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2024 Conference Publication Manifold integrated gradients: Riemannian geometry for feature attributionZaher, Eslam, Trzaskowski, Maciej, Nguyen, Quan and Roosta, Fred (2024). Manifold integrated gradients: Riemannian geometry for feature attribution. International Conference on Machine Learning, Vienna, Austria, 21-27 July 2024. Proceedings of Machine Learning Research. |
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2023 Journal Article GWAS meta-analysis of suicide attempt: identification of 12 genome-wide significant loci and implication of genetic risks for specific health factorsDocherty, Anna R., Mullins, Niamh, Ashley-Koch, Allison E., Qin, Xuejun, Coleman, Jonathan R.I., Shabalin, Andrey, Kang, JooEun, Murnyak, Balasz, Wendt, Frank, Adams, Mark, Campos, Adrian I., DiBlasi, Emily, Fullerton, Janice M., Kranzler, Henry R., Bakian, Amanda V., Monson, Eric T., Rentería, Miguel E., Walss-Bass, Consuelo, Andreassen, Ole A., Behera, Chittaranjan, Bulik, Cynthia M., Edenberg, Howard J., Kessler, Ronald C., Mann, J. John, Nurnberger, John I., Pistis, Giorgio, Streit, Fabian, Ursano, Robert J., Polimanti, Renato ... German Borderline Genomics Consortium (2023). GWAS meta-analysis of suicide attempt: identification of 12 genome-wide significant loci and implication of genetic risks for specific health factors. American Journal of Psychiatry, 180 (10), 723-738. doi: 10.1176/appi.ajp.21121266 |
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2023 Journal Article Generalising uncertainty improves accuracy and safety of deep learning analytics applied to oncologyMacDonald, Samual, Foley, Helena, Yap, Melvyn, Johnston, Rebecca L., Steven, Kaiah, Koufariotis, Lambros T., Sharma, Sowmya, Wood, Scott, Addala, Venkateswar, Pearson, John V., Roosta, Fred, Waddell, Nicola, Kondrashova, Olga and Trzaskowski, Maciej (2023). Generalising uncertainty improves accuracy and safety of deep learning analytics applied to oncology. Scientific Reports, 13 (1) 7395, 1-14. doi: 10.1038/s41598-023-31126-5 |
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2022 Journal Article Identifying the Common Genetic Basis of Antidepressant ResponsePain, Oliver, Hodgson, Karen, Trubetskoy, Vassily, Ripke, Stephan, Marshe, Victoria S., Adams, Mark J., Byrne, Enda M., Campos, Adrian I., Carrillo-Roa, Tania, Cattaneo, Annamaria, Als, Thomas D., Souery, Daniel, Dernovsek, Mojca Z., Fabbri, Chiara, Hayward, Caroline, Henigsberg, Neven, Hauser, Joanna, Kennedy, James L., Lenze, Eric J., Lewis, Glyn, Müller, Daniel J., Martin, Nicholas G., Mulsant, Benoit H., Mors, Ole, Perroud, Nader, Porteous, David J., Rentería, Miguel E., Reynolds, Charles F., Rietschel, Marcella ... Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium (2022). Identifying the Common Genetic Basis of Antidepressant Response. Biological Psychiatry Global Open Science, 2 (2), 115-126. doi: 10.1016/j.bpsgos.2021.07.008 |
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2022 Journal Article Dissecting the shared genetic architecture of suicide attempt, psychiatric disorders, and known risk factorsMullins, Niamh, Kang, JooEun, Campos, Adrian I., Coleman, Jonathan R I, Edwards, Alexis C., Galfalvy, Hanga, Levey, Daniel F., Lori, Adriana, Shabalin, Andrey, Starnawska, Anna, Su, Mei-Hsin, Watson, Hunna J., Adams, Mark, Awasthi, Swapnil, Gandal, Michael, Hafferty, Jonathan D., Hishimoto, Akitoyo, Kim, Minsoo, Okazaki, Satoshi, Otsuka, Ikuo, Ripke, Stephan, Ware, Erin B., Bergen, Andrew W., Berrettini, Wade H., Bohus, Martin, Brandt, Harry, Chang, Xiao, Chen, Wei J., Chen, Hsi-Chung ... Ruderfer, Douglas M. (2022). Dissecting the shared genetic architecture of suicide attempt, psychiatric disorders, and known risk factors. Biological Psychiatry, 91 (3), 313-327. doi: 10.1016/j.biopsych.2021.05.029 |
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2021 Journal Article Automated AI labeling of optic nerve head enables insights into cross-ancestry glaucoma risk and genetic discovery in >280,000 images from UKB and CLSAHan, Xikun, Steven, Kaiah, Qassim, Ayub, Marshall, Henry N., Bean, Cameron, Tremeer, Michael, An, Jiyuan, Siggs, Owen M., Gharahkhani, Puya, Craig, Jamie E., Hewitt, Alex W., Trzaskowski, Maciej and MacGregor, Stuart (2021). Automated AI labeling of optic nerve head enables insights into cross-ancestry glaucoma risk and genetic discovery in >280,000 images from UKB and CLSA. The American Journal of Human Genetics, 108 (7), 1204-1216. doi: 10.1016/j.ajhg.2021.05.005 |
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2021 Journal Article Analysis of common genetic variation and rare CNVs in the Australian Autism BiobankYap, Chloe X., Alvares, Gail A., Henders, Anjali K., Lin, Tian, Wallace, Leanne, Farrelly, Alaina, McLaren, Tiana, Berry, Jolene, Vinkhuyzen, Anna A. E., Trzaskowski, Maciej, Zeng, Jian, Yang, Yuanhao, Cleary, Dominique, Grove, Rachel, Hafekost, Claire, Harun, Alexis, Holdsworth, Helen, Jellett, Rachel, Khan, Feroza, Lawson, Lauren, Leslie, Jodie, Levis Frenk, Mira, Masi, Anne, Mathew, Nisha E., Muniandy, Melanie, Nothard, Michaela, Visscher, Peter M., Dawson, Paul A., Dissanayake, Cheryl ... Gratten, Jacob (2021). Analysis of common genetic variation and rare CNVs in the Australian Autism Biobank. Molecular Autism, 12 (1) 12, 12. doi: 10.1186/s13229-020-00407-5 |
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2021 Journal Article Verifying explainability of a deep learning tissue classifier trained on RNA-seq dataYap, Melvyn, Johnston, Rebecca L., Foley, Helena, MacDonald, Samual, Kondrashova, Olga, Tran, Khoa A., Nones, Katia, Koufariotis, Lambros T., Bean, Cameron, Pearson, John V., Trzaskowski, Maciej and Waddell, Nicola (2021). Verifying explainability of a deep learning tissue classifier trained on RNA-seq data. Scientific Reports, 11 (1) 2641. doi: 10.1038/s41598-021-81773-9 |
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2020 Journal Article A phenome-wide association and Mendelian Randomisation study of polygenic risk for depression in UK BiobankShen, Xueyi, Howard, David M., Adams, Mark J., Hill, W. David, Clarke, Toni-Kim, Adams, Mark J., Clarke, Toni-Kim, McIntosh, Andrew M., Deary, Ian J., Wray, Naomi R., Ripke, Stephan, Mattheisen, Manuel, Trzaskowski, Maciej, Byrne, Enda M., Abdellaoui, Abdel, Agerbo, Esben, Air, Tracy M., Andlauer, Till F. M., Bacanu, Silviu-Alin, Bækvad-Hansen, Marie, Beekman, Aartjan T. F., Bigdeli, Tim B., Binder, Elisabeth B., Bryois, Julien, Buttenschøn, Henriette N., Bybjerg-Grauholm, Jonas, Cai, Na, Castelao, Enrique, Christensen, Jane Hvarregaard ... McIntosh, Andrew M. (2020). A phenome-wide association and Mendelian Randomisation study of polygenic risk for depression in UK Biobank. Nature Communications, 11 (1) 2301. doi: 10.1038/s41467-020-16022-0 |
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2020 Journal Article Genome-wide association study of dietary intake in the UK biobank study and its associations with schizophrenia and other traitsNiarchou, Maria, Byrne, Enda M., Trzaskowski, Maciej, Sidorenko, Julia, Kemper, Kathryn E., McGrath, John J., O’ Donovan, Michael C., Owen, Michael J. and Wray, Naomi R. (2020). Genome-wide association study of dietary intake in the UK biobank study and its associations with schizophrenia and other traits. Translational Psychiatry, 10 (1) 51, 1-11. doi: 10.1038/s41398-020-0688-y |
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2020 Journal Article Genome-wide gene-environment analyses of major depressive disorder and reported lifetime traumatic experiences in UK BiobankColeman, Jonathan R. I., Peyrot, Wouter J., Purves, Kirstin L., Davis, Katrina A. S., Rayner, Christopher, Choi, Shing Wan, Hübel, Christopher, Gaspar, Héléna A., Kan, Carol, Van der Auwera, Sandra, Adams, Mark James, Lyall, Donald M., Choi, Karmel W., Dunn, Erin C., Vassos, Evangelos, Danese, Andrea, Maughan, Barbara, Grabe, Hans J., Lewis, Cathryn M., O’Reilly, Paul F., McIntosh, Andrew M., Smith, Daniel J., Wray, Naomi R., Hotopf, Matthew, Eley, Thalia C., Breen, Gerome, Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium, Trzaskowski, Maciej, Byrne, Enda M. ... Middeldorp, Christel M. (2020). Genome-wide gene-environment analyses of major depressive disorder and reported lifetime traumatic experiences in UK Biobank. Molecular Psychiatry, 25 (7), 1430-1446. doi: 10.1038/s41380-019-0546-6 |
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2019 Journal Article Integrated analysis of environmental and genetic influences on cord blood DNA methylation in new-bornsCzamara, Darina, Eraslan, Gökçen, Page, Christian M., Lahti, Jari, Lahti-Pulkkinen, Marius, Hämäläinen, Esa, Kajantie, Eero, Laivuori, Hannele, Villa, Pia M., Reynolds, Rebecca M., Nystad, Wenche, Håberg, Siri E., London, Stephanie J., O’Donnell, Kieran J., Garg, Elika, Meaney, Michael J., Entringer, Sonja, Wadhwa, Pathik D., Buss, Claudia, Jones, Meaghan J., Lin, David T. S., MacIsaac, Julie L., Kobor, Michael S., Koen, Nastassja, Zar, Heather J., Koenen, Karestan C., Dalvie, Shareefa, Stein, Dan J., Kondofersky, Ivan ... Binder, Elisabeth B. (2019). Integrated analysis of environmental and genetic influences on cord blood DNA methylation in new-borns. Nature Communications, 10 (1) 2548. doi: 10.1038/s41467-019-10461-0 |
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2019 Journal Article 1,25-Dihydroxyvitamin D modulates L-type voltage-gated calcium channels in a subset of neurons in the developing mouse prefrontal cortexGooch, Helen, Cui, Xiaoying, Anggono, Victor, Trzaskowski, Maciej, Tan, Men Chee, Eyles, Darryl W., Burne, Thomas H. J., Jang, Se Eun, Mattheisen, Manuel, Hougaard, David M., Pedersen, Bent Nørgaard, Cohen, Arieh, Mortensen, Preben B., Sah, Pankaj and McGrath, John J. (2019). 1,25-Dihydroxyvitamin D modulates L-type voltage-gated calcium channels in a subset of neurons in the developing mouse prefrontal cortex. Translational Psychiatry, 9 (1) 281, 281. doi: 10.1038/s41398-019-0626-z |
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2019 Journal Article Classical human leukocyte antigen alleles and C4 haplotypes are not significantly associated With depressionGlanville, Kylie P., Coleman, Jonathan R. I., Hanscombe, Ken B., Euesden, Jack, Choi, Shing Wan, Purves, Kirstin L., Breen, Gerome, Air, Tracy M., Andlauer, Till F. M., Baune, Bernhard T., Binder, Elisabeth B., Blackwood, Douglas H. R., Boomsma, Dorret I., Buttenschøn, Henriette N., Colodro-Conde, Lucía, Dannlowski, Udo, Direk, Nese, Dunn, Erin C., Forstner, Andreas J., de Geus, Eco J. C., Grabe, Hans J., Hamilton, Steven P., Jones, Ian, Jones, Lisa A., Knowles, James A., Kutalik, Zoltán, Levinson, Douglas F., Lewis, Glyn, Lind, Penelope A. ... Børglum, Anders D. (2019). Classical human leukocyte antigen alleles and C4 haplotypes are not significantly associated With depression. Biological Psychiatry, 87 (5), 419-430. doi: 10.1016/j.biopsych.2019.06.031 |
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2019 Journal Article GWAS of suicide attempt in psychiatric disorders and association with major depression polygenic risk scoresMullins, Niamh, Bigdeli, Tim B., Børglum, Anders D., Coleman, Jonathan R.I., Demontis, Ditte, Mehta, Divya, Power, Robert A., Ripke, Stephan, Stahl, Eli A., Starnawska, Anna, Anjorin, Adebayo, Corvin, Aiden, Sanders, Alan R., Forstner, Andreas J., Reif, Andreas, Koller, Anna C., Tkowska, Beata Swia, Baune, Bernhard T., Müller-Myhsok, Bertram, Penninx, Brenda W.J.H., Pato, Carlos, Zai, Clement, Rujescu, Dan, Hougaard, David M., Quested, Digby, Levinson, Douglas F., Binder, Elisabeth B., Byrne, Enda M., Agerbo, Esben ... Lewis, Cathryn M. (2019). GWAS of suicide attempt in psychiatric disorders and association with major depression polygenic risk scores. American Journal of Psychiatry, 176 (8), 651-660. doi: 10.1176/appi.ajp.2019.18080957 |
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2019 Journal Article Genome-wide association study identifies 30 loci associated with bipolar disorderStahl, Eli A., Breen, Gerome, Forstner, Andreas J., McQuillin, Andrew, Ripke, Stephan, Trubetskoy, Vassily, Mattheisen, Manuel, Wang, Yunpeng, Coleman, Jonathan R. I., Gaspar, Héléna A., de Leeuw, Christiaan A., Steinberg, Stacy, Pavlides, Jennifer M. Whitehead, Trzaskowski, Maciej, Byrne, Enda M., Pers, Tune H., Holmans, Peter A., Richards, Alexander L., Abbott, Liam, Agerbo, Esben, Akil, Huda, Albani, Diego, Alliey-Rodriguez, Ney, Als, Thomas D., Anjorin, Adebayo, Antilla, Verneri, Awasthi, Swapnil, Badner, Judith A., Bækvad-Hansen, Marie ... Sklar, Pamela (2019). Genome-wide association study identifies 30 loci associated with bipolar disorder. Nature Genetics, 51 (5), 793-803. doi: 10.1038/s41588-019-0397-8 |
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2019 Journal Article Assessment of bidirectional relationships between physical activity and depression among adults A 2-Sample mendelian randomization studyChoi, Karmel W., Chen, Chia-Yen, Stein, Murray B., Klimentidis, Yann C., Wang, Min-Jung, Koenen, Karestan C., Smoller, Jordan W., Wray, Naomi R., Ripke, Stephan, Mattheisen, Manuel, Trzaskowski, Maciej, Byrne, Enda M., Abdellaoui, Abdel, Adams, Mark J., Agerbo, Esben, Air, TracyM., Andlauer, Till F. M., Bacanu, Silviu-Alin, Baekvad-Hansen, Marie, Beekman, Aartjan T. F., Bigdeli, Tim B., Binder, Elisabeth B., Blackwood, Douglas H. R., Bryois, Julien, Buttenschon, Henriette N., Bybjerg-Grauholm, Jonas, Cai, Na, Castelao, Enrique, Hvarregaard, Jane ... Sullivan, Patrick F. (2019). Assessment of bidirectional relationships between physical activity and depression among adults A 2-Sample mendelian randomization study. JAMA Psychiatry, 76 (4), 399-408. doi: 10.1001/jamapsychiatry.2018.4175 |
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2019 Journal Article Identification of common genetic risk variants for autism spectrum disorderGrove, Jakob, Ripke, Stephan, Als, Thomas D., Mattheisen, Manuel, Walters, Raymond K., Won, Hyejung, Pallesen, Jonatan, Agerbo, Esben, Andreassen, Ole A., Anney, Richard, Awashti, Swapnil, Belliveau, Rich, Bettella, Francesco, Buxbaum, Joseph D., Bybjerg-Grauholm, Jonas, Bækvad-Hansen, Marie, Cerrato, Felecia, Chambert, Kimberly, Christensen, Jane H., Churchhouse, Claire, Dellenvall, Karin, Demontis, Ditte, De Rubeis, Silvia, Devlin, Bernie, Djurovic, Srdjan, Dumont, Ashley L., Goldstein, Jacqueline I., Hansen, Christine S., Hauberg, Mads Engel ... Børglum, Anders D. (2019). Identification of common genetic risk variants for autism spectrum disorder. Nature Genetics, 51 (3), 431-444. doi: 10.1038/s41588-019-0344-8 |
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2019 Journal Article Genome-wide meta-analysis of depression identifies 102 independent variants and highlights the importance of the prefrontal brain regionsHoward, David M., Adams, Mark J., Clarke, Toni-Kim, Hafferty, Jonathan D., Gibson, Jude, Shirali, Masoud, Coleman, Jonathan R. I., Hagenaars, Saskia P., Ward, Joey, Wigmore, Eleanor M., Alloza, Clara, Shen, Xueyi, Barbu, Miruna C., Xu, Eileen Y., Whalley, Heather C., Marioni, Riccardo E., Porteous, David J., Davies, Gail, Deary, Ian J., Hemani, Gibran, Berger, Klaus, Teismann, Henning, Rawal, Rajesh, Arolt, Volker, Baune, Bernhard T., Dannlowski, Udo, Domschke, Katharina, Tian, Chao, Hinds, David A. ... McIntosh, Andrew M. (2019). Genome-wide meta-analysis of depression identifies 102 independent variants and highlights the importance of the prefrontal brain regions. Nature Neuroscience, 22 (3), 343-352. doi: 10.1038/s41593-018-0326-7 |
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2019 Journal Article Quantifying between-cohort and between-sex genetic heterogeneity in major depressive disorderTrzaskowski, Maciej, Mehta, Divya, Peyrot, Wouter J., Hawkes, David, Davies, Daniel, Howard, David M., Kemper, Kathryn E., Sidorenko, Julia, Maier, Robert, Ripke, Stephan, Mattheisen, Manuel, Baune, Bernhard T., Grabe, Hans J., Heath, Andrew C., Jones, Lisa, Jones, Ian, Madden, Pamela A.F., McIntosh, Andrew M., Breen, Gerome, Lewis, Cathryn M., Børglum, Anders D., Sullivan, Patrick F., Martin, Nicholas G., Kendler, Kenneth S., Levinson, Douglas F. and Wray, Naomi R. (2019). Quantifying between-cohort and between-sex genetic heterogeneity in major depressive disorder. American Journal of Medical Genetics Part B: Neuropsychiatric Genetics, 180 (6), 439-447. doi: 10.1002/ajmg.b.32713 |
