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3. The genetic architecture of the human cerebral cortex

Author

Grasby, K.L., Jahanshad, N., Painter, J.N., Colodro-Conde, L., Bralten, J., Hibar, D.P., Lind, P.A., Pizzagalli, F., Ching, C.R., McMahon, M.A., Shatokhina, N., Zsembik, L.C.P., Thomopoulos, S.I., Zhu, A.H., Strike, L.T., Agartz, I., Alhusaini, S., Almeida, M.A. de, Alnaes, D., Amlien, I.K., Andersson, M., Ard, T., Armstrong, N.J., Ashley-Koch, A., Atkins, J.R., Bernard, M., Brouwer, R.M., Buimer, E.E.L., Bulow, R., Burger, C., Cannon, D.M., Chakravarty, M., Chen, Q., Cheung, J.W., Couvy-Duchesne, B., Dale, A.M., Dalvie, S., Araujo, T.K. de, Zubicaray, G.I. de, Zwarte, S.M.C. de, Braber, A., Doan, N.T., Dohm, K., Ehrlich, S., Engelbrecht, H.R., Erk, S., Fan, C.C., Fedko, I.O., Foley, S.F., Ford, J.M., Fukunaga, M., Garrett, M.E., Ge, T., Giddaluru, S., Goldman, A.L., Green, M.J., Groenewold, N.A., Grotegerd, D., Gurholt, T.P., Gutman, B.A., Hansell, N.K., Harris, Mark F., Harrison, M.B., Haswell, C.C., Hauser, M., Herms, S., Heslenfeld, D.J., Ho, N.F., Hoehn, D., Hoffmann, P., Holleran, L., Hoogman, M., Hottenga, J.J., Ikeda, M., Janowitz, D., Jansen, I.E., Jia, T., Jockwitz, C., Kanai, R., Karama, S., Kasperaviciute, D., Kaufmann, T., Kelly, S., Kikuchi, M., Klein, M., Knapp, M., Knodt, A.R., Kramer, B., Lam, M., Lancaster, T.M., Lee, P.H., Lett, T.A., Lewis, L.B., Lopes-Cendes, I., Luciano, M., Macciardi, F., Marquand, A.F., Mathias, S.R., Melzer, T.R., Milaneschi, Y., Franke, B., Thompson, P.M., Medland, S.E., Grasby, K.L., Jahanshad, N., Painter, J.N., Colodro-Conde, L., Bralten, J., Hibar, D.P., Lind, P.A., Pizzagalli, F., Ching, C.R., McMahon, M.A., Shatokhina, N., Zsembik, L.C.P., Thomopoulos, S.I., Zhu, A.H., Strike, L.T., Agartz, I., Alhusaini, S., Almeida, M.A. de, Alnaes, D., Amlien, I.K., Andersson, M., Ard, T., Armstrong, N.J., Ashley-Koch, A., Atkins, J.R., Bernard, M., Brouwer, R.M., Buimer, E.E.L., Bulow, R., Burger, C., Cannon, D.M., Chakravarty, M., Chen, Q., Cheung, J.W., Couvy-Duchesne, B., Dale, A.M., Dalvie, S., Araujo, T.K. de, Zubicaray, G.I. de, Zwarte, S.M.C. de, Braber, A., Doan, N.T., Dohm, K., Ehrlich, S., Engelbrecht, H.R., Erk, S., Fan, C.C., Fedko, I.O., Foley, S.F., Ford, J.M., Fukunaga, M., Garrett, M.E., Ge, T., Giddaluru, S., Goldman, A.L., Green, M.J., Groenewold, N.A., Grotegerd, D., Gurholt, T.P., Gutman, B.A., Hansell, N.K., Harris, Mark F., Harrison, M.B., Haswell, C.C., Hauser, M., Herms, S., Heslenfeld, D.J., Ho, N.F., Hoehn, D., Hoffmann, P., Holleran, L., Hoogman, M., Hottenga, J.J., Ikeda, M., Janowitz, D., Jansen, I.E., Jia, T., Jockwitz, C., Kanai, R., Karama, S., Kasperaviciute, D., Kaufmann, T., Kelly, S., Kikuchi, M., Klein, M., Knapp, M., Knodt, A.R., Kramer, B., Lam, M., Lancaster, T.M., Lee, P.H., Lett, T.A., Lewis, L.B., Lopes-Cendes, I., Luciano, M., Macciardi, F., Marquand, A.F., Mathias, S.R., Melzer, T.R., Milaneschi, Y., Franke, B., Thompson, P.M., and Medland, S.E.

Abstract

Contains fulltext : 218611.pdf (Publisher’s version ) (Closed access), The cerebral cortex underlies our complex cognitive capabilities, yet little is known about the specific genetic loci that influence human cortical structure. To identify genetic variants that affect cortical structure, we conducted a genome-wide association meta-analysis of brain magnetic resonance imaging data from 51,665 individuals. We analyzed the surface area and average thickness of the whole cortex and 34 regions with known functional specializations. We identified 199 significant loci and found significant enrichment for loci influencing total surface area within regulatory elements that are active during prenatal cortical development, supporting the radial unit hypothesis. Loci that affect regional surface area cluster near genes in Wnt signaling pathways, which influence progenitor expansion and areal identity. Variation in cortical structure is genetically correlated with cognitive function, Parkinson's disease, insomnia, depression, neuroticism, and attention deficit hyperactivity disorder.

Published
2020

4. The genetic architecture of the human cerebral cortex

Author

Grasby, KL, Jahanshad, N, Painter, JN, Colodro-Conde, L, Bralten, J, Hibar, DP, Lind, PA, Pizzagalli, F, Ching, CRK, McMahon, MAB, Shatokhina, N, Zsembik, LCP, Thomopoulos, SI, Zhu, AH, Strike, LT, Agartz, I, Alhusaini, S, Almeida, MAA, Alnæs, D, Amlien, IK, Andersson, M, Ard, T, Armstrong, NJ, Ashley-Koch, A, Atkins, JR, Bernard, M, Brouwer, RM, Buimer, EEL, Bülow, R, Bürger, C, Cannon, DM, Chakravarty, M, Chen, Q, Cheung, JW, Couvy-Duchesne, B, Dale, AM, Dalvie, S, de Araujo, TK, de Zubicaray, GI, de Zwarte, SMC, den Braber, A, Doan, NT, Dohm, K, Ehrlich, S, Engelbrecht, HR, Erk, S, Fan, CC, Fedko, IO, Foley, SF, Ford, JM, Fukunaga, M, Garrett, ME, Ge, T, Giddaluru, S, Goldman, AL, Green, MJ, Groenewold, NA, Grotegerd, D, Gurholt, TP, Gutman, BA, Hansell, NK, Harris, MA, Harrison, MB, Haswell, CC, Hauser, M, Herms, S, Heslenfeld, DJ, Ho, NF, Hoehn, D, Hoffmann, P, Holleran, L, Hoogman, M, Hottenga, JJ, Ikeda, M, Janowitz, D, Jansen, IE, Jia, T, Jockwitz, C, Kanai, R, Karama, S, Kasperaviciute, D, Kaufmann, T, Kelly, S, Kikuchi, M, Klein, M, Knapp, M, Knodt, AR, Krämer, B, Lam, M, Lancaster, TM, Lee, PH, Lett, TA, Lewis, LB, Lopes-Cendes, I, Luciano, M, Macciardi, F, Marquand, AF, Mathias, SR, Melzer, TR, Milaneschi, Y, Grasby, KL, Jahanshad, N, Painter, JN, Colodro-Conde, L, Bralten, J, Hibar, DP, Lind, PA, Pizzagalli, F, Ching, CRK, McMahon, MAB, Shatokhina, N, Zsembik, LCP, Thomopoulos, SI, Zhu, AH, Strike, LT, Agartz, I, Alhusaini, S, Almeida, MAA, Alnæs, D, Amlien, IK, Andersson, M, Ard, T, Armstrong, NJ, Ashley-Koch, A, Atkins, JR, Bernard, M, Brouwer, RM, Buimer, EEL, Bülow, R, Bürger, C, Cannon, DM, Chakravarty, M, Chen, Q, Cheung, JW, Couvy-Duchesne, B, Dale, AM, Dalvie, S, de Araujo, TK, de Zubicaray, GI, de Zwarte, SMC, den Braber, A, Doan, NT, Dohm, K, Ehrlich, S, Engelbrecht, HR, Erk, S, Fan, CC, Fedko, IO, Foley, SF, Ford, JM, Fukunaga, M, Garrett, ME, Ge, T, Giddaluru, S, Goldman, AL, Green, MJ, Groenewold, NA, Grotegerd, D, Gurholt, TP, Gutman, BA, Hansell, NK, Harris, MA, Harrison, MB, Haswell, CC, Hauser, M, Herms, S, Heslenfeld, DJ, Ho, NF, Hoehn, D, Hoffmann, P, Holleran, L, Hoogman, M, Hottenga, JJ, Ikeda, M, Janowitz, D, Jansen, IE, Jia, T, Jockwitz, C, Kanai, R, Karama, S, Kasperaviciute, D, Kaufmann, T, Kelly, S, Kikuchi, M, Klein, M, Knapp, M, Knodt, AR, Krämer, B, Lam, M, Lancaster, TM, Lee, PH, Lett, TA, Lewis, LB, Lopes-Cendes, I, Luciano, M, Macciardi, F, Marquand, AF, Mathias, SR, Melzer, TR, and Milaneschi, Y

Abstract

The cerebral cortex underlies our complex cognitive capabilities, yet little is known about the specific genetic loci that influence human cortical structure. To identify genetic variants that affect cortical structure, we conducted a genome-wide association meta-analysis of brain magnetic resonance imaging data from 51,665 individuals. We analyzed the surface area and average thickness of the whole cortex and 34 regions with known functional specializations. We identified 199 significant loci and found significant enrichment for loci influencing total surface area within regulatory elements that are active during prenatal cortical development, supporting the radial unit hypothesis. Loci that affect regional surface area cluster near genes in Wnt signaling pathways, which influence progenitor expansion and areal identity. Variation in cortical structure is genetically correlated with cognitive function, Parkinson's disease, insomnia, depression, neuroticism, and attention deficit hyperactivity disorder.

Published
2020

5. ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries

Author

Thompson, P.M. (Paul), Jahanshad, N. (Neda), Ching, C.R.K. (Christopher), Salminen, L.E. (Lauren E.), Thomopoulos, S.I. (Sophia I.), Bright, J. (Joanna), Baune, B.T., Bertolín, S. (Sara), Bralten, L.B.C. (Linda), Bruin, W.B. (Willem B.), Bülow, R. (Robin), Chen, J. (Jian), Chye, Y. (Yann), Dannlowski, U. (Udo), de Kovel, C.G.F. (Carolien G F), Donohoe, D.J. (Dennis), Eyler, L.T. (Lisa T.), Faraone, S.V. (Stephen), Favre, P. (Pauline), Filippi, C.A. (Courtney A.), Frodl, T. (Thomas), Garijo, D. (Daniel), Gil, Y. (Yolanda), Grabe, H.J. (Hans Jörgen), Grasby, K.L. (Katrina L.), Hajek, T. (Tomas), Han, L.K.M. (Laura K M), Hatton, W., Hilbert, K. (Kevin), Ho, T.C. (Tiffany C.), Holleran, L. (Laurena), Homuth, G. (Georg), Hosten, N. (Norbert), Houenou, J. (Josselin), Ivanov, I. (Iliyan), Jia, T. (Tianye), Kelly, S. (Sinead), Klein, M. (Marieke), Kwon, J.S. (Jun Soo), Laansma, M.A. (Max A.), Leerssen, J. (Jeanne), Lueken, U. (Ulrike), Nunes, A. (Abraham), Neill, J.O. (Joseph O'), Opel, N. (Nils), Piras, F. (Fabrizio), Piras, F. (Federica), Postema, M.C. (Merel C.), Pozzi, E. (Elena), Shatokhina, N. (Natalia), Soriano-Mas, C. (Carles), Spalletta, G. (Gianfranco), Sun, D. (Daqiang), Teumer, A. (Alexander), Tilot, A.K. (Amanda K.), Tozzi, L. (Leonardo), van der Merwe, C. (Celia), Someren, E.J.W. (Eus) van, van Wingen, G.A. (Guido A.), Völzke, H. (Henry), Walton, E. (Esther), Wang, L. (Lei), Winkler, A.M. (Anderson), Wittfeld, K. (Katharina), Wright, M.J. (Margaret), Yun, J.-Y. (Je-Yeon), Zhang, G. (Guohao), Zhang-James, Y. (Yanli), Adhikari, B.M. (Bhim M.), Agartz, I. (Ingrid), Aghajani, M. (Moji), Aleman, A. (André), Althoff, R.R. (Robert R.), Altmann, A. (A.), Andreassen, O.A. (Ole), Baron, D.A. (David A.), Bartnik-Olson, B.L. (Brenda L.), Marie Bas-Hoogendam, J. (Janna), Baskin-Sommers, A.R. (Arielle R.), Bearden, C.E. (Carrie), Berner, L.A. (Laura A.), Boedhoe, P.S.W. (Premika S W), Brouwer, R.M. (Rachel), Buitelaar, J.K. (Jan), Caeyenberghs, K. (Karen), Cecil, C.A.M. (Charlotte), Cohen, R.A. (Ronald A.), Cole, J.H. (James H.), Conrod, P. (Patricia), De Brito, S.A. (Stephane A.), de Zwarte, S.M.C. (Sonja M C), Dennis, E.L. (Emily L.), Desrivieres, S. (Sylvane), Dima, D. (Danai), Ehrlich, S.M. (Stefan), Esopenko, C. (Carrie), Fairchild, G. (Graeme), Fisher, S.E. (Simon), Fouche, J.-P. (Jean-Paul), Francks, C. (Clyde), Frangou, S. (Sophia), Franke, B. (Barbara), Garavan, H.P. (Hugh P.), Glahn, D.C. (David), Groenewold, N.A. (Nynke A.), Gurholt, T.P. (Tiril P.), Gutman, B.A. (Boris A.), Hahn, T. (Tim), Harding, I.H. (Ian H.), Hernaus, D. (Dennis), Hibar, D.P. (Derrek P.), Hillary, F.G. (Frank G.), Hoogman, M. (Martine), Hulshoff Pol, H.E. (Hilleke E.), Jalbrzikowski, M. (Maria), Karkashadze, G.A. (George A.), Klapwijk, E.T. (Eduard T.), Knickmeyer, R.C. (Rebecca C.), Kochunov, P. (Peter), Koerte, I.K. (Inga K.), Kong, X.-Z. (Xiang-Zhen), Liew, S.-L. (Sook-Lei), Lin, A.P. (Alexander P.), Logue, M.W. (Mark W.), Luders, E. (Eileen), Macciardi, F. (Fabio), Mackey, S. (Scott), Mayer, A.R. (Andrew R.), McDonald, C.R. (Carrie R.), McMahon, A.B. (Agnes B.), Medland, S.E. (Sarah), Modinos, G. (Gemma), Morey, R.A. (Rajendra A.), Mueller, S.C. (Sven C.), Mukherjee, P. (Pratik), Namazova-Baranova, L. (L.), Nir, T.M. (Talia M.), Olsen, A. (Alexander), Paschou, P. (Peristera), Pine, D.S. (Daniel S.), Pizzagalli, F. (Fabrizio), Rentería, M.E. (Miguel), Rohrer, J.D. (Jonathan D.), Sämann, P.G. (Philipp), Schmaal, L. (Lianne), Schumann, G. (Gunter), Shiroishi, M.S. (Mark S.), Sisodiya, S.M. (Sanjay), Smit, D.J.A. (Dirk J A), Sønderby, I.E. (Ida E.), Stein, D.J. (Dan J.), Stein, J.L., Tahmasian, M. (Masoud), Tate, D.F. (David F.), Turner, J. (Jessica), Heuvel, O.A. (Odile A.), Wee, N.J. (Nic) van der, van der Werf, Y.D. (Ysbrand), Erp, T.G.M. (Theo G.) van, van Haren, N.E.M. (Neeltje E M), van Rooij, D. (Daan), Van Velzen, L.S., Veer, I.M. (Ilya), Veltman, D.J. (Dick), Villalon-Reina, J.E. (Julio E.), Walter, H.J. (Henrik), Whelan, C.D. (Christopher), Wilde, E.A. (Elisabeth A.), Zarei, M. (Mojtaba), Zelman, V. (Vladimir), Thompson, P.M. (Paul), Jahanshad, N. (Neda), Ching, C.R.K. (Christopher), Salminen, L.E. (Lauren E.), Thomopoulos, S.I. (Sophia I.), Bright, J. (Joanna), Baune, B.T., Bertolín, S. (Sara), Bralten, L.B.C. (Linda), Bruin, W.B. (Willem B.), Bülow, R. (Robin), Chen, J. (Jian), Chye, Y. (Yann), Dannlowski, U. (Udo), de Kovel, C.G.F. (Carolien G F), Donohoe, D.J. (Dennis), Eyler, L.T. (Lisa T.), Faraone, S.V. (Stephen), Favre, P. (Pauline), Filippi, C.A. (Courtney A.), Frodl, T. (Thomas), Garijo, D. (Daniel), Gil, Y. (Yolanda), Grabe, H.J. (Hans Jörgen), Grasby, K.L. (Katrina L.), Hajek, T. (Tomas), Han, L.K.M. (Laura K M), Hatton, W., Hilbert, K. (Kevin), Ho, T.C. (Tiffany C.), Holleran, L. (Laurena), Homuth, G. (Georg), Hosten, N. (Norbert), Houenou, J. (Josselin), Ivanov, I. (Iliyan), Jia, T. (Tianye), Kelly, S. (Sinead), Klein, M. (Marieke), Kwon, J.S. (Jun Soo), Laansma, M.A. (Max A.), Leerssen, J. (Jeanne), Lueken, U. (Ulrike), Nunes, A. (Abraham), Neill, J.O. (Joseph O'), Opel, N. (Nils), Piras, F. (Fabrizio), Piras, F. (Federica), Postema, M.C. (Merel C.), Pozzi, E. (Elena), Shatokhina, N. (Natalia), Soriano-Mas, C. (Carles), Spalletta, G. (Gianfranco), Sun, D. (Daqiang), Teumer, A. (Alexander), Tilot, A.K. (Amanda K.), Tozzi, L. (Leonardo), van der Merwe, C. (Celia), Someren, E.J.W. (Eus) van, van Wingen, G.A. (Guido A.), Völzke, H. (Henry), Walton, E. (Esther), Wang, L. (Lei), Winkler, A.M. (Anderson), Wittfeld, K. (Katharina), Wright, M.J. (Margaret), Yun, J.-Y. (Je-Yeon), Zhang, G. (Guohao), Zhang-James, Y. (Yanli), Adhikari, B.M. (Bhim M.), Agartz, I. (Ingrid), Aghajani, M. (Moji), Aleman, A. (André), Althoff, R.R. (Robert R.), Altmann, A. (A.), Andreassen, O.A. (Ole), Baron, D.A. (David A.), Bartnik-Olson, B.L. (Brenda L.), Marie Bas-Hoogendam, J. (Janna), Baskin-Sommers, A.R. (Arielle R.), Bearden, C.E. (Carrie), Berner, L.A. (Laura A.), Boedhoe, P.S.W. (Premika S W), Brouwer, R.M. (Rachel), Buitelaar, J.K. (Jan), Caeyenberghs, K. (Karen), Cecil, C.A.M. (Charlotte), Cohen, R.A. (Ronald A.), Cole, J.H. (James H.), Conrod, P. (Patricia), De Brito, S.A. (Stephane A.), de Zwarte, S.M.C. (Sonja M C), Dennis, E.L. (Emily L.), Desrivieres, S. (Sylvane), Dima, D. (Danai), Ehrlich, S.M. (Stefan), Esopenko, C. (Carrie), Fairchild, G. (Graeme), Fisher, S.E. (Simon), Fouche, J.-P. (Jean-Paul), Francks, C. (Clyde), Frangou, S. (Sophia), Franke, B. (Barbara), Garavan, H.P. (Hugh P.), Glahn, D.C. (David), Groenewold, N.A. (Nynke A.), Gurholt, T.P. (Tiril P.), Gutman, B.A. (Boris A.), Hahn, T. (Tim), Harding, I.H. (Ian H.), Hernaus, D. (Dennis), Hibar, D.P. (Derrek P.), Hillary, F.G. (Frank G.), Hoogman, M. (Martine), Hulshoff Pol, H.E. (Hilleke E.), Jalbrzikowski, M. (Maria), Karkashadze, G.A. (George A.), Klapwijk, E.T. (Eduard T.), Knickmeyer, R.C. (Rebecca C.), Kochunov, P. (Peter), Koerte, I.K. (Inga K.), Kong, X.-Z. (Xiang-Zhen), Liew, S.-L. (Sook-Lei), Lin, A.P. (Alexander P.), Logue, M.W. (Mark W.), Luders, E. (Eileen), Macciardi, F. (Fabio), Mackey, S. (Scott), Mayer, A.R. (Andrew R.), McDonald, C.R. (Carrie R.), McMahon, A.B. (Agnes B.), Medland, S.E. (Sarah), Modinos, G. (Gemma), Morey, R.A. (Rajendra A.), Mueller, S.C. (Sven C.), Mukherjee, P. (Pratik), Namazova-Baranova, L. (L.), Nir, T.M. (Talia M.), Olsen, A. (Alexander), Paschou, P. (Peristera), Pine, D.S. (Daniel S.), Pizzagalli, F. (Fabrizio), Rentería, M.E. (Miguel), Rohrer, J.D. (Jonathan D.), Sämann, P.G. (Philipp), Schmaal, L. (Lianne), Schumann, G. (Gunter), Shiroishi, M.S. (Mark S.), Sisodiya, S.M. (Sanjay), Smit, D.J.A. (Dirk J A), Sønderby, I.E. (Ida E.), Stein, D.J. (Dan J.), Stein, J.L., Tahmasian, M. (Masoud), Tate, D.F. (David F.), Turner, J. (Jessica), Heuvel, O.A. (Odile A.), Wee, N.J. (Nic) van der, van der Werf, Y.D. (Ysbrand), Erp, T.G.M. (Theo G.) van, van Haren, N.E.M. (Neeltje E M), van Rooij, D. (Daan), Van Velzen, L.S., Veer, I.M. (Ilya), Veltman, D.J. (Dick), Villalon-Reina, J.E. (Julio E.), Walter, H.J. (Henrik), Whelan, C.D. (Christopher), Wilde, E.A. (Elisabeth A.), Zarei, M. (Mojtaba), and Zelman, V. (Vladimir)

Abstract

This review summarizes the last decade of work by the ENIGMA (Enhancing NeuroImaging Genetics through Meta Analysis) Consortium, a global alliance of over 1400 scientists across 43 countries, studying the human brain in health and disease. Building on large-scale genetic studies that discovered the first robustly replicated genetic loci associated with brain metrics, ENIGMA has diversified into over 50 working groups (WGs), pooling worldwide data and expertise to answer fundamental questions in neuroscience, psychiatry, neurology, and genetics. Most ENIGMA WGs focus on specific psychiatric and neurological conditions, other WGs study normal variation due to sex and gender differences, or development and aging; still other WGs develop methodological pipelines and tools to facilitate harmonized analyses of "big data" (i.e., genetic and epigenetic data, multimodal MRI, and electroencephalography data). These international efforts have yielded the largest neuroimaging studies to date in schizophrenia, bipolar disorder, major depressive disorder, post-traumatic stress disorder, substance use disorders, obsessive-compulsive disorder, attention-deficit/hyperactivity disorder, autism spectrum disorders, epilepsy, and 22q11.2 deletion syndrome. More recent ENIGMA WGs have formed to study anxiety disorders, suicidal thoughts and behavior, sleep and insomnia, eating disorders, irritability, brain injury, antisocial personality and conduct disorder, and dissociative identity disorder. Here, we summarize the first decade of ENIGMA's activities and ongoing projects, and describe the successes and challenges encountered along the way. We highlight the advantages of collaborative large-scale coordinated data analyses for testing reproducibility and robustness of findings, offering the opportunity to identify brain systems involved in clinical syndromes across diverse samples and associated genetic, environmental, demographic, cognitive, and psychosocial factors.

Published
2020
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6. ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries

Author

Thompson, PM, Jahanshad, N, Ching, CRK, Salminen, LE, Thomopoulos, SI, Bright, J, Baune, BT, Bertolin, S, Bralten, J, Bruin, WB, Buelow, R, Chen, J, Chye, Y, Dannlowski, U, de Kovel, CGF, Donohoe, G, Eyler, LT, Faraone, SV, Favre, P, Filippi, CA, Frodl, T, Garijo, D, Gil, Y, Grabe, HJ, Grasby, KL, Hajek, T, Han, LKM, Hatton, SN, Hilbert, K, Ho, TC, Holleran, L, Homuth, G, Hosten, N, Houenou, J, Ivanov, I, Jia, T, Kelly, S, Klein, M, Kwon, JS, Laansma, MA, Leerssen, J, Lueken, U, Nunes, A, Neill, JO, Opel, N, Piras, F, Postema, MC, Pozzi, E, Shatokhina, N, Soriano-Mas, C, Spalletta, G, Sun, D, Teumer, A, Tilot, AK, Tozzi, L, van der Merwe, C, Van Someren, EJW, van Wingen, GA, Voelzke, H, Walton, E, Wang, L, Winkler, AM, Wittfeld, K, Wright, MJ, Yun, J-Y, Zhang, G, Zhang-James, Y, Adhikari, BM, Agartz, I, Aghajani, M, Aleman, A, Althoff, RR, Altmann, A, Andreassen, OA, Baron, DA, Bartnik-Olson, BL, Bas-Hoogendam, J, Baskin-Sommers, AR, Bearden, CE, Berner, LA, Boedhoe, PSW, Brouwer, RM, Buitelaar, JK, Caeyenberghs, K, Cecil, CAM, Cohen, RA, Cole, JH, Conrod, PJ, De Brito, SA, de Zwarte, SMC, Dennis, EL, Desrivieres, S, Dima, D, Ehrlich, S, Esopenko, C, Fairchild, G, Fisher, SE, Fouche, J-P, Francks, C, Frangou, S, Franke, B, Garavan, HP, Glahn, DC, Groenewold, NA, Gurholt, TP, Gutman, BA, Hahn, T, Harding, IH, Hernaus, D, Hibar, DP, Hillary, FG, Hoogman, M, Pol, HE, Jalbrzikowski, M, Karkashadze, GA, Klapwijk, ET, Knickmeyer, RC, Kochunov, P, Koerte, IK, Kong, X-Z, Liew, S-L, Lin, AP, Logue, MW, Luders, E, Macciardi, F, Mackey, S, Mayer, AR, McDonald, CR, McMahon, AB, Medland, SE, Modinos, G, Morey, RA, Mueller, SC, Mukherjee, P, Namazova-Baranova, L, Nir, TM, Olsen, A, Paschou, P, Pine, DS, Pizzagalli, F, Renteria, ME, Rohrer, JD, Saemann, PG, Schmaal, L, Schumann, G, Shiroishi, MS, Sisodiya, SM, Smit, DJA, Sonderby, IE, Stein, DJ, Stein, JL, Tahmasian, M, Tate, DF, Turner, JA, van den Heuvel, OA, van der Wee, NJA, van der Werf, YD, van Erp, TGM, van Haren, NEM, van Rooij, D, van Velzen, LS, Veer, IM, Veltman, DJ, Villalon-Reina, JE, Walter, H, Whelan, CD, Wilde, EA, Zarei, M, Zelman, V, Thompson, PM, Jahanshad, N, Ching, CRK, Salminen, LE, Thomopoulos, SI, Bright, J, Baune, BT, Bertolin, S, Bralten, J, Bruin, WB, Buelow, R, Chen, J, Chye, Y, Dannlowski, U, de Kovel, CGF, Donohoe, G, Eyler, LT, Faraone, SV, Favre, P, Filippi, CA, Frodl, T, Garijo, D, Gil, Y, Grabe, HJ, Grasby, KL, Hajek, T, Han, LKM, Hatton, SN, Hilbert, K, Ho, TC, Holleran, L, Homuth, G, Hosten, N, Houenou, J, Ivanov, I, Jia, T, Kelly, S, Klein, M, Kwon, JS, Laansma, MA, Leerssen, J, Lueken, U, Nunes, A, Neill, JO, Opel, N, Piras, F, Postema, MC, Pozzi, E, Shatokhina, N, Soriano-Mas, C, Spalletta, G, Sun, D, Teumer, A, Tilot, AK, Tozzi, L, van der Merwe, C, Van Someren, EJW, van Wingen, GA, Voelzke, H, Walton, E, Wang, L, Winkler, AM, Wittfeld, K, Wright, MJ, Yun, J-Y, Zhang, G, Zhang-James, Y, Adhikari, BM, Agartz, I, Aghajani, M, Aleman, A, Althoff, RR, Altmann, A, Andreassen, OA, Baron, DA, Bartnik-Olson, BL, Bas-Hoogendam, J, Baskin-Sommers, AR, Bearden, CE, Berner, LA, Boedhoe, PSW, Brouwer, RM, Buitelaar, JK, Caeyenberghs, K, Cecil, CAM, Cohen, RA, Cole, JH, Conrod, PJ, De Brito, SA, de Zwarte, SMC, Dennis, EL, Desrivieres, S, Dima, D, Ehrlich, S, Esopenko, C, Fairchild, G, Fisher, SE, Fouche, J-P, Francks, C, Frangou, S, Franke, B, Garavan, HP, Glahn, DC, Groenewold, NA, Gurholt, TP, Gutman, BA, Hahn, T, Harding, IH, Hernaus, D, Hibar, DP, Hillary, FG, Hoogman, M, Pol, HE, Jalbrzikowski, M, Karkashadze, GA, Klapwijk, ET, Knickmeyer, RC, Kochunov, P, Koerte, IK, Kong, X-Z, Liew, S-L, Lin, AP, Logue, MW, Luders, E, Macciardi, F, Mackey, S, Mayer, AR, McDonald, CR, McMahon, AB, Medland, SE, Modinos, G, Morey, RA, Mueller, SC, Mukherjee, P, Namazova-Baranova, L, Nir, TM, Olsen, A, Paschou, P, Pine, DS, Pizzagalli, F, Renteria, ME, Rohrer, JD, Saemann, PG, Schmaal, L, Schumann, G, Shiroishi, MS, Sisodiya, SM, Smit, DJA, Sonderby, IE, Stein, DJ, Stein, JL, Tahmasian, M, Tate, DF, Turner, JA, van den Heuvel, OA, van der Wee, NJA, van der Werf, YD, van Erp, TGM, van Haren, NEM, van Rooij, D, van Velzen, LS, Veer, IM, Veltman, DJ, Villalon-Reina, JE, Walter, H, Whelan, CD, Wilde, EA, Zarei, M, and Zelman, V

Abstract

This review summarizes the last decade of work by the ENIGMA (Enhancing NeuroImaging Genetics through Meta Analysis) Consortium, a global alliance of over 1400 scientists across 43 countries, studying the human brain in health and disease. Building on large-scale genetic studies that discovered the first robustly replicated genetic loci associated with brain metrics, ENIGMA has diversified into over 50 working groups (WGs), pooling worldwide data and expertise to answer fundamental questions in neuroscience, psychiatry, neurology, and genetics. Most ENIGMA WGs focus on specific psychiatric and neurological conditions, other WGs study normal variation due to sex and gender differences, or development and aging; still other WGs develop methodological pipelines and tools to facilitate harmonized analyses of "big data" (i.e., genetic and epigenetic data, multimodal MRI, and electroencephalography data). These international efforts have yielded the largest neuroimaging studies to date in schizophrenia, bipolar disorder, major depressive disorder, post-traumatic stress disorder, substance use disorders, obsessive-compulsive disorder, attention-deficit/hyperactivity disorder, autism spectrum disorders, epilepsy, and 22q11.2 deletion syndrome. More recent ENIGMA WGs have formed to study anxiety disorders, suicidal thoughts and behavior, sleep and insomnia, eating disorders, irritability, brain injury, antisocial personality and conduct disorder, and dissociative identity disorder. Here, we summarize the first decade of ENIGMA's activities and ongoing projects, and describe the successes and challenges encountered along the way. We highlight the advantages of collaborative large-scale coordinated data analyses for testing reproducibility and robustness of findings, offering the opportunity to identify brain systems involved in clinical syndromes across diverse samples and associated genetic, environmental, demographic, cognitive, and psychosocial factors.

Published
2020

10. Easing the Pain of Next-Gen Sequencing Data Evaluation and Delivery

Author

Shatokhina, N., Ramjan, Z., Berman, B. P., and Nicolet, C.M.

Subjects
Poster Abstracts
Abstract

High throughput genome biology has created the need for a robust and scalable software system able to handle massive amounts of sequencing data. At the Data Production Facility in the USC Epigenome Center we have addressed this problem by developing an online sequence data access site called the Epigenome Center Data Portal: ECDP. This scalable portal allows researchers to explore and download their datasets in a secure fashion. From the initial LIMS sample entry (currently using Genologics) through sequencing and downstream analysis on our supercomputing cluster, all characteristics of a sample are parsed and tracked allowing for the presentation of these metrics on a single integrated interface. The QC metrics data generated by the analyses can be visualized in a number of ways. Metrics can be viewed for multiple samples side by side, plotted on an interactive plot, and exported in spreadsheet format. The most important summary data are presented initially with the additional option to drill down into further detail. This allows for the rapid assessment of library quality before proceeding further with in-depth analyses. ECDP also serves as the primary means of client sequence data delivery. Clients can securely download analyzed data such as fastq files, bam files, and visualization tracks. Recently we have been collecting information on the client usage of ECDP in order to more effectively tailor the site to the needs of the user community. The initial results of this tracking will be presented.

Published
2014

12. Genetic map of regional sulcal morphology in the human brain from UK biobank data.

Author

Sun BB, Loomis SJ, Pizzagalli F, Shatokhina N, Painter JN, Foley CN, Jensen ME, McLaren DG, Chintapalli SS, Zhu AH, Dixon D, Islam T, Ba Gari I, Runz H, Medland SE, Thompson PM, Jahanshad N, and Whelan CD

Subjects
Cerebral Cortex anatomy & histology, Genome-Wide Association Study, Humans, Magnetic Resonance Imaging, United Kingdom, Biological Specimen Banks, Brain diagnostic imaging
Abstract

Genetic associations with macroscopic brain structure can provide insights into brain function and disease. However, specific associations with measures of local brain folding are largely under-explored. Here, we conducted large-scale genome- and exome-wide associations of regional cortical sulcal measures derived from magnetic resonance imaging scans of 40,169 individuals in UK Biobank. We discovered 388 regional brain folding associations across 77 genetic loci, with genes in associated loci enriched for expression in the cerebral cortex, neuronal development processes, and differential regulation during early brain development. We integrated brain eQTLs to refine genes for various loci, implicated several genes involved in neurodevelopmental disorders, and highlighted global genetic correlations with neuropsychiatric phenotypes. We provide an interactive 3D visualisation of our summary associations, emphasising added resolution of regional analyses. Our results offer new insights into the genetic architecture of brain folding and provide a resource for future studies of sulcal morphology in health and disease., (© 2022. The Author(s).)

Published
2022
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13. ENIGMA and global neuroscience: A decade of large-scale studies of the brain in health and disease across more than 40 countries.

Author

Thompson PM, Jahanshad N, Ching CRK, Salminen LE, Thomopoulos SI, Bright J, Baune BT, Bertolín S, Bralten J, Bruin WB, Bülow R, Chen J, Chye Y, Dannlowski U, de Kovel CGF, Donohoe G, Eyler LT, Faraone SV, Favre P, Filippi CA, Frodl T, Garijo D, Gil Y, Grabe HJ, Grasby KL, Hajek T, Han LKM, Hatton SN, Hilbert K, Ho TC, Holleran L, Homuth G, Hosten N, Houenou J, Ivanov I, Jia T, Kelly S, Klein M, Kwon JS, Laansma MA, Leerssen J, Lueken U, Nunes A, Neill JO, Opel N, Piras F, Piras F, Postema MC, Pozzi E, Shatokhina N, Soriano-Mas C, Spalletta G, Sun D, Teumer A, Tilot AK, Tozzi L, van der Merwe C, Van Someren EJW, van Wingen GA, Völzke H, Walton E, Wang L, Winkler AM, Wittfeld K, Wright MJ, Yun JY, Zhang G, Zhang-James Y, Adhikari BM, Agartz I, Aghajani M, Aleman A, Althoff RR, Altmann A, Andreassen OA, Baron DA, Bartnik-Olson BL, Marie Bas-Hoogendam J, Baskin-Sommers AR, Bearden CE, Berner LA, Boedhoe PSW, Brouwer RM, Buitelaar JK, Caeyenberghs K, Cecil CAM, Cohen RA, Cole JH, Conrod PJ, De Brito SA, de Zwarte SMC, Dennis EL, Desrivieres S, Dima D, Ehrlich S, Esopenko C, Fairchild G, Fisher SE, Fouche JP, Francks C, Frangou S, Franke B, Garavan HP, Glahn DC, Groenewold NA, Gurholt TP, Gutman BA, Hahn T, Harding IH, Hernaus D, Hibar DP, Hillary FG, Hoogman M, Hulshoff Pol HE, Jalbrzikowski M, Karkashadze GA, Klapwijk ET, Knickmeyer RC, Kochunov P, Koerte IK, Kong XZ, Liew SL, Lin AP, Logue MW, Luders E, Macciardi F, Mackey S, Mayer AR, McDonald CR, McMahon AB, Medland SE, Modinos G, Morey RA, Mueller SC, Mukherjee P, Namazova-Baranova L, Nir TM, Olsen A, Paschou P, Pine DS, Pizzagalli F, Rentería ME, Rohrer JD, Sämann PG, Schmaal L, Schumann G, Shiroishi MS, Sisodiya SM, Smit DJA, Sønderby IE, Stein DJ, Stein JL, Tahmasian M, Tate DF, Turner JA, van den Heuvel OA, van der Wee NJA, van der Werf YD, van Erp TGM, van Haren NEM, van Rooij D, van Velzen LS, Veer IM, Veltman DJ, Villalon-Reina JE, Walter H, Whelan CD, Wilde EA, Zarei M, and Zelman V

Subjects
Brain diagnostic imaging, Humans, Magnetic Resonance Imaging, Neuroimaging, Reproducibility of Results, Depressive Disorder, Major genetics
Abstract

This review summarizes the last decade of work by the ENIGMA (Enhancing NeuroImaging Genetics through Meta Analysis) Consortium, a global alliance of over 1400 scientists across 43 countries, studying the human brain in health and disease. Building on large-scale genetic studies that discovered the first robustly replicated genetic loci associated with brain metrics, ENIGMA has diversified into over 50 working groups (WGs), pooling worldwide data and expertise to answer fundamental questions in neuroscience, psychiatry, neurology, and genetics. Most ENIGMA WGs focus on specific psychiatric and neurological conditions, other WGs study normal variation due to sex and gender differences, or development and aging; still other WGs develop methodological pipelines and tools to facilitate harmonized analyses of "big data" (i.e., genetic and epigenetic data, multimodal MRI, and electroencephalography data). These international efforts have yielded the largest neuroimaging studies to date in schizophrenia, bipolar disorder, major depressive disorder, post-traumatic stress disorder, substance use disorders, obsessive-compulsive disorder, attention-deficit/hyperactivity disorder, autism spectrum disorders, epilepsy, and 22q11.2 deletion syndrome. More recent ENIGMA WGs have formed to study anxiety disorders, suicidal thoughts and behavior, sleep and insomnia, eating disorders, irritability, brain injury, antisocial personality and conduct disorder, and dissociative identity disorder. Here, we summarize the first decade of ENIGMA's activities and ongoing projects, and describe the successes and challenges encountered along the way. We highlight the advantages of collaborative large-scale coordinated data analyses for testing reproducibility and robustness of findings, offering the opportunity to identify brain systems involved in clinical syndromes across diverse samples and associated genetic, environmental, demographic, cognitive, and psychosocial factors.

Published
2020
Full Text
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14. The genetic architecture of the human cerebral cortex.

Author

Grasby KL, Jahanshad N, Painter JN, Colodro-Conde L, Bralten J, Hibar DP, Lind PA, Pizzagalli F, Ching CRK, McMahon MAB, Shatokhina N, Zsembik LCP, Thomopoulos SI, Zhu AH, Strike LT, Agartz I, Alhusaini S, Almeida MAA, Alnæs D, Amlien IK, Andersson M, Ard T, Armstrong NJ, Ashley-Koch A, Atkins JR, Bernard M, Brouwer RM, Buimer EEL, Bülow R, Bürger C, Cannon DM, Chakravarty M, Chen Q, Cheung JW, Couvy-Duchesne B, Dale AM, Dalvie S, de Araujo TK, de Zubicaray GI, de Zwarte SMC, den Braber A, Doan NT, Dohm K, Ehrlich S, Engelbrecht HR, Erk S, Fan CC, Fedko IO, Foley SF, Ford JM, Fukunaga M, Garrett ME, Ge T, Giddaluru S, Goldman AL, Green MJ, Groenewold NA, Grotegerd D, Gurholt TP, Gutman BA, Hansell NK, Harris MA, Harrison MB, Haswell CC, Hauser M, Herms S, Heslenfeld DJ, Ho NF, Hoehn D, Hoffmann P, Holleran L, Hoogman M, Hottenga JJ, Ikeda M, Janowitz D, Jansen IE, Jia T, Jockwitz C, Kanai R, Karama S, Kasperaviciute D, Kaufmann T, Kelly S, Kikuchi M, Klein M, Knapp M, Knodt AR, Krämer B, Lam M, Lancaster TM, Lee PH, Lett TA, Lewis LB, Lopes-Cendes I, Luciano M, Macciardi F, Marquand AF, Mathias SR, Melzer TR, Milaneschi Y, Mirza-Schreiber N, Moreira JCV, Mühleisen TW, Müller-Myhsok B, Najt P, Nakahara S, Nho K, Olde Loohuis LM, Orfanos DP, Pearson JF, Pitcher TL, Pütz B, Quidé Y, Ragothaman A, Rashid FM, Reay WR, Redlich R, Reinbold CS, Repple J, Richard G, Riedel BC, Risacher SL, Rocha CS, Mota NR, Salminen L, Saremi A, Saykin AJ, Schlag F, Schmaal L, Schofield PR, Secolin R, Shapland CY, Shen L, Shin J, Shumskaya E, Sønderby IE, Sprooten E, Tansey KE, Teumer A, Thalamuthu A, Tordesillas-Gutiérrez D, Turner JA, Uhlmann A, Vallerga CL, van der Meer D, van Donkelaar MMJ, van Eijk L, van Erp TGM, van Haren NEM, van Rooij D, van Tol MJ, Veldink JH, Verhoef E, Walton E, Wang M, Wang Y, Wardlaw JM, Wen W, Westlye LT, Whelan CD, Witt SH, Wittfeld K, Wolf C, Wolfers T, Wu JQ, Yasuda CL, Zaremba D, Zhang Z, Zwiers MP, Artiges E, Assareh AA, Ayesa-Arriola R, Belger A, Brandt CL, Brown GG, Cichon S, Curran JE, Davies GE, Degenhardt F, Dennis MF, Dietsche B, Djurovic S, Doherty CP, Espiritu R, Garijo D, Gil Y, Gowland PA, Green RC, Häusler AN, Heindel W, Ho BC, Hoffmann WU, Holsboer F, Homuth G, Hosten N, Jack CR Jr, Jang M, Jansen A, Kimbrel NA, Kolskår K, Koops S, Krug A, Lim KO, Luykx JJ, Mathalon DH, Mather KA, Mattay VS, Matthews S, Mayoral Van Son J, McEwen SC, Melle I, Morris DW, Mueller BA, Nauck M, Nordvik JE, Nöthen MM, O'Leary DS, Opel N, Martinot MP, Pike GB, Preda A, Quinlan EB, Rasser PE, Ratnakar V, Reppermund S, Steen VM, Tooney PA, Torres FR, Veltman DJ, Voyvodic JT, Whelan R, White T, Yamamori H, Adams HHH, Bis JC, Debette S, Decarli C, Fornage M, Gudnason V, Hofer E, Ikram MA, Launer L, Longstreth WT, Lopez OL, Mazoyer B, Mosley TH, Roshchupkin GV, Satizabal CL, Schmidt R, Seshadri S, Yang Q, Alvim MKM, Ames D, Anderson TJ, Andreassen OA, Arias-Vasquez A, Bastin ME, Baune BT, Beckham JC, Blangero J, Boomsma DI, Brodaty H, Brunner HG, Buckner RL, Buitelaar JK, Bustillo JR, Cahn W, Cairns MJ, Calhoun V, Carr VJ, Caseras X, Caspers S, Cavalleri GL, Cendes F, Corvin A, Crespo-Facorro B, Dalrymple-Alford JC, Dannlowski U, de Geus EJC, Deary IJ, Delanty N, Depondt C, Desrivières S, Donohoe G, Espeseth T, Fernández G, Fisher SE, Flor H, Forstner AJ, Francks C, Franke B, Glahn DC, Gollub RL, Grabe HJ, Gruber O, Håberg AK, Hariri AR, Hartman CA, Hashimoto R, Heinz A, Henskens FA, Hillegers MHJ, Hoekstra PJ, Holmes AJ, Hong LE, Hopkins WD, Hulshoff Pol HE, Jernigan TL, Jönsson EG, Kahn RS, Kennedy MA, Kircher TTJ, Kochunov P, Kwok JBJ, Le Hellard S, Loughland CM, Martin NG, Martinot JL, McDonald C, McMahon KL, Meyer-Lindenberg A, Michie PT, Morey RA, Mowry B, Nyberg L, Oosterlaan J, Ophoff RA, Pantelis C, Paus T, Pausova Z, Penninx BWJH, Polderman TJC, Posthuma D, Rietschel M, Roffman JL, Rowland LM, Sachdev PS, Sämann PG, Schall U, Schumann G, Scott RJ, Sim K, Sisodiya SM, Smoller JW, Sommer IE, St Pourcain B, Stein DJ, Toga AW, Trollor JN, Van der Wee NJA, van 't Ent D, Völzke H, Walter H, Weber B, Weinberger DR, Wright MJ, Zhou J, Stein JL, Thompson PM, and Medland SE

Subjects
Attention Deficit Disorder with Hyperactivity genetics, Brain Mapping, Cognition, Genetic Loci, Genome-Wide Association Study, Humans, Magnetic Resonance Imaging, Organ Size genetics, Parkinson Disease genetics, Cerebral Cortex anatomy & histology, Genetic Variation
Abstract

The cerebral cortex underlies our complex cognitive capabilities, yet little is known about the specific genetic loci that influence human cortical structure. To identify genetic variants that affect cortical structure, we conducted a genome-wide association meta-analysis of brain magnetic resonance imaging data from 51,665 individuals. We analyzed the surface area and average thickness of the whole cortex and 34 regions with known functional specializations. We identified 199 significant loci and found significant enrichment for loci influencing total surface area within regulatory elements that are active during prenatal cortical development, supporting the radial unit hypothesis. Loci that affect regional surface area cluster near genes in Wnt signaling pathways, which influence progenitor expansion and areal identity. Variation in cortical structure is genetically correlated with cognitive function, Parkinson's disease, insomnia, depression, neuroticism, and attention deficit hyperactivity disorder., (Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.)

Published
2020
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15. [Gastrointestinal dysfunction in infants with atopic dermatitis].

Author

Soboleva NG, Boĭkov SA, Shatokhina NS, and Balianova EG

Subjects
Child, Preschool, Dermatitis, Atopic complications, Female, Humans, Infant, Infant, Newborn, Male, Dermatitis, Atopic metabolism, Dermatitis, Atopic pathology, Gastrointestinal Diseases metabolism, Gastrointestinal Diseases pathology
Published
2011

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