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3. Genome-wide association study in a Chinese population identifies a susceptibility locus for type 2 diabetes at 7q32 near PAX4

Author

Ma, R. C. W., Hu, C., Tam, C. H., Zhang, R., Kwan, P., Leung, T. F., Thomas, G. N., Go, M. J., Hara, K., Sim, X., Ho, J. S. K., Wang, C., Li, H., Lu, L., Wang, Y., Li, J. W., Wang, Y., Lam, V. K. L., Wang, J., Yu, W., Kim, Y. J., Ng, D. P., Fujita, H., Panoutsopoulou, K., Day-Williams, A. G., Lee, H. M., Ng, A. C. W., Fang, Y-J., Kong, A. P. S., Jiang, F., Ma, X., Hou, X., Tang, S., Lu, J., Yamauchi, T., Tsui, S. K. W., Woo, J., Leung, P. C., Zhang, X., Tang, N. L. S., Sy, H. Y., Liu, J., Wong, T. Y., Lee, J. Y., Maeda, S., Xu, G., Cherny, S. S., Chan, T. F., Ng, M. C. Y., Xiang, K., Morris, A. P., Keildson, S., Hu, R., Ji, L., Lin, X., Cho, Y. S., Kadowaki, T., Tai, E. S., Zeggini, E., McCarthy, M. I., Hon, K. L., Baum, L., Tomlinson, B., So, W. Y., Bao, Y., Chan, J. C. N., Jia, W., DIAGRAM Consortium, and The MuTHER Consortium

Published
2013
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6. Fine mapping of the 9q31 Hirschsprung’s disease locus

Author

Tang, C. S., Sribudiani, Y., Miao, X. P., de Vries, A. R., Burzynski, G., So, M. T., Leon, Y. Y., Yip, B. H., Osinga, J., Hui, K. J. W. S., Verheij, J. B. G. M., Cherny, S. S., Tam, P. K. H., Sham, P. C., Hofstra, R. M. W., and Garcia-Barceló, M. M.

Published
2010
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13. Polygenic burden in focal and generalized epilepsies

Author

Leu C., Stevelink R., Smith A. W., Goleva S. B., Kanai M., Ferguson L., Campbell C., Kamatani Y., Okada Y., Sisodiya S. M., Cavalleri G. L., Koeleman B. P. C., Lerche H., Jehi L., Davis L. K., Najm I. M., Palotie A., Daly M. J., Busch R. M., Lal D., Feng Y. -C. A., Howrigan D. P., Abbott L. E., Tashman K., Cerrato F., Churchhouse C., Gupta N., Neale B. M., Berkovic S. F., Goldstein D. B., Lowenstein D. H., Cossette P., Cotsapas C., De Jonghe P., Dixon-Salazar T., Guerrini R., Hakonarson H., Heinzen E. L., Helbig I., Kwan P., Marson A. G., Petrovski S., Kamalakaran S., Stewart R., Weckhuysen S., Depondt C., Dlugos D. J., Scheffer I. E., Striano P., Freyer C., Krause R., May P., McKenna K., Regan B. M., Bellows S. T., Bennett C. A., Johns E. M. C., Macdonald A., Shilling H., Burgess R., Weckhuysen D., Bahlo M., O'Brien T. J., Todaro M., Stamberger H., Andrade D. M., Sadoway T. R., Mo K., Krestel H., Gallati S., Papacostas S. S., Kousiappa I., Tanteles G. A., Sterbova K., Vlckova M., Sedlackova L., Lassuthova P., Klein K. M., Rosenow F., Reif P. S., Knake S., Kunz W. S., Zsurka G., Elger C. E., Bauer J., Rademacher M., Pendziwiat M., Muhle H., Rademacher A., Van Baalen A., Von Spiczak S., Stephani U., Afawi Z., Korczyn A. D., Kanaan M., Canavati C., Kurlemann G., Muller-Schluter K., Kluger G., Hausler M., Blatt I., Lemke J. R., Krey I., Weber Y. G., Wolking S., Becker F., Hengsbach C., Rau S., Maisch A. F., Steinhoff B. J., Schulze-Bonhage A., Schubert-Bast S., Schreiber H., Borggrafe I., Schankin C. J., Mayer T., Korinthenberg R., Brockmann K., Dennig D., Madeleyn R., Kalviainen R., Auvinen P., Saarela A., Linnankivi T., Lehesjoki A. -E., Rees M. I., Chung S. -K., Pickrell W. O., Powell R., Schneider N., Balestrini S., Zagaglia S., Braatz V., Johnson M. R., Auce P., Sills G. J., Baum L. W., Sham P. C., Cherny S. S., Lui C. H. T., Barisic N., Delanty N., Doherty C. P., Shukralla A., McCormack M., El-Naggar H., Canafoglia L., Franceschetti S., Castellotti B., Granata T., Zara F., Iacomino M., Madia F., Vari M. S., Mancardi M. M., Salpietro V., Bisulli F., Tinuper P., Licchetta L., Pippucci T., Stipa C., Muccioli L., Minardi R., Gambardella A., Labate A., Annesi G., Manna L., Gagliardi M., Parrini E., Mei D., Vetro A., Bianchini C., Montomoli M., Doccini V., Marini C., Suzuki T., Inoue Y., Yamakawa K., Birute T., Ruta M., Algirdas U., Ruta P., Jurgita G., Ruta S., Sadleir L. G., King C., Mountier E., Caglayan S. H., Arslan M., Yapici Z., Yis U., Topaloglu P., Kara B., Turkdogan D., Gundogdu-Eken A., Bebek N., Ugur-Iseri S., Baykan B., Salman B., Haryanyan G., Yucesan E., Kesim Y., Ozkara C., Sheidley B. R., Shain C., Poduri A., Buono R. J., Ferraro T. N., Sperling M. R., Lo W., Privitera M., French J. A., Schachter S., Kuzniecky R. I., Devinsky O., Hegde M., Khankhanian P., Helbig K. L., Ellis C. A., Spalletta G., Piras F., Gili T., Ciullo V., Leu C., Stevelink R., Smith A.W., Goleva S.B., Kanai M., Ferguson L., Campbell C., Kamatani Y., Okada Y., Sisodiya S.M., Cavalleri G.L., Koeleman B.P.C., Lerche H., Jehi L., Davis L.K., Najm I.M., Palotie A., Daly M.J., Busch R.M., Lal D., Feng Y.-C.A., Howrigan D.P., Abbott L.E., Tashman K., Cerrato F., Churchhouse C., Gupta N., Neale B.M., Berkovic S.F., Goldstein D.B., Lowenstein D.H., Cossette P., Cotsapas C., De Jonghe P., Dixon-Salazar T., Guerrini R., Hakonarson H., Heinzen E.L., Helbig I., Kwan P., Marson A.G., Petrovski S., Kamalakaran S., Stewart R., Weckhuysen S., Depondt C., Dlugos D.J., Scheffer I.E., Striano P., Freyer C., Krause R., May P., McKenna K., Regan B.M., Bellows S.T., Bennett C.A., Johns E.M.C., Macdonald A., Shilling H., Burgess R., Weckhuysen D., Bahlo M., O'Brien T.J., Todaro M., Stamberger H., Andrade D.M., Sadoway T.R., Mo K., Krestel H., Gallati S., Papacostas S.S., Kousiappa I., Tanteles G.A., Sterbova K., Vlckova M., Sedlackova L., Lassuthova P., Klein K.M., Rosenow F., Reif P.S., Knake S., Kunz W.S., Zsurka G., Elger C.E., Bauer J., Rademacher M., Pendziwiat M., Muhle H., Rademacher A., Van Baalen A., Von Spiczak S., Stephani U., Afawi Z., Korczyn A.D., Kanaan M., Canavati C., Kurlemann G., Muller-Schluter K., Kluger G., Hausler M., Blatt I., Lemke J.R., Krey I., Weber Y.G., Wolking S., Becker F., Hengsbach C., Rau S., Maisch A.F., Steinhoff B.J., Schulze-Bonhage A., Schubert-Bast S., Schreiber H., Borggrafe I., Schankin C.J., Mayer T., Korinthenberg R., Brockmann K., Dennig D., Madeleyn R., Kalviainen R., Auvinen P., Saarela A., Linnankivi T., Lehesjoki A.-E., Rees M.I., Chung S.-K., Pickrell W.O., Powell R., Schneider N., Balestrini S., Zagaglia S., Braatz V., Johnson M.R., Auce P., Sills G.J., Baum L.W., Sham P.C., Cherny S.S., Lui C.H.T., Barisic N., Delanty N., Doherty C.P., Shukralla A., McCormack M., El-Naggar H., Canafoglia L., Franceschetti S., Castellotti B., Granata T., Zara F., Iacomino M., Madia F., Vari M.S., Mancardi M.M., Salpietro V., Bisulli F., Tinuper P., Licchetta L., Pippucci T., Stipa C., Muccioli L., Minardi R., Gambardella A., Labate A., Annesi G., Manna L., Gagliardi M., Parrini E., Mei D., Vetro A., Bianchini C., Montomoli M., Doccini V., Marini C., Suzuki T., Inoue Y., Yamakawa K., Birute T., Ruta M., Algirdas U., Ruta P., Jurgita G., Ruta S., Sadleir L.G., King C., Mountier E., Caglayan S.H., Arslan M., Yapici Z., Yis U., Topaloglu P., Kara B., Turkdogan D., Gundogdu-Eken A., Bebek N., Ugur-Iseri S., Baykan B., Salman B., Haryanyan G., Yucesan E., Kesim Y., Ozkara C., Sheidley B.R., Shain C., Poduri A., Buono R.J., Ferraro T.N., Sperling M.R., Lo W., Privitera M., French J.A., Schachter S., Kuzniecky R.I., Devinsky O., Hegde M., Khankhanian P., Helbig K.L., Ellis C.A., Spalletta G., Piras F., Gili T., Ciullo V., Commission of the European Communities, Medical Research Council (MRC), Tumienė, Birutė, Mameniškienė, Rūta, Utkus, Algirdas, Praninskienė, Rūta, Grikinienė, Jurgita, Samaitienė-Aleknienė, Rūta, Centre of Excellence in Complex Disease Genetics, Aarno Palotie / Principal Investigator, Institute for Molecular Medicine Finland, Genomics of Neurological and Neuropsychiatric Disorders, University of Helsinki, Helsinki Institute of Life Science HiLIFE, and Department of Medical and Clinical Genetics

Subjects
0301 basic medicine, Male, Multifactorial Inheritance, Epi25 Consortium, Databases, Factual, FEATURES, Genome-wide association study, Epilepsies, 3124 Neurology and psychiatry, Cohort Studies, Epilepsy, 0302 clinical medicine, Cost of Illness, 1ST SEIZURE, HISTORY, genetics, POPULATION, 11 Medical and Health Sciences, education.field_of_study, medicine.diagnostic_test, SCORES, Single Nucleotide, Biobank, 3. Good health, 17 Psychology and Cognitive Sciences, Genetic generalized epilepsy, Epilepsy, Generalized, Female, Partial, Cohort study, Human, medicine.medical_specialty, Population, European Continental Ancestry Group, Clinical Neurology, BIOBANK, Polymorphism, Single Nucleotide, epilepsy, genetic generalized epilepsy, common variant risk, Databases, 03 medical and health sciences, Genetic, Internal medicine, medicine, Journal Article, Genetics, Humans, Genetic Predisposition to Disease, Polymorphism, GENOME-WIDE ASSOCIATION, Generalized epilepsy, education, SEIZURE RECURRENCE, Factual, METAANALYSIS, Genetic testing, Neurology & Neurosurgery, RISK PREDICTION, Generalized, business.industry, 3112 Neurosciences, Common variant risk, Genetic Variation, Original Articles, medicine.disease, Comorbidity, Cost of Illne, Epilepsies, Partial, Genome-Wide Association Study, 030104 developmental biology, Neurology (clinical), Cohort Studie, business, 030217 neurology & neurosurgery
Abstract

See Hansen and Møller (doi:10.1093/brain/awz318) for a scientific commentary on this article. Using polygenic risk scores from a genome-wide association study in generalized and focal epilepsy, Leu et al. reveal a significantly higher genetic burden for epilepsy in multiple cohorts of people with epilepsy compared to population controls. Quantification of common variant burden may be valuable for epilepsy prognosis and treatment., Rare genetic variants can cause epilepsy, and genetic testing has been widely adopted for severe, paediatric-onset epilepsies. The phenotypic consequences of common genetic risk burden for epilepsies and their potential future clinical applications have not yet been determined. Using polygenic risk scores (PRS) from a European-ancestry genome-wide association study in generalized and focal epilepsy, we quantified common genetic burden in patients with generalized epilepsy (GE-PRS) or focal epilepsy (FE-PRS) from two independent non-Finnish European cohorts (Epi25 Consortium, n = 5705; Cleveland Clinic Epilepsy Center, n = 620; both compared to 20 435 controls). One Finnish-ancestry population isolate (Finnish-ancestry Epi25, n = 449; compared to 1559 controls), two European-ancestry biobanks (UK Biobank, n = 383 656; Vanderbilt biorepository, n = 49 494), and one Japanese-ancestry biobank (BioBank Japan, n = 168 680) were used for additional replications. Across 8386 patients with epilepsy and 622 212 population controls, we found and replicated significantly higher GE-PRS in patients with generalized epilepsy of European-ancestry compared to patients with focal epilepsy (Epi25: P = 1.64×10−15; Cleveland: P = 2.85×10−4; Finnish-ancestry Epi25: P = 1.80×10−4) or population controls (Epi25: P = 2.35×10−70; Cleveland: P = 1.43×10−7; Finnish-ancestry Epi25: P = 3.11×10−4; UK Biobank and Vanderbilt biorepository meta-analysis: P = 7.99×10−4). FE-PRS were significantly higher in patients with focal epilepsy compared to controls in the non-Finnish, non-biobank cohorts (Epi25: P = 5.74×10−19; Cleveland: P = 1.69×10−6). European ancestry-derived PRS did not predict generalized epilepsy or focal epilepsy in Japanese-ancestry individuals. Finally, we observed a significant 4.6-fold and a 4.5-fold enrichment of patients with generalized epilepsy compared to controls in the top 0.5% highest GE-PRS of the two non-Finnish European cohorts (Epi25: P = 2.60×10−15; Cleveland: P = 1.39×10−2). We conclude that common variant risk associated with epilepsy is significantly enriched in multiple cohorts of patients with epilepsy compared to controls—in particular for generalized epilepsy. As sample sizes and PRS accuracy continue to increase with further common variant discovery, PRS could complement established clinical biomarkers and augment genetic testing for patient classification, comorbidity research, and potentially targeted treatment.

Published
2019
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28. OpenADAM: an open source genome-wide association data management system for Affymetrix SNP arrays

Author

Sham P C, Yeung J MY, Chan A SW, and Cherny S S

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background Large scale genome-wide association studies have become popular since the introduction of high throughput genotyping platforms. Efficient management of the vast array of data generated poses many challenges. Description We have developed an open source web-based data management system for the large amount of genotype data generated from the Affymetrix GeneChip® Mapping Array and Affymetrix Genome-Wide Human SNP Array platforms. The database supports genotype calling using DM, BRLMM, BRLMM-P or Birdseed algorithms provided by the Affymetrix Power Tools. The genotype and corresponding pedigree data are stored in a relational database for efficient downstream data manipulation and analysis, such as calculation of allele and genotype frequencies, sample identity checking, and export of genotype data in various file formats for analysis using commonly-available software. A novel method for genotyping error estimation is implemented using linkage disequilibrium information from the HapMap project. All functionalities are accessible via a web-based user interface. Conclusion OpenADAM provides an open source database system for management of Affymetrix genome-wide association SNP data.

Published
2008
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33. Erratum : Reciprocal causation models of cognitive vs volumetric cerebral intermediate phenotypes for schizophrenia in a pan-European twin cohort (Molecular Psychiatry (2015) 20, 1386-1396; DOI:10.1038/mp.2014.152)

Author

Toulopoulou, T., Van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H.H., Brouwer, R., Schnack, H., Fañanás, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., Kahn, R. S., Toulopoulou, T., Van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H.H., Brouwer, R., Schnack, H., Fañanás, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., and Kahn, R. S.

Published
2015

34. Reciprocal causation models of cognitive vs volumetric cerebral intermediate phenotypes for schizophrenia in a pan-European twin cohort

Author

Toulopoulou, T., van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H. H., Brouwer, R., Schnack, H., Fananas, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., Kahn, R. S., Toulopoulou, T., van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H. H., Brouwer, R., Schnack, H., Fananas, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., and Kahn, R. S.

Published
2015

35. Erratum: Reciprocal causation models of cognitive vs volumetric cerebral intermediate phenotypes for schizophrenia in a pan-European twin cohort (Molecular Psychiatry (2015) 20, 1386-1396; DOI:10.1038/mp.2014.152)

Author

Onderzoeksgroep 4, Brain, Onderzoeksgroep 1, Ontwikkelingsstoornissen Zorg, Onderzoek, Toulopoulou, T., Van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H.H., Brouwer, R., Schnack, H., Fañanás, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., Kahn, R. S., Onderzoeksgroep 4, Brain, Onderzoeksgroep 1, Ontwikkelingsstoornissen Zorg, Onderzoek, Toulopoulou, T., Van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H.H., Brouwer, R., Schnack, H., Fañanás, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., and Kahn, R. S.

Published
2015

36. Reciprocal causation models of cognitive vs volumetric cerebral intermediate phenotypes for schizophrenia in a pan-European twin cohort

Author

Onderzoeksgroep 4, Brain, Ontwikkelingsstoornissen Zorg, Onderzoek, Toulopoulou, T., van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H. H., Brouwer, R., Schnack, H., Fananas, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., Kahn, R. S., Onderzoeksgroep 4, Brain, Ontwikkelingsstoornissen Zorg, Onderzoek, Toulopoulou, T., van Haren, N., Zhang, X., Sham, P. C., Cherny, S. S., Campbell, D. D., Picchioni, M., Murray, R., Boomsma, D. I., Pol, H. H., Brouwer, R., Schnack, H., Fananas, L., Sauer, H., Nenadic, I., Weisbrod, M., Cannon, T. D., and Kahn, R. S.

Published
2015

37. Reciprocal causation models of cognitive vs volumetric cerebral intermediate phenotypes for schizophrenia in a pan-European twin cohort

Author

Toulopoulou, T, primary, van Haren, N, additional, Zhang, X, additional, Sham, P C, additional, Cherny, S S, additional, Campbell, D D, additional, Picchioni, M, additional, Murray, R, additional, Boomsma, D I, additional, Pol, H H, additional, Brouwer, R, additional, Schnack, H, additional, Fañanás, L, additional, Sauer, H, additional, Nenadic, I, additional, Weisbrod, M, additional, Cannon, T D, additional, and Kahn, R S, additional

Published
2014
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38. SNP-based HLA allele tagging, imputation and association with antiepileptic drug-induced cutaneous reactions in Hong Kong Han Chinese

Author

Gui, H, Kwok, M, Baum, L, Sham, P C, Kwan, P, and Cherny, S S

Abstract

Human leukocyte antigen (HLA) genes control the regulation of the human immune system and are involved in immune-related diseases. Population surveys on relationships between single nucleotide polymorphisms (SNP) and HLA alleles are essential to conduct genetic association between HLA variants and diseases. Samples were obtained from our in-house database for epilepsy genetics and pharmacogenetics research. Using 184 epilepsy patients with both genome-wide SNP array and HLA-A/B candidate gene sequencing data, we sought tagging SNPs that completely represent sixHLA risk alleles; in addition, a Hong Kong population-specific reference panel was constructed for SNP-based HLA imputation. The performance of our new panel was compared to a recent Han Chinese panel. Finally, genetic associations of HLA variants with mild skin rash were performed on the combined sample of 408 patients. Common SNPs rs2571375 and rs144295468 were found to successfully tag HLA risk alleles A*31:01 and B*13:01, respectively. HLA-B*15:02 can be predicted by rs144012689 with >95% sensitivity and specificity. The imputation reference panel for the Hong Kong population had comparable performance to the Han Chinese panel due to the large sample size for common HLA alleles, though it retained discordance for imputing rare alleles. No significant genetic associations were found between HLA genetic variants and mild skin rash induced by aromatic antiepileptic drugs. This study provides new information on the genetic structure of HLA regions in the Hong Kong population by identifying tagging SNPs and serving as a reference panel. Moreover, our comprehensive genetic analyses revealed no significant association between HLA alleles and mild skin rash in Hong Kong Han Chinese.

Published
2018
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39. Genome-wide association study identifies a susceptibility locus for biliary atresia on 10q24.2

Author

Garcia-Barcelo, M.-M., primary, Yeung, M.-Y., additional, Miao, X.-P., additional, Tang, C. S.-M., additional, Cheng, G., additional, So, M.-T., additional, Ngan, E.-W., additional, Lui, V. C.-H., additional, Chen, Y., additional, Liu, X.-L., additional, Hui, K.-J. W. S., additional, Li, L., additional, Guo, W.-H., additional, Sun, X.-B., additional, Tou, J.-F., additional, Chan, K.-W., additional, Wu, X.-Z., additional, Song, Y.-Q., additional, Chan, D., additional, Cheung, K., additional, Chung, P. H.-Y., additional, Wong, K. K.-Y., additional, Sham, P.-C., additional, Cherny, S. S., additional, and Tam, P. K.-H., additional

Published
2011
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40. Replication study of SNP associations for colorectal cancer in Hong Kong Chinese

Author

Ho, J W, primary, Choi, S-c, additional, Lee, Y-f, additional, Hui, T C, additional, Cherny, S S, additional, Garcia-Barceló, M-M, additional, Carvajal-Carmona, L, additional, Liu, R, additional, To, S-h, additional, Yau, T-k, additional, Chung, C C, additional, Yau, C C, additional, Hui, S M, additional, Lau, P Y, additional, Yuen, C-h, additional, Wong, Y-w, additional, Ho, S, additional, Fung, S S, additional, Tomlinson, I P, additional, Houlston, R S, additional, Cheng, K K, additional, and Sham, P C, additional

Published
2010
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41. ELF1 is associated with systemic lupus erythematosus in Asian populations

Author

Yang, J., primary, Yang, W., additional, Hirankarn, N., additional, Ye, D. Q., additional, Zhang, Y., additional, Pan, H.-F., additional, Mok, C. C., additional, Chan, T. M., additional, Wong, R. W. S., additional, Mok, M. Y., additional, Lee, K. W., additional, Wong, S. N., additional, Leung, A. M. H., additional, Li, X.-P., additional, Avihingsanon, Y., additional, Rianthavorn, P., additional, Deekajorndej, T., additional, Suphapeetiporn, K., additional, Shotelersuk, V., additional, Baum, L., additional, Kwan, P., additional, Lee, T. L., additional, Ho, M. H. K., additional, Lee, P. P. W., additional, Wong, W. H. S., additional, Zeng, S., additional, Zhang, J., additional, Wong, C.-M., additional, Ng, I. O. L., additional, Garcia-Barcelo, M.-M., additional, Cherny, S. S., additional, Tam, P. K.-H., additional, Sham, P. C., additional, Lau, C. S., additional, and Lau, Y. L., additional

Published
2010
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42. Elevated Plasma Level of Soluble F11 Receptor/Junctional Adhesion Molecule-A (F11R/JAM-A) in Hypertension

Author

Ong, K. L., primary, Leung, R. Y. H., additional, Babinska, A., additional, Salifu, M. O., additional, Ehrlich, Y. H., additional, Kornecki, E., additional, Wong, L. Y. F., additional, Tso, A. W. K., additional, Cherny, S. S., additional, Sham, P. C., additional, Lam, T. H., additional, Lam, K. S. L., additional, and Cheung, B. M. Y., additional

Published
2009
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47. Replication study of SNP associations for colorectal cancer in Hong Kong Chinese.

Author

Ho, J. W., Choi, S.-c., Lee, Y.-f., Hui, T. C., Cherny, S. S., Garcia-Barceló, M.-M., Carvajal-Carmona, L., Liu, R., To, S.-h., Yau, T.-k., Chung, C. C., Yau, C. C., Hui, S. M., Lau, P. Y., Yuen, C.-h., Wong, Y.-w., Ho, S., Fung, S. S., Tomlinson, I. P., and Houlston, R. S.

Subjects
COLON cancer risk factors, CHROMOSOME polymorphism, GENETIC polymorphisms, NUCLEOTIDES, COLON tumors, COMPARATIVE studies, RESEARCH methodology, MEDICAL cooperation, RECTUM tumors, RESEARCH, RESEARCH funding, EVALUATION research, CASE-control method
Abstract

Background: Recent genome-wide association studies of colorectal cancer (CRC) have identified common single-nucleotide polymorphisms (SNPs) mapping to 10 independent loci that confer modest increased risk. These studies have been conducted in European populations and it is unclear whether these observations generalise to populations with different ethnicities and rates of CRC.Methods: An association study was performed on 892 CRC cases and 890 controls recruited from the Hong Kong Chinese population, genotyping 32 SNPs, which were either associated with CRC in previous studies or are in close proximity to previously reported risk SNPs.Results: Twelve of the SNPs showed evidence of an association. The strongest associations were provided by rs10795668 on 10p14, rs4779584 on 15q14 and rs12953717 on 18q21.2. There was significant linear association between CRC risk and the number of independent risk variants possessed by an individual (P=2.29 × 10(-5)).Conclusion: These results indicate that some previously reported SNP associations also impact on CRC risk in the Chinese population. Possible reasons for failure of replication for some loci include inadequate study power, differences in allele frequency, linkage disequilibrium structure or effect size between populations. Our results suggest that many associations for CRC are likely to generalise across populations. [ABSTRACT FROM AUTHOR]

Published
2011
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48. Variance Components and Related Methods for Mapping Quantitative Trait Loci.

Author

Cherny, S. S.

Subjects
*REGRESSION analysis, *MULTIVARIATE analysis, *STATISTICS, *LINKAGE (Genetics), *GENETICS, *HEREDITY
Abstract

Variance components methods have been used in various aspects of genetic analysis for many decades. This article discusses their application to data on quantitative traits for the estimation of polygenic and environmental variances as well as, for the detection of quantitative trait loci using methods of linkage and association. Multivariate approaches are discussed, along with regression-based related methods. Additionally, examples of the application of these methods from the literature are presented. [ABSTRACT FROM AUTHOR]

Published
2008
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