JC, Lehtimaki, T, Laakso, M, Groop, L, Kaprio, J, Perola, M, McCarthy, MI, Boehnke, M, Altshuler, DM, Lindgren, CM, Hirschhorn, JN, Metspalu, A, Freimer, NB, Zeller, T, Jalkanen, S, Koskinen, S, Raitakari, O, Durbin, R, MacArthur, DG, Salomaa, V, Ripatti, S, Daly, MJ, Palotie, A, Cutler, D, Lim, ET, Wuertz, P, Havulinna, AS, Palta, P, Tukiainen, T, Rehnstrom, K, Esko, T, Magi, R, Inouye, M, Lappalainen, T, Chan, Y, Salem, RM, Lek, M, Flannick, J, Sim, X, Manning, A, Ladenvall, C, Bumpstead, S, Hamalainen, E, Aalto, K, Maksimow, M, Salmi, M, Blankenberg, S, Ardissino, D, Shah, S, Horne, B, McPherson, R, Hovingh, GK, Reilly, MP, Watkins, H, Goel, A, Farrall, M, Girelli, D, Reiner, AP, Stitziel, NO, Kathiresan, S, Gabriel, S, Barrett, JC, Lehtimaki, T, Laakso, M, Groop, L, Kaprio, J, Perola, M, McCarthy, MI, Boehnke, M, Altshuler, DM, Lindgren, CM, Hirschhorn, JN, Metspalu, A, Freimer, NB, Zeller, T, Jalkanen, S, Koskinen, S, Raitakari, O, Durbin, R, MacArthur, DG, Salomaa, V, Ripatti, S, Daly, MJ, and Palotie, A
Abstract: Exome sequencing studies in complex diseases are challenged by the allelic heterogeneity, large number and modest effect sizes of associated variants on disease risk and the presence of large numbers of neutral variants, even in phenotypically relevant genes. Isolated populations with recent bottlenecks offer advantages for studying rare variants in complex diseases as they have deleterious variants that are present at higher frequencies as well as a substantial reduction in rare neutral variation. To explore the potential of the Finnish founder population for studying low-frequency (0.5-5%) variants in complex diseases, we compared exome sequence data on 3,000 Finns to the same number of non-Finnish Europeans and discovered that, despite having fewer variable sites overall, the average Finn has more low-frequency loss-of-function variants and complete gene knockouts. We then used several well-characterized Finnish population cohorts to study the phenotypic effects of 83 enriched loss-of-function variants across 60 phenotypes in 36,262 Finns. Using a deep set of quantitative traits collected on these cohorts, we show 5 associations (p<5×10⁻⁸) including splice variants in LPA that lowered plasma lipoprotein(a) levels (P = 1.5×10⁻¹¹⁷). Through accessing the national medical records of these participants, we evaluate the LPA finding via Mendelian randomization and confirm that these splice variants confer protection from cardiovascular disease (OR = 0.84, P = 3×10⁻⁴), demonstrating for the first time the correlation between very low levels of LPA in humans with potential therapeutic implications for cardiovascular diseases. More generally, this study articulates substantial advantages for studying the role of rare variation in complex phenotypes in founder populations like the Finns and by combining a unique population genetic history with data from large population cohorts and centralized research access to National Health Registers.
Published: 2014

20. Genome-wide meta-analysis identifies new susceptibility loci for migraine

Author: Anttila, V., Winsvold, B.S., Gormley, P., Kurth, T., Bettella, F., McMahon, G., Kallela, M., Malik, R., de Vries, B., Terwindt, G., Medland, S.E., Todt, U., McArdle, W.L., Quaye, L., Koiranen, M., Ikram, M.A., Lehtimäki, T., Stam, A.H., Ligthart, L., Wedenoja, J., Dunham, I., Neale, B. M., Palta, P., Hamalainen, E., Schürks, M., Rose, L.M., Buring, J.E., Ridker, P.M., Steinberg, S., Stefansson, H., Jakobsson, F., Lawlor, D.A., Evans, D.M., Ring, S.M., Färkkilä, M., Artto, V., Kaunisto, M.A., Freilinger, T., Schoenen, J., Frants, R.R., Pelzer, N., Weller, C.M., Zielman, R., Heath, A.C., Madden, P.A.F., Montgomery, G.W., Martin, N.G., Borck, G., Göbel, H., Heinze, A., Heinze-Kuhn, K., Williams, F.M., Hartikainen, A.-L., Pouta, A., van den Ende, J.., Uitterlinden, A.G., Hofman, A., Amin, N., Hottenga, J.J., Vink, J.M., Heikkilä, K., Alexander, M., Muller-Myhsok, B., Schreiber, S, Meitinger, T., Wichmann, H. E., Aromaa, A., Eriksson, J.G., Traynor, B.J., Trabzuni, D., Rossin, E., Lage, K., Jacobs, S.B., Gibbs, J.R., Birney, E., Kaprio, J., Penninx, B.W.J.H., Boomsma, D.I., van Duijn, C.M., Raitakari, O., Jarvelin, M.-R., Zwart, J.A., Cherkas, L., Strachan, D.P., Kubisch, C., Ferrari, M.D., van den Maagdenberg, A.M.J.M., Dichgans, M., Wessman, M., Smith, G.D., Stefansson, K., Daly, M.J., Nyholt, DR, Chasman, D.I., Palotie, A., Anttila, V., Winsvold, B.S., Gormley, P., Kurth, T., Bettella, F., McMahon, G., Kallela, M., Malik, R., de Vries, B., Terwindt, G., Medland, S.E., Todt, U., McArdle, W.L., Quaye, L., Koiranen, M., Ikram, M.A., Lehtimäki, T., Stam, A.H., Ligthart, L., Wedenoja, J., Dunham, I., Neale, B. M., Palta, P., Hamalainen, E., Schürks, M., Rose, L.M., Buring, J.E., Ridker, P.M., Steinberg, S., Stefansson, H., Jakobsson, F., Lawlor, D.A., Evans, D.M., Ring, S.M., Färkkilä, M., Artto, V., Kaunisto, M.A., Freilinger, T., Schoenen, J., Frants, R.R., Pelzer, N., Weller, C.M., Zielman, R., Heath, A.C., Madden, P.A.F., Montgomery, G.W., Martin, N.G., Borck, G., Göbel, H., Heinze, A., Heinze-Kuhn, K., Williams, F.M., Hartikainen, A.-L., Pouta, A., van den Ende, J.., Uitterlinden, A.G., Hofman, A., Amin, N., Hottenga, J.J., Vink, J.M., Heikkilä, K., Alexander, M., Muller-Myhsok, B., Schreiber, S, Meitinger, T., Wichmann, H. E., Aromaa, A., Eriksson, J.G., Traynor, B.J., Trabzuni, D., Rossin, E., Lage, K., Jacobs, S.B., Gibbs, J.R., Birney, E., Kaprio, J., Penninx, B.W.J.H., Boomsma, D.I., van Duijn, C.M., Raitakari, O., Jarvelin, M.-R., Zwart, J.A., Cherkas, L., Strachan, D.P., Kubisch, C., Ferrari, M.D., van den Maagdenberg, A.M.J.M., Dichgans, M., Wessman, M., Smith, G.D., Stefansson, K., Daly, M.J., Nyholt, DR, Chasman, D.I., and Palotie, A.
Abstract: Migraine is the most common brain disorder, affecting approximately 14% of the adult population, but its molecular mechanisms are poorly understood. We report the results of a meta-analysis across 29 genome-wide association studies, including a total of 23,285 individuals with migraine (cases) and 95,425 population-matched controls. We identified 12 loci associated with migraine susceptibility (P < 5 × 10
Published: 2013
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21. An Immune Response Network Associated with Blood Lipid Levels

Author: Barsh, GS, Inouye, M, Silander, K, Hamalainen, E, Salomaa, V, Harald, K, Jousilahti, P, Mannisto, S, Eriksson, JG, Saarela, J, Ripatti, S, Perola, M, van Ommen, G-JB, Taskinen, M-R, Palotie, A, Dermitzakis, ET, Peltonen, L, Barsh, GS, Inouye, M, Silander, K, Hamalainen, E, Salomaa, V, Harald, K, Jousilahti, P, Mannisto, S, Eriksson, JG, Saarela, J, Ripatti, S, Perola, M, van Ommen, G-JB, Taskinen, M-R, Palotie, A, Dermitzakis, ET, and Peltonen, L
Abstract: While recent scans for genetic variation associated with human disease have been immensely successful in uncovering large numbers of loci, far fewer studies have focused on the underlying pathways of disease pathogenesis. Many loci which are associated with disease and complex phenotypes map to non-coding, regulatory regions of the genome, indicating that modulation of gene transcription plays a key role. Thus, this study generated genome-wide profiles of both genetic and transcriptional variation from the total blood extracts of over 500 randomly-selected, unrelated individuals. Using measurements of blood lipids, key players in the progression of atherosclerosis, three levels of biological information are integrated in order to investigate the interactions between circulating leukocytes and proximal lipid compounds. Pair-wise correlations between gene expression and lipid concentration indicate a prominent role for basophil granulocytes and mast cells, cell types central to powerful allergic and inflammatory responses. Network analysis of gene co-expression showed that the top associations function as part of a single, previously unknown gene module, the Lipid Leukocyte (LL) module. This module replicated in T cells from an independent cohort while also displaying potential tissue specificity. Further, genetic variation driving LL module expression included the single nucleotide polymorphism (SNP) most strongly associated with serum immunoglobulin E (IgE) levels, a key antibody in allergy. Structural Equation Modeling (SEM) indicated that LL module is at least partially reactive to blood lipid levels. Taken together, this study uncovers a gene network linking blood lipids and circulating cell types and offers insight into the hypothesis that the inflammatory response plays a prominent role in metabolism and the potential control of atherogenesis.
Published: 2010

22. P18. Angiogenic factors for the prediction of early- and late onset preeclampsia in a high risk cohort

Author: Villa, P.M., primary, Hamalainen, E., additional, Pesonen, A., additional, Raikkonen, K., additional, Taipale, P., additional, Kajantie, E., additional, and Laivuori, H., additional
Published: 2011
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23. 45 Use of somatically acquired genomic rearrangements as biomarkers in solid tumours

Author: McBride, D.J., primary, Orpana, A., additional, Sotiriou, C., additional, Joensuu, H., additional, Stephens, P.J., additional, Hamalainen, E., additional, Stebbings, L.A., additional, Futreal, P.A., additional, Stratton, M.R., additional, and Campbell, P.J., additional
Published: 2010
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24. A visual migraine aura locus maps to 9q21-q22

Author: Tikka-Kleemola, P., primary, Artto, V., additional, Vepsalainen, S., additional, Sobel, E. M., additional, Raty, S., additional, Kaunisto, M. A., additional, Anttila, V., additional, Hamalainen, E., additional, Sumelahti, M. L., additional, Ilmavirta, M., additional, Farkkila, M., additional, Kallela, M., additional, Palotie, A., additional, and Wessman, M., additional
Published: 2010
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25. Hematopoiesis in the first trimester human placenta: a model for understanding human stem cell development

Author: Huang, A., primary, Van Handel, B., additional, Prashad, S., additional, Hamalainen, E., additional, Magnusson, M., additional, and Mikkola, H., additional
Published: 2007
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26. Defining Fetal Hematopoietic Microenvironments to Understand Human Stem Cell Development

Author: Huang, A., primary, Prasad, S., additional, Hamalainen, E., additional, and Mikkola, H., additional
Published: 2007
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27. Deficiency in the A-subunit of coagulation factor XIII: two novel point mutations demonstrate different effects on transcript levels

Author: Mikkola, H, primary, Syrjala, M, additional, Rasi, V, additional, Vahtera, E, additional, Hamalainen, E, additional, Peltonen, L, additional, and Palotie, A, additional
Published: 1994
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28. Genomic hypomethylation in human chronic lymphocytic leukemia

Author: Wahlfors, J, primary, Hiltunen, H, additional, Heinonen, K, additional, Hamalainen, E, additional, Alhonen, L, additional, and Janne, J, additional
Published: 1992
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29. Rapid and reliable separation of 5 alpha-dihydrotestosterone from testosterone on silica gel microcolumns

Author: Hamalainen, E. K., Fotsis, T., and Adlercreutz, H.
Subjects: Male, Chromatography, Gel/*methods, Radioimmunoassay, Humans, Silica Gel, Testosterone/*isolation & purification, Dihydrotestosterone/*isolation & purification, Female, Silicon Dioxide
Abstract: Clin Chim Acta
Published: 1984

30. Genetic studies on Finnish families with familial hemiplegic migraine

Author: Mari Anneli Kaunisto, Mikko Kallela, Marttila, P., Markus Färkkilä, Havanka, H., Hamalainen, E., Iiris Hovatta, Arto Orpana, Peltonen, L., Aarno Palotie, and Wessman, M.

31. Wnts as tools and tools for Wnts

Author: Mursula, A., Beatrix Fahnert, Krapu, S., Hamalainen, E. R., Isomaki, R., and Neubauer, P.

32. Exclusion of CACNA1A and KCNN1 as candidate genes for migraine in three 19p13-linked Finnish families

Author: Mari Anneli Kaunisto, Hamalainen, E., Mikko Kallela, Harno, H., Marttila, P., Iiris Hovatta, Arto Orpana, Peltonen, L., Markus Färkkilä, Aarno Palotie, and Wessman, M.

33. Diet and plasma androgens in postmenopausal vegetarian and omnivorous women and postmenopausal women with breast cancer

Author: Adlercreutz, H, primary, Hamalainen, E, additional, Gorbach, SL, additional, Goldin, BR, additional, Woods, MM, additional, and Dwyer, JT, additional
Published: 1989
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34. Effect of oxytetracycline administration on intestinal metabolism of oestrogens and on plasma sex hormones in healthy men.

Author: Hamalainen, E, primary, Korpela, J T, additional, and Adlercreutz, H, additional
Published: 1987
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35. Urinary excretion of lignans and isoflavonoid phytoestrogens in Japanese men and women consuming a traditional Japanese diet

Author: Hasegawa, T., Higashi, A., Okada, H. Hamalainen, T. Hasegawa, and H. Okada, Hamalainen, E., Fotsis, T., Honjo, H., and Adlercreutz, H.
Published: 1991

36. Simultaneous investigation of dietary and plasma copper, zinc, iron and selenium in pre- and post-menopausal omnivores, vegetarians and patients with early breast cancer.

Author: Dabek J, Hyvonen-Dabek M, Adlercreutz H, Harkonen M, Hamalainen E, Ollus A, and Kupila-Rantala T
Published: 1994
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37. The 22q11.2 region regulates presynaptic gene-products linked to schizophrenia.

Author: Nehme R, Pietiläinen O, Artomov M, Tegtmeyer M, Valakh V, Lehtonen L, Bell C, Singh T, Trehan A, Sherwood J, Manning D, Peirent E, Malik R, Guss EJ, Hawes D, Beccard A, Bara AM, Hazelbaker DZ, Zuccaro E, Genovese G, Loboda AA, Neumann A, Lilliehook C, Kuismin O, Hamalainen E, Kurki M, Hultman CM, Kähler AK, Paulo JA, Ganna A, Madison J, Cohen B, McPhie D, Adolfsson R, Perlis R, Dolmetsch R, Farhi S, McCarroll S, Hyman S, Neale B, Barrett LE, Harper W, Palotie A, Daly M, and Eggan K
Subjects: Cell Line, Humans, Neurons, RNA, DiGeorge Syndrome genetics, Induced Pluripotent Stem Cells, Schizophrenia genetics
Abstract: It is unclear how the 22q11.2 deletion predisposes to psychiatric disease. To study this, we generated induced pluripotent stem cells from deletion carriers and controls and utilized CRISPR/Cas9 to introduce the heterozygous deletion into a control cell line. Here, we show that upon differentiation into neural progenitor cells, the deletion acted in trans to alter the abundance of transcripts associated with risk for neurodevelopmental disorders including autism. In excitatory neurons, altered transcripts encoded presynaptic factors and were associated with genetic risk for schizophrenia, including common and rare variants. To understand how the deletion contributed to these changes, we defined the minimal protein-protein interaction network that best explains gene expression alterations. We found that many genes in 22q11.2 interact in presynaptic, proteasome, and JUN/FOS transcriptional pathways. Our findings suggest that the 22q11.2 deletion impacts genes that may converge with psychiatric risk loci to influence disease manifestation in each deletion carrier., (© 2022. The Author(s).)
Published: 2022
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38. Genome-wide meta-analysis identifies new susceptibility loci for migraine.

Author: Anttila V, Winsvold BS, Gormley P, Kurth T, Bettella F, McMahon G, Kallela M, Malik R, de Vries B, Terwindt G, Medland SE, Todt U, McArdle WL, Quaye L, Koiranen M, Ikram MA, Lehtimäki T, Stam AH, Ligthart L, Wedenoja J, Dunham I, Neale BM, Palta P, Hamalainen E, Schürks M, Rose LM, Buring JE, Ridker PM, Steinberg S, Stefansson H, Jakobsson F, Lawlor DA, Evans DM, Ring SM, Färkkilä M, Artto V, Kaunisto MA, Freilinger T, Schoenen J, Frants RR, Pelzer N, Weller CM, Zielman R, Heath AC, Madden PAF, Montgomery GW, Martin NG, Borck G, Göbel H, Heinze A, Heinze-Kuhn K, Williams FMK, Hartikainen AL, Pouta A, van den Ende J, Uitterlinden AG, Hofman A, Amin N, Hottenga JJ, Vink JM, Heikkilä K, Alexander M, Muller-Myhsok B, Schreiber S, Meitinger T, Wichmann HE, Aromaa A, Eriksson JG, Traynor B, Trabzuni D, Rossin E, Lage K, Jacobs SBR, Gibbs JR, Birney E, Kaprio J, Penninx BW, Boomsma DI, van Duijn C, Raitakari O, Jarvelin MR, Zwart JA, Cherkas L, Strachan DP, Kubisch C, Ferrari MD, van den Maagdenberg AMJM, Dichgans M, Wessman M, Smith GD, Stefansson K, Daly MJ, Nyholt DR, Chasman D, and Palotie A
Subjects: Cerebellum metabolism, Computational Biology, Frontal Lobe metabolism, Humans, Polymorphism, Single Nucleotide, Quantitative Trait Loci, Genetic Loci, Genetic Predisposition to Disease, Genome-Wide Association Study, Migraine Disorders genetics
Abstract: Migraine is the most common brain disorder, affecting approximately 14% of the adult population, but its molecular mechanisms are poorly understood. We report the results of a meta-analysis across 29 genome-wide association studies, including a total of 23,285 individuals with migraine (cases) and 95,425 population-matched controls. We identified 12 loci associated with migraine susceptibility (P<5×10(-8)). Five loci are new: near AJAP1 at 1p36, near TSPAN2 at 1p13, within FHL5 at 6q16, within C7orf10 at 7p14 and near MMP16 at 8q21. Three of these loci were identified in disease subgroup analyses. Brain tissue expression quantitative trait locus analysis suggests potential functional candidate genes at four loci: APOA1BP, TBC1D7, FUT9, STAT6 and ATP5B.
Published: 2013
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39. False-negative results in routine combined first-trimester screening for down syndrome in Finland.

Author: Marttala J, Kaijomaa M, Ranta J, Dahlbacka A, Nieminen P, Tekay A, Kokkonen H, Laitinen P, Ignatius J, Romppanen J, Heinonen S, Jarvela I, Heikkila M, Yla-Outinen A, Ulander VM, Hamalainen E, and Ryynanen M
Subjects: Adult, False Negative Reactions, Female, Finland, Humans, Maternal Age, Pregnancy, Pregnancy Trimester, First, Prenatal Diagnosis standards, Chorionic Gonadotropin, beta Subunit, Human blood, Down Syndrome diagnosis, Nuchal Translucency Measurement statistics & numerical data, Pregnancy-Associated Plasma Protein-A analysis, Prenatal Diagnosis statistics & numerical data
Abstract: We analyzed the frequency and possible causes of false-negative (Fn) screening results in first-trimester combined Down syndrome screening in Finland. During the study period (May 1, 2002, to December 31, 2008), 76,949 voluntary women with singleton pregnancies participated in screening. Maternal age at screening, week of gestation, levels of pregnancy-associated plasma protein-A (PAPP-A), free β-human chorionic gonadotropin (fβ-hCG), and nuchal translucency (NT) measurement were compared and statistically analyzed between true-positive (Tp) and Fn cases. There were a total of 188 Down syndrome cases (1:409) in the screened population; 154 confirmed Tp and 34 Fn cases. Most Fn cases (n = 25) occurred at 12 + 0 to 13 + 6 weeks' gestation and only nine Fn cases presented between 10 and 11 weeks' gestation. According to the logistic regression analysis, the NT measurement was the most powerful discriminating factor in Fn screening results and accounted for 37.2% of Fn results. The second most important factor was fβ-hCG, adding 14.0% to R(2), followed by PAPP-A, which contributed a further 14.3%. The chosen parameters explain 83.9% of Fn results, but 16.1% remain due to unknown factor(s). All investigated parameters contributed to Fn screening results, but fetal NT was the most discriminating factor leading to an Fn screening result., (Copyright © 2012 by Thieme Medical Publishers, Inc.)
Published: 2012
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40. More invasive procedures are done to detect each case of Down's syndrome in younger women.

Author: Marttala J, Ranta JK, Kaijomaa M, Nieminen P, Laitinen P, Kokkonen H, Romppanen J, Hamalainen E, Kultti J, Tekay A, Ulander VM, Honkasalo T, and Ryynanen M
Subjects: Adult, Biomarkers blood, Chorionic Gonadotropin, beta Subunit, Human blood, Early Diagnosis, False Positive Reactions, Female, Finland, Gestational Age, Humans, Middle Aged, Nuchal Translucency Measurement, Pregnancy, Pregnancy Trimester, First, Pregnancy-Associated Plasma Protein-A metabolism, Prevalence, Prospective Studies, Risk Factors, Down Syndrome blood, Down Syndrome diagnosis, Maternal Age, Prenatal Diagnosis methods
Abstract: Objective: To evaluate the performance of first-trimester combined screening in 5-year periods according to maternal age in a low-risk population., Design: A prospective study., Setting: Multicenter study in Finland., Population: A total of 76949 voluntary women with singleton pregnancies participated in first-trimester combined screening in public healthcare between 1 May 2002 and 31 December 2008., Methods: The serum samples were analyzed using the PerkinElmer AutoDELFIA® time-resolved fluoroimmunoassay kit for the measurement of pregnancy-associated plasma protein-A and free beta-human chorionic gonadotropin. Nuchal translucency was measured by trained personnel (midwives or physicians) in a university or central hospital., Main Outcome Measures: Performance, detection rate, false positive rate and the number of invasive procedures needed to detect a single case of Down's syndrome were analyzed., Results: There was a direct connection between maternal age and the prevalence of Down's syndrome with a low prevalence in young women being 1:1 193 in the 25-29 age group and 1:150 in the 35-39 age group. Consequently, for a fixed false positive rate of 5%, the number of invasive procedures needed to detect one case of Down's syndrome is higher in younger women to achieve the same detection rate., Conclusions: In combined first trimester screening the risk for Down's syndrome is individual, varying with maternal age. This should be taken into consideration when counseling women., (© 2011 The Authors Acta Obstetricia et Gynecologica Scandinavica© 2011 Nordic Federation of Societies of Obstetrics and Gynecology.)
Published: 2011
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41. An immune response network associated with blood lipid levels.

Author: Inouye M, Silander K, Hamalainen E, Salomaa V, Harald K, Jousilahti P, Männistö S, Eriksson JG, Saarela J, Ripatti S, Perola M, van Ommen GJ, Taskinen MR, Palotie A, Dermitzakis ET, and Peltonen L
Subjects: Adult, Aged, Apolipoproteins B blood, Cohort Studies, Gene Expression Regulation, Genetic Variation, Humans, Hypersensitivity blood, Hypersensitivity genetics, Hypersensitivity immunology, Inflammation Mediators blood, Leukocytes metabolism, Lipoproteins, HDL blood, Metabolic Syndrome blood, Metabolic Syndrome genetics, Middle Aged, Models, Genetic, Obesity blood, Obesity genetics, Quantitative Trait Loci genetics, Regression Analysis, Triglycerides blood, Gene Regulatory Networks genetics, Immunity genetics, Lipids blood
Abstract: While recent scans for genetic variation associated with human disease have been immensely successful in uncovering large numbers of loci, far fewer studies have focused on the underlying pathways of disease pathogenesis. Many loci which are associated with disease and complex phenotypes map to non-coding, regulatory regions of the genome, indicating that modulation of gene transcription plays a key role. Thus, this study generated genome-wide profiles of both genetic and transcriptional variation from the total blood extracts of over 500 randomly-selected, unrelated individuals. Using measurements of blood lipids, key players in the progression of atherosclerosis, three levels of biological information are integrated in order to investigate the interactions between circulating leukocytes and proximal lipid compounds. Pair-wise correlations between gene expression and lipid concentration indicate a prominent role for basophil granulocytes and mast cells, cell types central to powerful allergic and inflammatory responses. Network analysis of gene co-expression showed that the top associations function as part of a single, previously unknown gene module, the Lipid Leukocyte (LL) module. This module replicated in T cells from an independent cohort while also displaying potential tissue specificity. Further, genetic variation driving LL module expression included the single nucleotide polymorphism (SNP) most strongly associated with serum immunoglobulin E (IgE) levels, a key antibody in allergy. Structural Equation Modeling (SEM) indicated that LL module is at least partially reactive to blood lipid levels. Taken together, this study uncovers a gene network linking blood lipids and circulating cell types and offers insight into the hypothesis that the inflammatory response plays a prominent role in metabolism and the potential control of atherogenesis., Competing Interests: The authors have declared that no competing interests exist.
Published: 2010
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42. Recombinant human type II collagen as a material for cartilage tissue engineering.

Author: Pulkkinen HJ, Tiitu V, Valonen P, Hamalainen ER, Lammi MJ, and Kiviranta I
Subjects: Aggrecans genetics, Aggrecans metabolism, Animals, Cartilage, Articular cytology, Cattle, Cell Proliferation, Cell Shape, Cell Survival, Cells, Cultured, Collagen Type II genetics, Extracellular Matrix genetics, Extracellular Matrix metabolism, Feasibility Studies, Gels, Humans, RNA, Messenger metabolism, Recombinant Proteins metabolism, Time Factors, Up-Regulation, Bone Substitutes, Cartilage, Articular metabolism, Chondrocytes metabolism, Collagen Type II metabolism, Tissue Engineering, Tissue Scaffolds
Abstract: Purpose: Collagen type II is the major component of cartilage and would be an optimal scaffold material for reconstruction of injured cartilage tissue. In this study, the feasibility of recombinant human type II collagen gel as a 3-dimensional culture system for bovine chondrocytes was evaluated in vitro., Methods: Bovine chondrocytes (4x106 cells) were seeded within collagen gels and cultivated for up to 4 weeks. The gels were investigated with confocal microscopy, histology, and biochemical assays., Results: Confocal microscopy revealed that the cells maintained their viability during the entire cultivation period. The chondrocytes were evenly distributed inside the gels, and the number of cells and the amount of the extracellular matrix increased during cultivation. The chondrocytes maintained their round phenotype during the 4-week cultivation period. The glycosaminoglycan levels of the tissue increased during the experiment. The relative levels of aggrecan and type II collagen mRNA measured with realtime polymerase chain reaction (PCR) showed an increase at 1 week., Conclusion: Our results imply that recombinant human type II collagen is a promising biomaterial for cartilage tissue engineering, allowing homogeneous distribution in the gel and biosynthesis of extracellular matrix components.
Published: 2008
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43. The effect of cross-linking time on a porous freeze-dried collagen scaffold using 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide as a cross-linker.

Author: Haparanta AM, Koivurinta J, Hamalainen ER, and Kellomaki M
Abstract: Collagen is a widely studied natural polymer for use as a scaffold material for various tissue engineering applications. Untreated collagen, however, has a fast biodegradation rate and low mechanical strength. Additionally, collagen cross-linking has been studied extensively and different cross-linking agents and methods have been explored. Although glutaraldehyde (GA) is the most convenient and traditional chemical agent currently used for this purpose, it nevertheless poses potential cytotoxicity. Therefore, 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC) is widely being studied as well, due to its characteristic of being a zero-length cross-linker that does not remain in the collagen's structure. Nevertheless, cross-linking with EDC can be implemented in several ways. In this study, two methods of cross-linking with EDC, prior to and post freeze-drying, were examined for freezedried collagen scaffolds. Four different collagen concentrations between 0.3 and 2.0 w% were inspected and different cross-linking methods were examined by a differential scanning calorimeter (DSC) to determine the collagen's denaturation temperature (Td). Furthermore, the water uptake abilities of the scaffolds were tested in phosphate buffered saline (PBS) and the scaffolds' pore structure was examined with a scanning electron microscope (SEM). As assumed, the DSC measurements demonstrated that collagen Td values increased with increasing collagen concentration. With lower collagen concentrations, the cross-linking post freeze-drying enhanced the Td values, but with higher collagen concentrations, the Td values were increased only with cross-linking prior to freeze-drying. The water uptake measurement showed increased water uptake ability when cross-linking post freezedrying. The pore sizes of the different collagen scaffolds were between 50 and 120 mum.
Published: 2008

44. Major rearrangements in the alpha 5(IV) collagen gene in three patients with Alport syndrome.

Author: Boye E, Vetrie D, Flinter F, Buckle B, Pihlajaniemi T, Hamalainen ER, Myers JC, Bobrow M, and Harris A
Subjects: Base Sequence, Blotting, Southern, DNA, Electrophoresis, Gel, Pulsed-Field, Female, Humans, Male, Molecular Sequence Data, Mutation, Polymerase Chain Reaction, Restriction Mapping, X Chromosome, Collagen genetics, Gene Rearrangement, Nephritis, Hereditary genetics
Abstract: The gene coding for the alpha 5 chian of type IV collagen (alpha 5(IV) collagen), which maps to Xq22, is a candidate gene for the X-linked dominant disease Alport syndrome (AS). Using three cDNA clones, covering the 3' end of the alpha 5(IV) collagen gene, 3 of 38 patients have been identified with mutations in this gene. Each of these patients shows a gross rearrangement of DNA: a deletion of at least 35 kb, an insertion/deletion event involving approximately 25 kb, and a duplication of at least 35 kb of DNA.
Published: 1991
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