Search

Your search keyword '"Liu, Jimmy Z"' showing total 170 results
Start Over Author "Liu, Jimmy Z"
170 results on '"Liu, Jimmy Z"'

3. HLA-DP on Epithelial Cells Enables Tissue Damage by NKp44+ Natural Killer Cells in Ulcerative Colitis

Author

Akar, Alaa, Flemming, Cornelius, Felix, Flomm, Flosbach, Markus, Jäger, Julia, Jeromin, Niklas, Jung, Johannes, Ohms, Mareike, Reinshagen, Konrad, Rische, Johann, Sagebiel, Adrian, Sandfort, Deborah, Steinert, Fenja, Tomuschat, Christian, Wesche, Jasmin, Shifteh Abedian, Abraham, Clara, Achkar, Jean-Paul, Ahmad, Tariq, Alberts, Rudi, Alizadeh, Behrooz, Amininejad, Leila, Ananthakrishnan, Ashwin N., Andersen, Vibeke, Anderson, Carl A., Andrews, Jane M., Annese, Vito, Aumais, Guy, Baidoo, Leonard, Baldassano, Robert N., Bampton, Peter A., Barclay, Murray, Barrett, Jeffrey C., Bethge, Johannes, Bewshea, Claire, Bis, Joshua C., Bitton, Alain, BK, Thelma, Boucher, Gabrielle, Brain, Oliver, Brand, Stephan, Brant, Steven R., Cheon, Jae Hee, Chew, Angela, Cho, Judy H., Cleynen, Isabelle, Cohain, Ariella, Cooney, Rachel, Croft, Anthony, Daly, Mark J., D'Amato, Mauro, Danese, Silvio, Daryani, Naser Ebrahim, Datta, Lisa Wu, Degenhardt, Frauke, Denapiene, Goda, Denson, Lee A., Devaney, Kathy L., Dewit, Olivier, D'Inca, Renata, Drummond, Hazel E., Dubinsky, Marla, Duerr, Richard H., Edwards, Cathryn, Ellinghaus, David, Ellul, Pierre, Esaki, Motohiro, Essers, Jonah, Ferguson, Lynnette R., Festen, Eleonora A., Fleshner, Philip, Florin, Tim, Franchimont, Denis, Franke, Andre, Fuyuno, Yuta, Gearry, Richard, Georges, Michel, Gieger, Christian, Glas, Jürgen, Goyette, Philippe, Green, Todd, Griffiths, Anne M., Guthery, Stephen L., Hakonarson, Hakon, Halfvarson, Jonas, Hanigan, Katherine, Haritunians, Talin, Hart, Ailsa, Hawkey, Chris, Hayward, Nicholas K., Hedl, Matija, Henderson, Paul, Hold, Georgina L., Hong, Myhunghee, Hu, Xinli, Huang, Hailiang, Hugot, Jean-Pierre, Hui, Ken Y., Imielinski, Marcin, Jazayeri, Omid, Jonaitis, Laimas, Jostins, Luke, Juyal, Garima, Chandra Juyal, Ramesh, Kalla, Rahul, Karlsen, Tom H., Kennedy, Nicholas A., Khan, Mohammed Azam, Kim, Won Ho, Kitazono, Takanari, Kiudelis, Gediminas, Kubo, Michiaki, Kugathasan, Subra, Kupcinskas, Limas, Lamb, Christopher A., de Lange, Katrina M., Latiano, Anna, Laukens, Debby, Lawrance, Ian C., Lee, James C., Lees, Charlie W., Leja, Marcis, Lewis, Nina, Van Limbergen, Johan, Lionetti, Paolo, Liu, Jimmy Z., Louis, Edouard, Luo, Yang, Mahy, Gillian, Malekzadeh, Masoud Mohammad, Malekzadeh, Reza, Mansfield, John, Marriott, Suzie, Massey, Dunecan, Mathew, Christopher G., Matsui, Toshiyuki, McGovern, Dermot P.B., van der Meulen, Andrea, Midha, Vandana, Milgrom, Raquel, Mirzaei, Samaneh, Mitrovic, Mitja, Montgomery, Grant W., Mowat, Craig, Müller, Christoph, Newman, William G., Ng, Aylwin, Ng, Siew C., Evelyn Ng, Sok Meng, Nikolaus, Susanna, Ning, Kaida, Nöthen, Markus, Oikonomou, Ioannis, Okou, David, Orchard, Timothy R., Palmieri, Orazio, Parkes, Miles, Phillips, Anne, Ponsioen, Cyriel Y., Potocnik, Urõs, Poustchi, Hossein, Prescott, Natalie J., Proctor, Deborah D., Radford-Smith, Graham, Rahier, Jean- Francois, Regueiro, Miguel, Reinisch, Walter, Rieder, Florian, Rioux, John D., Roberts, Rebecca, Rogler, Gerhard, Russell, Richard K., Sanderson, Jeremy D., Sans, Miquel, Satsangi, Jack, Schadt, Eric E., Scharl, Michael, Schembri, John, Schreiber, Stefan, Schumm, L. Philip, Scott, Regan, Seielstad, Mark, Shah, Tejas, Sharma, Yashoda, Silverberg, Mark S., Simmons, Alison, Simms, Lisa A., Singh, Abhey, Skieceviciene, Jurgita, van Sommeren, Suzanne, Song, Kyuyoung, Sood, Ajit, Spain, Sarah L., Steinhart, A. Hillary, Stempak, Joanne M., Stronati, Laura, Sung, Joseph J.Y., Targan, Stephan R., Taylor, Kirstin M., Theatre, Emilie, Torkvist, Leif, Torres, Esther A., Tremelling, Mark, Uhlig, Holm H., Umeno, Junji, Vahedi, Homayon, Vasiliauskas, Eric, Velde, Anje ter, Ventham, Nicholas T., Vermeire, Severine, Verspaget, Hein W., De Vos, Martine, Walters, Thomas, Wang, Kai, Wang, Ming-Hsi, Weersma, Rinse K., Wei, Zhi, Whiteman, David, Wijmenga, Cisca, Wilson, David C., Winkelmann, Juliane, Wong, Sunny H., Xavier, Ramnik J., Yamazaki, Keiko, Yang, Suk-Kyun, Ye, Byong Duk, Zeissig, Sebastian, Zhang, Bin, Zhang, Clarence K., Zhang, Hu, Zhang, Wei, Zhao, Hongyu, Zhao, Zhen Z., Baumdick, Martin E., Niehrs, Annika, Schwerk, Maria, Hinrichs, Ole, Jordan-Paiz, Ana, Padoan, Benedetta, Wegner, Lucy H.M., Schloer, Sebastian, Zecher, Britta F., Malsy, Jakob, Joshi, Vinita R., Illig, Christin, Schröder-Schwarz, Jennifer, Möller, Kimberly J., Martin, Maureen P., Yuki, Yuko, Ozawa, Mikki, Sauter, Jürgen, Schmidt, Alexander H., Perez, Daniel, Giannou, Anastasios D., Carrington, Mary, Davis, Randall S., Schumacher, Udo, Sauter, Guido, Huber, Samuel, Puelles, Victor G., Melling, Nathaniel, Altfeld, Marcus, and Bunders, Madeleine J.

Published
2023
Full Text
View/download PDF

5. Genetic association analysis identifies variants associated with disease progression in primary sclerosing cholangitis

Author

Alberts, Rudi, de Vries, Elisabeth MG, Goode, Elizabeth C, Jiang, Xiaojun, Sampaziotis, Fotis, Rombouts, Krista, Böttcher, Katrin, Folseraas, Trine, Weismüller, Tobias J, Mason, Andrew L, Wang, Weiwei, Alexander, Graeme, Alvaro, Domenico, Bergquist, Annika, Björkström, Niklas K, Beuers, Ulrich, Björnsson, Einar, Boberg, Kirsten Muri, Bowlus, Christopher L, Bragazzi, Maria C, Carbone, Marco, Chazouillères, Olivier, Cheung, Angela, Dalekos, Georgios, Eaton, John, Eksteen, Bertus, Ellinghaus, David, Färkkilä, Martti, Festen, Eleonora AM, Floreani, Annarosa, Franceschet, Irene, Gotthardt, Daniel Nils, Hirschfield, Gideon M, Hoek, B van, Holm, Kristian, Hohenester, Simon, Hov, Johannes Roksund, Imhann, Floris, Invernizzi, Pietro, Juran, Brian D, Lenzen, Henrike, Lieb, Wolfgang, Liu, Jimmy Z, Marschall, Hanns-Ulrich, Marzioni, Marco, Melum, Espen, Milkiewicz, Piotr, Müller, Tobias, Pares, Albert, Rupp, Christian, Rust, Christian, Sandford, Richard N, Schramm, Christoph, Schreiber, Stefan, Schrumpf, Erik, Silverberg, Mark S, Srivastava, Brijesh, Sterneck, Martina, Teufel, Andreas, Vallier, Ludovic, Verheij, Joanne, Vila, Arnau Vich, Vries, Boudewijn de, Zachou, Kalliopi, Chapman, Roger W, Manns, Michael P, Pinzani, Massimo, Rushbrook, Simon M, Lazaridis, Konstantinos N, Franke, Andre, Anderson, Carl A, Karlsen, Tom H, Ponsioen, Cyriel Y, and Weersma, Rinse K

Subjects
Genetics, Transplantation, Chronic Liver Disease and Cirrhosis, Liver Disease, Clinical Research, Rare Diseases, Digestive Diseases - (Gallbladder), Digestive Diseases, Aetiology, 2.1 Biological and endogenous factors, Oral and gastrointestinal, Adult, Cholangitis, Sclerosing, Cohort Studies, Disease Progression, Female, Humans, Kaplan-Meier Estimate, Logistic Models, Male, Middle Aged, Polymorphism, Single Nucleotide, Proportional Hazards Models, Thrombospondins, International PSC Study Group, The UK PSC Consortium, Primary sclerosing cholangitis, genetics, liver transplantation, Clinical Sciences, Paediatrics and Reproductive Medicine, Gastroenterology & Hepatology
Abstract

ObjectivePrimary sclerosing cholangitis (PSC) is a genetically complex, inflammatory bile duct disease of largely unknown aetiology often leading to liver transplantation or death. Little is known about the genetic contribution to the severity and progression of PSC. The aim of this study is to identify genetic variants associated with PSC disease progression and development of complications.DesignWe collected standardised PSC subphenotypes in a large cohort of 3402 patients with PSC. After quality control, we combined 130 422 single nucleotide polymorphisms of all patients-obtained using the Illumina immunochip-with their disease subphenotypes. Using logistic regression and Cox proportional hazards models, we identified genetic variants associated with binary and time-to-event PSC subphenotypes.ResultsWe identified genetic variant rs853974 to be associated with liver transplant-free survival (p=6.07×10-9). Kaplan-Meier survival analysis showed a 50.9% (95% CI 41.5% to 59.5%) transplant-free survival for homozygous AA allele carriers of rs853974 compared with 72.8% (95% CI 69.6% to 75.7%) for GG carriers at 10 years after PSC diagnosis. For the candidate gene in the region, RSPO3, we demonstrated expression in key liver-resident effector cells, such as human and murine cholangiocytes and human hepatic stellate cells.ConclusionWe present a large international PSC cohort, and report genetic loci associated with PSC disease progression. For liver transplant-free survival, we identified a genome-wide significant signal and demonstrated expression of the candidate gene RSPO3 in key liver-resident effector cells. This warrants further assessments of the role of this potential key PSC modifier gene.

Published
2018

6. Genome-wide association study of primary sclerosing cholangitis identifies new risk loci and quantifies the genetic relationship with inflammatory bowel disease

Author

Ji, Sun-Gou, Juran, Brian D, Mucha, Sören, Folseraas, Trine, Jostins, Luke, Melum, Espen, Kumasaka, Natsuhiko, Atkinson, Elizabeth J, Schlicht, Erik M, Liu, Jimmy Z, Shah, Tejas, Gutierrez-Achury, Javier, Boberg, Kirsten M, Bergquist, Annika, Vermeire, Severine, Eksteen, Bertus, Durie, Peter R, Farkkila, Martti, Müller, Tobias, Schramm, Christoph, Sterneck, Martina, Weismüller, Tobias J, Gotthardt, Daniel N, Ellinghaus, David, Braun, Felix, Teufel, Andreas, Laudes, Mattias, Lieb, Wolfgang, Jacobs, Gunnar, Beuers, Ulrich, Weersma, Rinse K, Wijmenga, Cisca, Marschall, Hanns-Ulrich, Milkiewicz, Piotr, Pares, Albert, Kontula, Kimmo, Chazouillères, Olivier, Invernizzi, Pietro, Goode, Elizabeth, Spiess, Kelly, Moore, Carmel, Sambrook, Jennifer, Ouwehand, Willem H, Roberts, David J, Danesh, John, Floreani, Annarosa, Gulamhusein, Aliya F, Eaton, John E, Schreiber, Stefan, Coltescu, Catalina, Bowlus, Christopher L, Luketic, Velimir A, Odin, Joseph A, Chopra, Kapil B, Kowdley, Kris V, Chalasani, Naga, Manns, Michael P, Srivastava, Brijesh, Mells, George, Sandford, Richard N, Alexander, Graeme, Gaffney, Daniel J, Chapman, Roger W, Hirschfield, Gideon M, de Andrade, Mariza, Rushbrook, Simon M, Franke, Andre, Karlsen, Tom H, Lazaridis, Konstantinos N, and Anderson, Carl A

Subjects
Human Genome, Digestive Diseases, Autoimmune Disease, Digestive Diseases - (Gallbladder), Genetics, Rare Diseases, Inflammatory Bowel Disease, 2.1 Biological and endogenous factors, Aetiology, Oral and gastrointestinal, Adaptor Proteins, Signal Transducing, Alleles, Cholangitis, Sclerosing, Colitis, Ulcerative, Genome-Wide Association Study, Humans, Inflammatory Bowel Diseases, Polymorphism, Single Nucleotide, RNA, Messenger, Risk Factors, UK-PSC Consortium, International IBD Genetics Consortium, International PSC Study Group, Biological Sciences, Medical and Health Sciences, Developmental Biology
Abstract

Primary sclerosing cholangitis (PSC) is a rare progressive disorder leading to bile duct destruction; ∼75% of patients have comorbid inflammatory bowel disease (IBD). We undertook the largest genome-wide association study of PSC (4,796 cases and 19,955 population controls) and identified four new genome-wide significant loci. The most associated SNP at one locus affects splicing and expression of UBASH3A, with the protective allele (C) predicted to cause nonstop-mediated mRNA decay and lower expression of UBASH3A. Further analyses based on common variants suggested that the genome-wide genetic correlation (rG) between PSC and ulcerative colitis (UC) (rG = 0.29) was significantly greater than that between PSC and Crohn's disease (CD) (rG = 0.04) (P = 2.55 × 10-15). UC and CD were genetically more similar to each other (rG = 0.56) than either was to PSC (P < 1.0 × 10-15). Our study represents a substantial advance in understanding of the genetics of PSC.

Published
2017

8. Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses

Author

Okbay, Aysu, Baselmans, Bart ML, De Neve, Jan-Emmanuel, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Taylor, Kent, Thorleifsson, Gudmar, Wedenoja, Juho, Wellmann, Juergen, Westra, Harm-Jan, Willems, Sara M, Zhao, Wei, Amin, Najaf, Bakshi, Andrew, Bergmann, Sven, Bjornsdottir, Gyda, Boyle, Patricia A, Cherney, Samantha, Cox, Simon R, Davies, Gail, Davis, Oliver SP, Ding, Jun, Direk, Nese, Eibich, Peter, Emeny, Rebecca T, Fatemifar, Ghazaleh, Faul, Jessica D, Ferrucci, Luigi, Forstner, Andreas J, Gieger, Christian, Gupta, Richa, Harris, Tamara B, Harris, Juliette M, Holliday, Elizabeth G, Hottenga, Jouke-Jan, De Jager, Philip L, Kaakinen, Marika A, Kajantie, Eero, Karhunen, Ville, Kolcic, Ivana, Kumari, Meena, Launer, Lenore J, Franke, Lude, Li-Gao, Ruifang, Liewald, David C, Koini, Marisa, Loukola, Anu, Marques-Vidal, Pedro, Montgomery, Grant W, Mosing, Miriam A, Paternoster, Lavinia, Pattie, Alison, Petrovic, Katja E, Pulkki-Råback, Laura, Quaye, Lydia, Räikkönen, Katri, Rudan, Igor, and Scott, Rodney J

Subjects
Biological Sciences, Genetics, Depression, Brain Disorders, Mental Health, Human Genome, Mental Illness, Anxiety Disorders, Bayes Theorem, Genome-Wide Association Study, Humans, Neuroticism, Phenotype, Polymorphism, Single Nucleotide, LifeLines Cohort Study, Medical and Health Sciences, Developmental Biology, Agricultural biotechnology, Bioinformatics and computational biology
Abstract

Very few genetic variants have been associated with depression and neuroticism, likely because of limitations on sample size in previous studies. Subjective well-being, a phenotype that is genetically correlated with both of these traits, has not yet been studied with genome-wide data. We conducted genome-wide association studies of three phenotypes: subjective well-being (n = 298,420), depressive symptoms (n = 161,460), and neuroticism (n = 170,911). We identify 3 variants associated with subjective well-being, 2 variants associated with depressive symptoms, and 11 variants associated with neuroticism, including 2 inversion polymorphisms. The two loci associated with depressive symptoms replicate in an independent depression sample. Joint analyses that exploit the high genetic correlations between the phenotypes (|ρ^| ≈ 0.8) strengthen the overall credibility of the findings and allow us to identify additional variants. Across our phenotypes, loci regulating expression in central nervous system and adrenal or pancreas tissues are strongly enriched for association.

Published
2016

9. Phenome-wide Mendelian randomization mapping the influence of the plasma proteome on complex diseases

Author

Zheng, Jie, Haberland, Valeriia, Baird, Denis, Walker, Venexia, Haycock, Philip C., Hurle, Mark R., Gutteridge, Alex, Erola, Pau, Liu, Yi, Luo, Shan, Robinson, Jamie, Richardson, Tom G., Staley, James R., Elsworth, Benjamin, Burgess, Stephen, Sun, Benjamin B., Danesh, John, Runz, Heiko, Maranville, Joseph C., Martin, Hannah M., Yarmolinsky, James, Laurin, Charles, Holmes, Michael V., Liu, Jimmy Z., Estrada, Karol, Santos, Rita, McCarthy, Linda, Waterworth, Dawn, Nelson, Matthew R., Smith, George Davey, Butterworth, Adam S., Hemani, Gibran, Scott, Robert A., and Gaunt, Tom R.

Published
2020
Full Text
View/download PDF

11. Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis.

Author

Liu, Jimmy Z, Hov, Johannes Roksund, Folseraas, Trine, Ellinghaus, Eva, Rushbrook, Simon M, Doncheva, Nadezhda T, Andreassen, Ole A, Weersma, Rinse K, Weismüller, Tobias J, Eksteen, Bertus, Invernizzi, Pietro, Hirschfield, Gideon M, Gotthardt, Daniel Nils, Pares, Albert, Ellinghaus, David, Shah, Tejas, Juran, Brian D, Milkiewicz, Piotr, Rust, Christian, Schramm, Christoph, Müller, Tobias, Srivastava, Brijesh, Dalekos, Georgios, Nöthen, Markus M, Herms, Stefan, Winkelmann, Juliane, Mitrovic, Mitja, Braun, Felix, Ponsioen, Cyriel Y, Croucher, Peter JP, Sterneck, Martina, Teufel, Andreas, Mason, Andrew L, Saarela, Janna, Leppa, Virpi, Dorfman, Ruslan, Alvaro, Domenico, Floreani, Annarosa, Onengut-Gumuscu, Suna, Rich, Stephen S, Thompson, Wesley K, Schork, Andrew J, Næss, Sigrid, Thomsen, Ingo, Mayr, Gabriele, König, Inke R, Hveem, Kristian, Cleynen, Isabelle, Gutierrez-Achury, Javier, Ricaño-Ponce, Isis, van Heel, David, Björnsson, Einar, Sandford, Richard N, Durie, Peter R, Melum, Espen, Vatn, Morten H, Silverberg, Mark S, Duerr, Richard H, Padyukov, Leonid, Brand, Stephan, Sans, Miquel, Annese, Vito, Achkar, Jean-Paul, Boberg, Kirsten Muri, Marschall, Hanns-Ulrich, Chazouillères, Olivier, Bowlus, Christopher L, Wijmenga, Cisca, Schrumpf, Erik, Vermeire, Severine, Albrecht, Mario, UK-PSCSC Consortium, Rioux, John D, Alexander, Graeme, Bergquist, Annika, Cho, Judy, Schreiber, Stefan, Manns, Michael P, Färkkilä, Martti, Dale, Anders M, Chapman, Roger W, Lazaridis, Konstantinos N, International PSC Study Group, Franke, Andre, Anderson, Carl A, Karlsen, Tom H, and International IBD Genetics Consortium

Subjects
UK-PSCSC Consortium, International PSC Study Group, International IBD Genetics Consortium, Humans, Cholangitis, Sclerosing, Oligonucleotide Array Sequence Analysis, Risk Factors, Case-Control Studies, Gene Frequency, Linkage Disequilibrium, Polymorphism, Single Nucleotide, Genome-Wide Association Study, Genetic Loci, Genetic Pleiotropy, Genotyping Techniques, Developmental Biology, Biological Sciences, Medical and Health Sciences
Abstract

Primary sclerosing cholangitis (PSC) is a severe liver disease of unknown etiology leading to fibrotic destruction of the bile ducts and ultimately to the need for liver transplantation. We compared 3,789 PSC cases of European ancestry to 25,079 population controls across 130,422 SNPs genotyped using the Immunochip. We identified 12 genome-wide significant associations outside the human leukocyte antigen (HLA) complex, 9 of which were new, increasing the number of known PSC risk loci to 16. Despite comorbidity with inflammatory bowel disease (IBD) in 72% of the cases, 6 of the 12 loci showed significantly stronger association with PSC than with IBD, suggesting overlapping yet distinct genetic architectures for these two diseases. We incorporated association statistics from 7 diseases clinically occurring with PSC in the analysis and found suggestive evidence for 33 additional pleiotropic PSC risk loci. Together with network analyses, these findings add to the genetic risk map of PSC and expand on the relationship between PSC and other immune-mediated diseases.

Published
2013

14. Association analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations

Author

Liu, Jimmy Z, van Sommeren, Suzanne, Huang, Hailiang, Ng, Siew C, Alberts, Rudi, Takahashi, Atsushi, Ripke, Stephan, Lee, James C, Jostins, Luke, Shah, Tejas, Abedian, Shifteh, Cheon, Jae Hee, Cho, Judy, Daryani, Naser E, Franke, Lude, Fuyuno, Yuta, Hart, Ailsa, Juyal, Ramesh C, Juyal, Garima, Kim, Won Ho, Morris, Andrew P, Poustchi, Hossein, Newman, William G, Midha, Vandana, Orchard, Timothy R, Vahedi, Homayon, Sood, Ajit, Sung, Joseph J Y, Malekzadeh, Reza, Westra, Harm-Jan, Yamazaki, Keiko, Yang, Suk-Kyun, Barrett, Jeffrey C, Franke, Andre, Alizadeh, Behrooz Z, Parkes, Miles, B K, Thelma, Daly, Mark J, Kubo, Michiaki, Anderson, Carl A, and Weersma, Rinse K

Published
2015
Full Text
View/download PDF

18. A versatile gene-based test for genome-wide association studies

Author

Liu, Jimmy Z., Mcrae, Allan F., Nyholt, Dale R., Medland, Sarah E., Wray, Naomi R., Brown, Kevin M., Hayward, Nicholas K., Montgomery, Grant W., Visscher, Peter M., Martin, Nicholas G., and Macgregor, Stuart

Subjects
Single nucleotide polymorphisms -- Analysis, DNA replication -- Analysis, Gene mutations -- Analysis, Human genome -- Research, Biological sciences
Abstract

A versatile gene-based association study (VEGAS) was developed for genome-wide association studies which could also be applied to all GWAS designs including family-based GWAS, meta-analyses of GWAS on the basis of summary data and DNA-pooling-based GWAS. The developed method has the potential to identify novel association genes, provide basis for selecting SNPs for replication and could also be used in network (pathway) approaches that require per-gene association test statistics.

Published
2010

19. Dense fine-mapping study identifies novel disease loci and implicates coding and non-coding variation in primary biliary cirrhosis risk: 2021

Author

Liu, Jimmy Z., Marri, Mohamed Al, Gaffney, Daniel, Mells, George F., Jostins, Luke, Cordell, Heather J., Ducker, Samantha J., Day, Darren, Heneghan, Michael A., Neuberger, James, Donaldson, Peter T., Bathgate, Andrew, Burroughs, Andrew K., Davies, Mervyn H., Jones, David E., Alexander, Graeme J., Barrett, Jeffrey C., Sandford, Richard N., and Anderson, Carl A.

Published
2012

22. Pairwise genetic interactions modulate lipid plasma levels and cellular uptake

Author

Zimon, Magdalena, primary, Huang, Yunfeng, additional, Trasta, Anthi, additional, Liu, Jimmy Z., additional, Chen, Chia-Yen, additional, Halavatyi, Aliaksandr, additional, Blattmann, Peter, additional, Klaus, Bernd, additional, Whelan, Christopher D., additional, Sexton, David, additional, John, Sally, additional, Huber, Wolfgang, additional, Tsai, Ellen A., additional, Pepperkok, Rainer, additional, and Runz, Heiko, additional

Published
2020
Full Text
View/download PDF

24. Amino acid residues in five separate HLA genes can explain most of the known associations between the MHC and primary biliary cholangitis

Author

Darlay, Rebecca, Ayers, Kristin L., Mells, George F., Hall, Lynsey S., Liu, Jimmy Z., Almarri, Mohamed A., Alexander, Graeme J., Jones, David E., Sandford, Richard N., Anderson, Carl A., Cordell, Heather J., Darlay, Rebecca [0000-0002-7526-5527], Hall, Lynsey S [0000-0002-0624-5303], Almarri, Mohamed A [0000-0003-1255-0918], Alexander, Graeme J [0000-0002-9713-1394], Anderson, Carl A [0000-0003-1719-7009], Cordell, Heather J [0000-0002-1879-5572], and Apollo - University of Cambridge Repository

Subjects
Models, Molecular, Heredity, Protein Conformation, QH426-470, Biochemistry, Major Histocompatibility Complex, Electricity, HLA Antigens, Medicine and Health Sciences, HLA-DQ beta-Chains, Amino Acids, HLA-DP beta-Chains, Primary Biliary Cirrhosis, Organic Compounds, Liver Cirrhosis, Biliary, Physics, Chemistry, Genetic Mapping, Physical Sciences, Amino Acid Analysis, Regression Analysis, Biliary Disorders, Research Article, Immunology, Genes, MHC Class II, Static Electricity, Variant Genotypes, Gastroenterology and Hepatology, HLA-C Antigens, Research and Analysis Methods, Polymorphism, Single Nucleotide, HLA-DQ alpha-Chains, Autoimmune Diseases, Molecular Genetics, Electrostatics, Genetics, Humans, Genetic Predisposition to Disease, Amino Acid Sequence, Molecular Biology Techniques, Molecular Biology, Genetic Association Studies, Molecular Biology Assays and Analysis Techniques, Evolutionary Biology, Population Biology, Models, Genetic, Organic Chemistry, Chemical Compounds, Biology and Life Sciences, Proteins, Haplotypes, Amino Acid Substitution, Haplogroups, Clinical Immunology, Clinical Medicine, Population Genetics, HLA-DRB1 Chains
Abstract

Primary Biliary Cholangitis (PBC) is a chronic autoimmune liver disease characterised by progressive destruction of intrahepatic bile ducts. The strongest genetic association is with HLA-DQA1*04:01, but at least three additional independent HLA haplotypes contribute to susceptibility. We used dense single nucleotide polymorphism (SNP) data in 2861 PBC cases and 8514 controls to impute classical HLA alleles and amino acid polymorphisms using state-of-the-art methodologies. We then demonstrated through stepwise regression that association in the HLA region can be largely explained by variation at five separate amino acid positions. Three-dimensional modelling of protein structures and calculation of electrostatic potentials for the implicated HLA alleles/amino acid substitutions demonstrated a correlation between the electrostatic potential of pocket P6 in HLA-DP molecules and the HLA-DPB1 alleles/amino acid substitutions conferring PBC susceptibility/protection, highlighting potential new avenues for future functional investigation., Author summary Primary Biliary Cholangitis (PBC) is a chronic autoimmune liver disease that exhibits strong genetic associations, especially with variants in the human leukocyte antigen (HLA) gene region. Here we use dense single nucleotide polymorphism (SNP) data from the largest PBC study to date (2861 cases, 8514 controls) to investigate the likely underlying causes of this association, via performing imputation of HLA classical alleles and amino acids. We show that the HLA association can be largely explained by variation at five separate amino acid positions, one of which shows functional relevance to electrostatic potentials of HLA-DP molecules.

Published
2019
Full Text
View/download PDF

25. Genome-wide meta-analysis, fine-mapping, and integrative prioritization identify new Alzheimer’s disease risk genes

Author

Schwartzentruber, Jeremy, primary, Cooper, Sarah, additional, Liu, Jimmy Z, additional, Barrio-Hernandez, Inigo, additional, Bello, Erica, additional, Kumasaka, Natsuhiko, additional, Johnson, Toby, additional, Estrada, Karol, additional, Gaffney, Daniel J., additional, Beltrao, Pedro, additional, and Bassett, Andrew, additional

Published
2020
Full Text
View/download PDF

26. High-density mapping of the MHC identifies a shared role for HLA-DRB1*01:03 in inflammatory bowel diseases and heterozygous advantage in ulcerative colitis

Author

Goyette, Philippe, Boucher, Gabrielle, Mallon, Dermot, Ellinghaus, Eva, Jostins, Luke, Huang, Hailiang, Ripke, Stephan, Gusareva, Elena S., Annese, Vito, Hauser, Stephen L., Oksenberg, Jorge R., Thomsen, Ingo, Leslie, Stephen, Daly, Mark J., Van Steen, Kristel, Duerr, Richard H., Barrett, Jeffrey C., Mcgovern, Dermot P. B., Schumm, L. Philip, Traherne, James A., Carrington, Mary N., Kosmoliaptsis, Vasilis, Karlsen, Tom H., Franke, Andre, Rioux, John D., Abraham, Clara, Achkar, Jean Paul, Ahmad, Tariq, Amininejad, Leila, Ananthakrishnan, Ashwin N., Andersen, Vibeke, Anderson, Carl A., Andrews, Jane M., Aumais, Guy, Baidoo, Leonard, Baldassano, Robert N., Balschun, Tobias, Bampton, Peter A., Barclay, Murray, Bayless, Theodore M., Bethge, Johannes, Bis, Joshua C., Bitton, Alain, Brand, Stephan, Brant, Steven R., Buning, Carsten, Chew, Angela, Cho, Judy H., Cleynen, Isabelle, Cohain, Ariella, Croft, Anthony, D'Amato, Mauro, Danese, Silvio, De Jong, Dirk, De Vos, Martine, Denapiene, Goda, Denson, Lee A., Devaney, Kathy L., Dewit, Olivier, D'Inca, Renata, Dubinsky, Marla, Edwards, Cathryn, Ellinghaus, David, Essers, Jonah, Ferguson, Lynnette R., Festen, Eleonora A., Fleshner, Philip, Florin, Tim, Franchimont, Denis, Fransen, Karin, Gearry, Richard, Georges, Michel, Gieger, Christian, Glas, Jurgen, Green, Todd, Griffiths, Anne M., Guthery, Stephen L., Hakonarson, Hakon, Halfvarson, Jonas, Hanigan, Katherine, Haritunians, Talin, Hart, Ailsa, Hawkey, Chris, Hayward, Nicholas K., Hedl, Matija, Henderson, Paul, Xinli, Hu, Hui, Ken Y., Imielinski, Marcin, Ippoliti, Andrew, Jonaitis, Laimas, Kennedy, Nicholas A., Khan, Mohammed Azam, Kiudelis, Gediminas, Kugathasan, Subra, Kupcinskas, Limas, Latiano, Anna, Laukens, Debby, Lawrance, Ian C., Lee, James C., Lees, Charlie W., Leja, Marcis, Van Limbergen, Johan, Lionetti, Paolo, Liu, Jimmy Z., Louis, Edouard, Mahy, Gillian, Mansfield, John, Massey, Dunecan, Mathew, Christopher G., Milgrom, Raquel, Mitrovic, Mitja, Montgomery, Grant, Mowat, Craig, Newman, Wwilliam, Aylwin, Ng, Siew C., Ng, Evelyn Ng, Sok Meng, Nikolaus, Susanna, Ning, Kaida, Nothen, Markus, Oikonomou, Ioannis, Palmieri, Orazio, Parkes, Miles, Phillips, Anne, Ponsioen, Cyriel Y., Potocnik, Uros, Prescott, Natalie J., Proctor, Deborah D., Radford Smith, Graham, Rahier, Jean Francois, Raychaudhur, Soumya, Regueiro, Miguel, Rieder, Florian, Roberts, Rebecca, Russell, Richard K., Sanderson, Jeremy D., Sans, Miquel, Satsangi, Jack, Schadt, Eric E., Schreiber, Stefan, Scott, Regan, Seielstad, Mark, Sharma, Yashoda, Silverberg, Mark S., Simms, Lisa A., Skieceviciene, Jurgita, Spain, Sarah L., Steinhart, A. Hillary, Stempak, Joanne M., Stronati, Laura, Sventoraityte, Jurgita, Targan, Stephan R., Taylor, Kirstin M., Ter Velde, Anje, Theatre, Emilie, Torkvist, Leif, Tremelling, Mark, Van Der Meulen, Andrea, Van Sommeren, Suzanne, Vasiliauskas, Eric, Vermeire, Severine, Verspaget, Hein W., Walters, Thomas, Wwang, Kai, Wwang, Ming Hsi, Wweersma, Rinse K., Wei, Zhi, Whiteman, David, Wijmenga, Cisca, Wilson, David C., Winkelmann, Juliane, Xavier, Ramnik J., Zeissig, Sebastian, Zhang, Bin, Zhang, Clarence K., Zhang, Hu, Zhang, Wwei, Zhao, Hongyu, Zhao, Zhen Z., Gastroenterology and Hepatology, Traherne, James [0000-0002-6003-8559], Kosmoliaptsis, Vasilis [0000-0001-7298-1387], and Apollo - University of Cambridge Repository

Subjects
Heterozygote, Genotype, Genotyping Techniques, Genetic Linkage, Ulcerative, Human leukocyte antigen, Biology, Major histocompatibility complex, Polymorphism, Single Nucleotide, Article, Primary sclerosing cholangitis, Major Histocompatibility Complex, Alleles, Chromosome Mapping, Colitis, Ulcerative, Crohn Disease, Genetic Predisposition to Disease, Genome-Wide Association Study, HLA-DRB1 Chains, Humans, Inflammatory Bowel Diseases, Phenotype, Genetics, medicine, HLA-DR, Polymorphism, Colitis, HLA-DRB1, Crohn's disease, Single Nucleotide, medicine.disease, Ulcerative colitis, digestive system diseases, Immunology, biology.protein
Abstract

Genome-wide association studies of the related chronic inflammatory bowel diseases (IBD) known as Crohn's disease and ulcerative colitis have shown strong evidence of association to the major histocompatibility complex (MHC). This region encodes a large number of immunological candidates, including the antigen-presenting classical human leukocyte antigen (HLA) molecules. Studies in IBD have indicated that multiple independent associations exist at HLA and non-HLA genes, but they have lacked the statistical power to define the architecture of association and causal alleles. To address this, we performed high-density SNP typing of the MHC in >32,000 individuals with IBD, implicating multiple HLA alleles, with a primary role for HLA-DRB1*01:03 in both Crohn's disease and ulcerative colitis. Noteworthy differences were observed between these diseases, including a predominant role for class II HLA variants and heterozygous advantage observed in ulcerative colitis, suggesting an important role of the adaptive immune response in the colonic environment in the pathogenesis of IBD.

Published
2015
Full Text
View/download PDF

27. Identifying drug targets for neurological and psychiatric disease via genetics and the brain transcriptome.

Author

Baird, Denis A., Liu, Jimmy Z., Zheng, Jie, Sieberts, Solveig K., Perumal, Thanneer, Elsworth, Benjamin, Richardson, Tom G., Chen, Chia-Yen, Carrasquillo, Minerva M., Allen, Mariet, Reddy, Joseph S., De Jager, Philip L., Ertekin-Taner, Nilufer, Mangravite, Lara M., Logsdon, Ben, Estrada, Karol, Haycock, Philip C., Hemani, Gibran, Runz, Heiko, and Smith, George Davey

Subjects
*MENTAL illness, *PHARMACOGENOMICS, *NEUROLOGICAL disorders, *GENETICS, *DRUG target, *AMYOTROPHIC lateral sclerosis, *BRAIN diseases
Abstract

Discovering drugs that efficiently treat brain diseases has been challenging. Genetic variants that modulate the expression of potential drug targets can be utilized to assess the efficacy of therapeutic interventions. We therefore employed Mendelian Randomization (MR) on gene expression measured in brain tissue to identify drug targets involved in neurological and psychiatric diseases. We conducted a two-sample MR using cis-acting brain-derived expression quantitative trait loci (eQTLs) from the Accelerating Medicines Partnership for Alzheimer's Disease consortium (AMP-AD) and the CommonMind Consortium (CMC) meta-analysis study (n = 1,286) as genetic instruments to predict the effects of 7,137 genes on 12 neurological and psychiatric disorders. We conducted Bayesian colocalization analysis on the top MR findings (using P<6x10-7 as evidence threshold, Bonferroni-corrected for 80,557 MR tests) to confirm sharing of the same causal variants between gene expression and trait in each genomic region. We then intersected the colocalized genes with known monogenic disease genes recorded in Online Mendelian Inheritance in Man (OMIM) and with genes annotated as drug targets in the Open Targets platform to identify promising drug targets. 80 eQTLs showed MR evidence of a causal effect, from which we prioritised 47 genes based on colocalization with the trait. We causally linked the expression of 23 genes with schizophrenia and a single gene each with anorexia, bipolar disorder and major depressive disorder within the psychiatric diseases and 9 genes with Alzheimer's disease, 6 genes with Parkinson's disease, 4 genes with multiple sclerosis and two genes with amyotrophic lateral sclerosis within the neurological diseases we tested. From these we identified five genes (ACE, GPNMB, KCNQ5, RERE and SUOX) as attractive drug targets that may warrant follow-up in functional studies and clinical trials, demonstrating the value of this study design for discovering drug targets in neuropsychiatric diseases. Author summary: Genetic association studies have been successful in identifying many genetic variants associated with disease risk, but it has been far more challenging to determine the genes through which these act. This is important, because such genes may encode effective drug targets for these diseases. We used Mendelian randomization (MR) and colocalization, two methods which in combination exploit these genetic variants to estimate the causal effects of individual genes. We applied this approach to 12 neurological and psychiatric diseases using data from the AMP-AD and CMC brain expression quantitative locus dataset, which is large enough to provide robust evidence for the relationship between genetic variants and gene expression. We found a causal relationship between the change in expression of 47 genes and increased disease risk across the 12 diseases we tested. As drug targets with human genetic evidence are far more likely to be approved in clinical trials, these findings provide a valuable list of potential therapeutic targets, including the ACE, GPNMB, KCNQ5, RERE and SUOX genes. [ABSTRACT FROM AUTHOR]

Published
2021
Full Text
View/download PDF

28. Association Between Common Variants in RBFOX1, an RNA-Binding Protein, and Brain Amyloidosis in Early and Preclinical Alzheimer Disease.

Author

Raghavan, Neha S., Dumitrescu, Logan, Mormino, Elizabeth, Mahoney, Emily R., Lee, Annie J., Gao, Yizhe, Bilgel, Murat, Goldstein, David, Harrison, Theresa, Engelman, Corinne D., Saykin, Andrew J., Whelan, Christopher D., Liu, Jimmy Z., Jagust, William, Albert, Marilyn, Johnson, Sterling C., Yang, Hyun-Sik, Johnson, Keith, Aisen, Paul, and Resnick, Susan M.

Published
2020
Full Text
View/download PDF

29. Amino acid residues in five separate HLA genes can explain most of the known associations between the MHC and primary biliary cholangitis

Author

Darlay, Rebecca, primary, Ayers, Kristin L., additional, Mells, George F., additional, Hall, Lynsey S., additional, Liu, Jimmy Z., additional, Almarri, Mohamed A., additional, Alexander, Graeme J., additional, Jones, David E., additional, Sandford, Richard N., additional, Anderson, Carl A., additional, and Cordell, Heather J., additional

Published
2018
Full Text
View/download PDF

30. Corrigendum: Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses

Author

Okbay, Aysu, Baselmans, Bart M L, De Neve, Jan-Emmanuel, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Pasterkamp, Gerard, den Ruijter, Hester M, and Alizadeh, Behrooz Z

Subjects
Journal Article
Published
2016

31. Genetic association analysis identifies variants associated with disease progression in primary sclerosing cholangitis

Author

Alberts, Rudi, primary, de Vries, Elisabeth M G, additional, Goode, Elizabeth C, additional, Jiang, Xiaojun, additional, Sampaziotis, Fotis, additional, Rombouts, Krista, additional, Böttcher, Katrin, additional, Folseraas, Trine, additional, Weismüller, Tobias J, additional, Mason, Andrew L, additional, Wang, Weiwei, additional, Alexander, Graeme, additional, Alvaro, Domenico, additional, Bergquist, Annika, additional, Björkström, Niklas K, additional, Beuers, Ulrich, additional, Björnsson, Einar, additional, Boberg, Kirsten Muri, additional, Bowlus, Christopher L, additional, Bragazzi, Maria C, additional, Carbone, Marco, additional, Chazouillères, Olivier, additional, Cheung, Angela, additional, Dalekos, Georgios, additional, Eaton, John, additional, Eksteen, Bertus, additional, Ellinghaus, David, additional, Färkkilä, Martti, additional, Festen, Eleonora A M, additional, Floreani, Annarosa, additional, Franceschet, Irene, additional, Gotthardt, Daniel Nils, additional, Hirschfield, Gideon M, additional, Hoek, Bart van, additional, Holm, Kristian, additional, Hohenester, Simon, additional, Hov, Johannes Roksund, additional, Imhann, Floris, additional, Invernizzi, Pietro, additional, Juran, Brian D, additional, Lenzen, Henrike, additional, Lieb, Wolfgang, additional, Liu, Jimmy Z, additional, Marschall, Hanns-Ulrich, additional, Marzioni, Marco, additional, Melum, Espen, additional, Milkiewicz, Piotr, additional, Müller, Tobias, additional, Pares, Albert, additional, Rupp, Christian, additional, Rust, Christian, additional, Sandford, Richard N, additional, Schramm, Christoph, additional, Schreiber, Stefan, additional, Schrumpf, Erik, additional, Silverberg, Mark S, additional, Srivastava, Brijesh, additional, Sterneck, Martina, additional, Teufel, Andreas, additional, Vallier, Ludovic, additional, Verheij, Joanne, additional, Vila, Arnau Vich, additional, Vries, Boudewijn de, additional, Zachou, Kalliopi, additional, Chapman, Roger W, additional, Manns, Michael P, additional, Pinzani, Massimo, additional, Rushbrook, Simon M, additional, Lazaridis, Konstantinos N, additional, Franke, Andre, additional, Anderson, Carl A, additional, Karlsen, Tom H, additional, Ponsioen, Cyriel Y, additional, and Weersma, Rinse K, additional

Published
2017
Full Text
View/download PDF

33. Corrigendum: Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses

Author

Circulatory Health, Experimentele Afd. Cardiologie 1, Onderzoek Vrouw Hart & Vaatziekten, CDL Cluster Onderzoek en Onderwijs, Genetica, Okbay, Aysu, Baselmans, Bart M L, De Neve, Jan-Emmanuel, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Pasterkamp, Gerard, den Ruijter, Hester M, Alizadeh, Behrooz Z, LifeLines Cohort Study, Circulatory Health, Experimentele Afd. Cardiologie 1, Onderzoek Vrouw Hart & Vaatziekten, CDL Cluster Onderzoek en Onderwijs, Genetica, Okbay, Aysu, Baselmans, Bart M L, De Neve, Jan-Emmanuel, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Pasterkamp, Gerard, den Ruijter, Hester M, Alizadeh, Behrooz Z, and LifeLines Cohort Study

Published
2016

34. Corrigendum: Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses

Author

Experimentele Afd. Cardiologie 1, Circulatory Health, Onderzoek Vrouw Hart & Vaatziekten, CDL Cluster Onderzoek en Onderwijs, Genetica, Okbay, Aysu, Baselmans, Bart M L, Neve, Jan-Emmanuel De, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Pasterkamp, Gerard, den Ruijter, Hester M, Alizadeh, Behrooz Z, LifeLines Cohort Study, Experimentele Afd. Cardiologie 1, Circulatory Health, Onderzoek Vrouw Hart & Vaatziekten, CDL Cluster Onderzoek en Onderwijs, Genetica, Okbay, Aysu, Baselmans, Bart M L, Neve, Jan-Emmanuel De, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Pasterkamp, Gerard, den Ruijter, Hester M, Alizadeh, Behrooz Z, and LifeLines Cohort Study

Published
2016

35. Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses

Author

Experimentele Afd. Cardiologie 1, Circulatory Health, Onderzoek Vrouw Hart & Vaatziekten, CDL Cluster Onderzoek en Onderwijs, Genetica, Okbay, Aysu, Baselmans, Bart M L, De Neve, Jan-Emmanuel, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Pasterkamp, Gerard, den Ruijter, Hester M, Alizadeh, Behrooz Z, LifeLines Cohort Study, Experimentele Afd. Cardiologie 1, Circulatory Health, Onderzoek Vrouw Hart & Vaatziekten, CDL Cluster Onderzoek en Onderwijs, Genetica, Okbay, Aysu, Baselmans, Bart M L, De Neve, Jan-Emmanuel, Turley, Patrick, Nivard, Michel G, Fontana, Mark Alan, Meddens, S Fleur W, Linnér, Richard Karlsson, Rietveld, Cornelius A, Derringer, Jaime, Gratten, Jacob, Lee, James J, Liu, Jimmy Z, de Vlaming, Ronald, Ahluwalia, Tarunveer S, Buchwald, Jadwiga, Cavadino, Alana, Frazier-Wood, Alexis C, Furlotte, Nicholas A, Garfield, Victoria, Geisel, Marie Henrike, Gonzalez, Juan R, Haitjema, Saskia, Karlsson, Robert, van der Laan, Sander W, Ladwig, Karl-Heinz, Lahti, Jari, van der Lee, Sven J, Lind, Penelope A, Liu, Tian, Matteson, Lindsay, Mihailov, Evelin, Miller, Michael B, Minica, Camelia C, Nolte, Ilja M, Mook-Kanamori, Dennis, van der Most, Peter J, Oldmeadow, Christopher, Qian, Yong, Raitakari, Olli, Rawal, Rajesh, Realo, Anu, Rueedi, Rico, Schmidt, Börge, Smith, Albert V, Stergiakouli, Evie, Tanaka, Toshiko, Pasterkamp, Gerard, den Ruijter, Hester M, Alizadeh, Behrooz Z, and LifeLines Cohort Study

Published
2016

39. Dense fine-mapping study identifies new susceptibility loci for primary biliary cirrhosis

Author

Liu, Jimmy Z, Almarri, Mohamed A, Gaffney, Daniel J, Mells, George F, Jostins, Luke, Cordell, Heather J, Ducker, Samantha J, Day, Darren B, Heneghan, Michael A, Neuberger, James M, Donaldson, Peter T, Bathgate, Andrew J, Burroughs, Andrew, Davies, Mervyn H, Jones, David E, Alexander, Graeme J, Barrett, Jeffrey C, Sandford, Richard N, Anderson, Carl A, UK Primary Biliary Cirrhosis (PBC) Consortium, Wellcome Trust Case Control Consortium 3, Sandford, Richard [0000-0002-7437-0560], and Apollo - University of Cambridge Repository

Subjects
TYK2 Kinase, Genotype, Liver Cirrhosis, Biliary, Intracellular Signaling Peptides and Proteins, Chromosome Mapping, Proteins, Sequence Analysis, DNA, Polymorphism, Single Nucleotide, Linkage Disequilibrium, Gene Frequency, Genetic Loci, HLA Antigens, Case-Control Studies, Humans, Regression Analysis, Genetic Predisposition to Disease, Chromosomes, Human, Pair 19, Adaptor Proteins, Signal Transducing, Genome-Wide Association Study
Abstract

We genotyped 2,861 cases of primary biliary cirrhosis (PBC) from the UK PBC Consortium and 8,514 UK population controls across 196,524 variants within 186 known autoimmune risk loci. We identified 3 loci newly associated with PBC (at P0.8) with the most associated variant at the locus. We found multiple independent common, low-frequency and rare variant association signals at five loci. Of the 26 independent non-human leukocyte antigen (HLA) signals tagged on the Immunochip, 15 have SNPs in B-lymphoblastoid open chromatin regions in high LD (r2>0.8) with the most associated variant. This study shows how data from dense fine-mapping arrays coupled with functional genomic data can be used to identify candidate causal variants for functional follow-up.

Published
2012

40. No association of candidate genes with cannabis use in a large sample of Australian twin families

Author

Verweij, Karin J. H., Zietsch, Brendan P., Liu, Jimmy Z., Medland, Sarah E., Lynskey, Michael T., Madden, Pamela A. F., Agrawal, Arpana, Montgomery, Grant W., Heath, Andrew C., Martin, Nicholas G., and Academic Medical Center

Subjects
Adult, Male, Marijuana Abuse, Genes, Australia, Humans, Female, Genetic Predisposition to Disease, Middle Aged, Polymorphism, Single Nucleotide, Article, Genome-Wide Association Study, Pedigree
Abstract

While there is solid evidence that cannabis use is heritable, attempts to identify genetic influences at the molecular level have yielded mixed results. Here, a large twin family sample (n = 7452) was used to test for association between 10 previously reported candidate genes and lifetime frequency of cannabis use using a gene-based association test. None of the candidate genes reached even nominal significance (P < 0.05). The lack of replication may point to our limited understanding of the neurobiology of cannabis involvement and also to potential publication bias and false-positive findings in previous studies. © 2011 Society for the Study of Addiction.

Published
2011

41. Association analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations.

Author

UCL - SSS/IREC/GAEN - Pôle d'Hépato-gastro-entérologie, UCL - (MGD) Service de gastro-entérologie, Liu, Jimmy Z, van Sommeren, Suzanne, Huang, Hailiang, Ng, Siew C, Alberts, Rudi, Takahashi, Atsushi, Ripke, Stephan, Lee, James C, Jostins, Luke, Shah, Tejas, Abedian, Shifteh, Cheon, Jae Hee, Cho, Judy, Dayani, Naser E, Franke, Lude, Fuyuno, Yuta, Hart, Ailsa, Juyal, Ramesh C, Juyal, Garima, Kim, Won Ho, Morris, Andrew P, Poustchi, Hossein, Newman, William G, Midha, Vandana, Orchard, Timothy R, Vahedi, Homayon, Sood, Ajit, Sung, Joseph Y, Malekzadeh, Reza, Westra, Harm-Jan, Yamazaki, Keiko, Yang, Suk-Kyun, International Multiple Sclerosis Genetics Consortium, International IBD Genetics Consortium, Barrett, Jeffrey C, Alizadeh, Behrooz Z, Parkes, Miles, Bk, Thelma, Daly, Mark J, Kubo, Michiaki, Anderson, Carl A, Weersma, Rinse K, Rahier, Jean-François, UCL - SSS/IREC/GAEN - Pôle d'Hépato-gastro-entérologie, UCL - (MGD) Service de gastro-entérologie, Liu, Jimmy Z, van Sommeren, Suzanne, Huang, Hailiang, Ng, Siew C, Alberts, Rudi, Takahashi, Atsushi, Ripke, Stephan, Lee, James C, Jostins, Luke, Shah, Tejas, Abedian, Shifteh, Cheon, Jae Hee, Cho, Judy, Dayani, Naser E, Franke, Lude, Fuyuno, Yuta, Hart, Ailsa, Juyal, Ramesh C, Juyal, Garima, Kim, Won Ho, Morris, Andrew P, Poustchi, Hossein, Newman, William G, Midha, Vandana, Orchard, Timothy R, Vahedi, Homayon, Sood, Ajit, Sung, Joseph Y, Malekzadeh, Reza, Westra, Harm-Jan, Yamazaki, Keiko, Yang, Suk-Kyun, International Multiple Sclerosis Genetics Consortium, International IBD Genetics Consortium, Barrett, Jeffrey C, Alizadeh, Behrooz Z, Parkes, Miles, Bk, Thelma, Daly, Mark J, Kubo, Michiaki, Anderson, Carl A, Weersma, Rinse K, and Rahier, Jean-François

Abstract

Ulcerative colitis and Crohn's disease are the two main forms of inflammatory bowel disease (IBD). Here we report the first trans-ancestry association study of IBD, with genome-wide or Immunochip genotype data from an extended cohort of 86,640 European individuals and Immunochip data from 9,846 individuals of East Asian, Indian or Iranian descent. We implicate 38 loci in IBD risk for the first time. For the majority of the IBD risk loci, the direction and magnitude of effect are consistent in European and non-European cohorts. Nevertheless, we observe genetic heterogeneity between divergent populations at several established risk loci driven by differences in allele frequency (NOD2) or effect size (TNFSF15 and ATG16L1) or a combination of these factors (IL23R and IRGM). Our results provide biological insights into the pathogenesis of IBD and demonstrate the usefulness of trans-ancestry association studies for mapping loci associated with complex diseases and understanding genetic architecture across diverse populations.

Published
2015

42. Susceptibility to tuberculosis is associated with variants in the ASAP1 gene encoding a regulator of dendritic cell migration

Author

Curtis, James, primary, Luo, Yang, additional, Zenner, Helen L, additional, Cuchet-Lourenço, Delphine, additional, Wu, Changxin, additional, Lo, Kitty, additional, Maes, Mailis, additional, Alisaac, Ali, additional, Stebbings, Emma, additional, Liu, Jimmy Z, additional, Kopanitsa, Liliya, additional, Ignatyeva, Olga, additional, Balabanova, Yanina, additional, Nikolayevskyy, Vladyslav, additional, Baessmann, Ingelore, additional, Thye, Thorsten, additional, Meyer, Christian G, additional, Nürnberg, Peter, additional, Horstmann, Rolf D, additional, Drobniewski, Francis, additional, Plagnol, Vincent, additional, Barrett, Jeffrey C, additional, and Nejentsev, Sergey, additional

Published
2015
Full Text
View/download PDF

44. Abstract 20: POT1 mutations predispose to familial melanoma

Author

Robles-Espinoza, Carla Daniela, primary, Harland, Mark, additional, Ramsay, Andrew J., additional, Aoude, Lauren G., additional, Quesada, Victor, additional, Ding, Zhihao, additional, Pooley, Karen A., additional, Pritchard, Antonia L., additional, Tiffen, Jessamy C., additional, Petljak, Mia, additional, Palmer, Jane M., additional, Symmons, Judith, additional, Johansson, Peter, additional, Stark, Mitchell S., additional, Gartside, Michael G., additional, Snowden, Helen, additional, Montgomery, Grant W., additional, Martin, Nicholas G., additional, Liu, Jimmy Z., additional, Choi, Jiyeon, additional, Makowski, Matthew, additional, Brown, Kevin M., additional, Dunning, Alison M., additional, Keane, Thomas M., additional, Lopez-Otin, Carlos, additional, Gruis, Nelleke A., additional, Hayward, Nicholas K., additional, Bishop, D. Timothy, additional, Newton-Bishop, Julia A., additional, and Adams, David J., additional

Published
2014
Full Text
View/download PDF

47. POT1 loss-of-function variants predispose to familial melanoma

Author

Robles-Espinoza, Carla Daniela, primary, Harland, Mark, additional, Ramsay, Andrew J, additional, Aoude, Lauren G, additional, Quesada, Víctor, additional, Ding, Zhihao, additional, Pooley, Karen A, additional, Pritchard, Antonia L, additional, Tiffen, Jessamy C, additional, Petljak, Mia, additional, Palmer, Jane M, additional, Symmons, Judith, additional, Johansson, Peter, additional, Stark, Mitchell S, additional, Gartside, Michael G, additional, Snowden, Helen, additional, Montgomery, Grant W, additional, Martin, Nicholas G, additional, Liu, Jimmy Z, additional, Choi, Jiyeon, additional, Makowski, Matthew, additional, Brown, Kevin M, additional, Dunning, Alison M, additional, Keane, Thomas M, additional, López-Otín, Carlos, additional, Gruis, Nelleke A, additional, Hayward, Nicholas K, additional, Bishop, D Timothy, additional, Newton-Bishop, Julia A, additional, and Adams, David J, additional

Published
2014
Full Text
View/download PDF

48. Genome-wide association study identifies a new melanoma susceptibility locus at 1q21.3

Author

MacGregor, Stuart, primary, Montgomery, Grant W, additional, Liu, Jimmy Z, additional, Zhao, Zhen Zhen, additional, Henders, Anjali K, additional, Stark, Mitchell, additional, Schmid, Helen, additional, Holland, Elizabeth A, additional, Duffy, David L, additional, Zhang, Mingfeng, additional, Painter, Jodie N, additional, Nyholt, Dale R, additional, Maskiell, Judith A, additional, Jetann, Jodie, additional, Ferguson, Megan, additional, Cust, Anne E, additional, Jenkins, Mark A, additional, Whiteman, David C, additional, Olsson, Håkan, additional, Puig, Susana, additional, Bianchi-Scarrà, Giovanna, additional, Hansson, Johan, additional, Demenais, Florence, additional, Landi, Maria Teresa, additional, Dębniak, Tadeusz, additional, Mackie, Rona, additional, Azizi, Esther, additional, Bressac-de Paillerets, Brigitte, additional, Goldstein, Alisa M, additional, Kanetsky, Peter A, additional, Gruis, Nelleke A, additional, Elder, David E, additional, Newton-Bishop, Julia A, additional, Bishop, D Timothy, additional, Iles, Mark M, additional, Helsing, Per, additional, Amos, Christopher I, additional, Wei, Qingyi, additional, Wang, Li-E, additional, Lee, Jeffrey E, additional, Qureshi, Abrar A, additional, Kefford, Richard F, additional, Giles, Graham G, additional, Armstrong, Bruce K, additional, Aitken, Joanne F, additional, Han, Jiali, additional, Hopper, John L, additional, Trent, Jeffrey M, additional, Brown, Kevin M, additional, Martin, Nicholas G, additional, Mann, Graham J, additional, and Hayward, Nicholas K, additional

Published
2011
Full Text
View/download PDF

49. A 3p26-3p25 Genetic Linkage Finding for DSM-IV Major Depression in Heavy Smoking Families

Author

Pergadia, Michele L., primary, Glowinski, Anne L., additional, Wray, Naomi R., additional, Agrawal, Arpana, additional, Saccone, Scott F., additional, Loukola, Anu, additional, Broms, Ulla, additional, Korhonen, Tellervo, additional, Penninx, Brenda W.J.H., additional, Grant, Julia D., additional, Nelson, Elliot C., additional, Henders, Anjali K., additional, Schrage, Andrew J., additional, Chou, Yi-Ling, additional, Keskitalo-Vuokko, Kaisu, additional, Zhu, Qin, additional, Gordon, Scott D., additional, Vink, Jacqueline M., additional, de Geus, Eco J.C., additional, MacGregor, Stuart, additional, Liu, Jimmy Z., additional, Willemsen, Gonneke, additional, Medland, Sarah E., additional, Boomsma, Dorret I., additional, Montgomery, Grant W., additional, Rice, John P., additional, Goate, Alison M., additional, Heath, Andrew C., additional, Kaprio, Jaakko, additional, Martin, Nicholas G., additional, and Madden, Pamela A.F., additional

Published
2011
Full Text
View/download PDF

50. Genome-wide association study identifies susceptibility loci for open angle glaucoma at TMCO1 and CDKN2B-AS1

Author

Burdon, Kathryn P, primary, Macgregor, Stuart, additional, Hewitt, Alex W, additional, Sharma, Shiwani, additional, Chidlow, Glyn, additional, Mills, Richard A, additional, Danoy, Patrick, additional, Casson, Robert, additional, Viswanathan, Ananth C, additional, Liu, Jimmy Z, additional, Landers, John, additional, Henders, Anjali K, additional, Wood, John, additional, Souzeau, Emmanuelle, additional, Crawford, April, additional, Leo, Paul, additional, Wang, Jie Jin, additional, Rochtchina, Elena, additional, Nyholt, Dale R, additional, Martin, Nicholas G, additional, Montgomery, Grant W, additional, Mitchell, Paul, additional, Brown, Matthew A, additional, Mackey, David A, additional, and Craig, Jamie E, additional

Published
2011
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results