mtag genetic correlation

H��Wێ�6}7��SakZ%JJ� { � � �5P٠�ڲ�Fk����p���˦.Z?H2/3Ùsf�����n�2������y�f�"_�oӋ�m��}:�nr6����:ku�f��]\]��t6�Y�S�fˑ�}x�Y���T�쯑o�p����N�s��������e����g������L�V&kC�E' |%d��;C��*!��@�D��0�����z���3o"ٸ����-�G���1|_x�������y��Qk/��9�����8a7|�'7ؕn�|ޒ���a�����n����&�n��a��[��ye�?xxnp��_Pɬ3�6^ Howev-er, explicitly modeling genetic correlations across pairs of traits and their heritability can provide information on the direction and magnitude of effect sizes across different traits. 2018 Nov;116:301-306. doi: 10.1016/j.bone.2018.08.021. (2017) and Trampush et al. The genetic correlation coefficient of the two traits was estimated to be 0.57. Microsoft® Word 2010 In the Chinese replication group, 2 significant genetic correlation signals were noted, including ulna and radius BMD and whole-body BMD vs schizophrenia (P =.0042 and P =.0027, respectively). The nature of MTAG allows effect sizes to be treated as vectors and projected on an alternate trait based on genetic correlations. Wen Y, Guo X, Hao J, Xiao X, Wang W, Wu C, Wang S, Yang T, Shen H, Chen X, Tan L, Tian Q, Deng HW, Zhang F. Osteoporos Int. HHS [283 0 R 284 0 R 285 0 R 286 0 R 287 0 R 288 0 R 289 0 R 290 0 R 291 0 R 292 0 R] endobj The discovery stage for osteoporosis included 2286 white patients. 183 0 obj We applied genomic structure equation modeling to evaluate the genetic factor structure of two well-established impulsivity questionnaires, using published statistics from genome-wide association studies of up to 22,861 participants. Liang X, Du Y, Wen Y, Liu L, Li P, Zhao Y, Ding M, Cheng B, Cheng S, Ma M, Zhang L, Shen H, Tian Q, Guo X, Zhang F, Deng HW. [231 0 R 232 0 R 233 0 R 234 0 R 235 0 R 236 0 R 237 0 R] Any rows for which (i) the probabilities do not sum to 1, the prior of a SNP being is causal is 0 for any of the traits, and (iii) the resulting genetic correlation matrix is non positive definite will excluded in the search. <>stream endobj The genetic correlation between the largest GWAS on intelligence and the largest GWAS on education was 0.70 [16]. Assessing the Genetic Correlations Between Blood Plasma Proteins and Osteoporosis: A Polygenic Risk Score Analysis. 181 0 obj There was also a Bonferroni-significant positive genetic correlation with celiac disease (rg for MTAG results = 0.1922; p = 0.0001)." I am getting a message that I interpret to mean that you cannot have missing pvalues for SNPs that overlap the two trait summary files. 523 0 obj  |  173 0 obj endobj The bone mineral density (BMD) and bone area values of ulna & radius, hip and spine were measured using Hologic 4500W dual energy X-ray absorptiometry machine. Comparison of the heritability of schizophrenia and endophenotypes in the COGS-1 family study. 877 0 obj endobj The genetic correlation between the largest GWAS on intelligence and the largest GWAS on education was 0.70. <> (2016) Labelled ‘Education’, ‘Cognitive Ability’ Grom a Meta-Analysis of Sniekers et al. 163 0 obj 170 0 obj doi: 10.1016/S0140-6736(15)01121-6. 2014;511:421–427. 526 0 obj In multivariate quantitative genetics, a genetic correlation (denoted r_g or r_a) is the proportion of variance that two traits share due to genetic causes, the correlation between the genetic influences on a trait and the genetic influences on a different trait estimating the degree of pleiotropy or causal overlap.wikipedia. 40 0 obj Multitrait analysis of genome-wide association studies (MTAG) was also conducted to detect novel candidate genes for osteoporosis and schizophrenia. lated both at the genetic level8. endobj [880 0 R 881 0 R] 205 0 obj A trans‐ethnic two‐stage polygenetic scoring analysis detects genetic correlation between osteoporosis and schizophrenia. Full analysis of both the transcriptome and epigenome showed that the implicated loci were enriched for genes expressed across all … endobj It should be noted that Lam et al. The high genetic correlation found between the optic nerve head (ONH) traits (R g =0.31–0.83) raises the question whether multi-trait analyses will improve the statistical power of the individual GWAS and will find variants with pleiotropic effects9. Genetic correlation between amyotrophic lateral sclerosis and schizophrenia. -, Owen MJ, Sawa A, Mortensen PB. When the genetic correlations across all traits are zero and there is no sample overlap (i.e., both and � are diagonal), the MTAG estimates are identical to the GWAS estimates. To explore the genetic correlation between schizophrenia (SCZ) and osteoporosis (OP). Lancet. 189 0 obj endobj Microsoft® Word 2010 160 0 obj 190 0 obj [383 0 R 384 0 R 559 0 R 560 0 R 561 0 R 562 0 R 563 0 R 564 0 R 565 0 R 566 0 R 567 0 R 568 0 R 569 0 R 570 0 R 571 0 R 572 0 R 386 0 R 387 0 R 388 0 R 215 0 R 216 0 R 217 0 R] endobj I wonder what a meta-analysis would show. mtag is a Python-based command line tool for jointly analyzing multiple sets of GWAS summary statistics as described by Turley et. However, as MTAG is considered a common variant method, genetic covariance could also be estimated using an external genetic correlation approach like LD score regression ​(19)​. Insulin resistance negatively affects bone quality not quantity: the relationship between bone and adipose tissue. 167 0 obj Double-Edged Sword of Tumour Suppressor Genes in Schizophrenia. For the GWAS of Caucasian SCZ, SNP genotyping was conducted using the Affymetrix 5.0 array, Affymetrix 6.0 array and Illumina 550 K array. -, Light G, Greenwood TA, Swerdlow NR, et al. <> [379 0 R 380 0 R 381 0 R 382 0 R 214 0 R] Epub 2018 Oct 10. de Araújo IM1, Parreiras-E-Silva LT1, Carvalho AL1, Elias J Jr1, Salmon CEG2, de Paula FJA3. 204 0 obj This equivalence is intuitive, since it corresponds exactly to the case of no correlation between the GWAS estimates that can be … application/pdf 166 0 obj 168 0 obj Previous searches for the specific genes involved have been underpowered and thus unable to detect genetic signals. When applied a LDSC-based genetic correlation analysis, the genetic correlation coefficient between HC and BL is estimated to be as high as 0.55 (s.e. MTAG is an extension of the standard inverse variance weighted meta-analysis that considers the genetic correlation between phenotypes to estimate phenotype-specific effects. Falker-Gieske C, Iffland H, Preuß S, Bessei W, Drögemüller C, Bennewitz J, Tetens J. BMC Genet. endobj 179 0 obj endobj Second, the meta-analysis methods depend on the scales and units of the phenotypes; the units often differ endobj Liu L; Wen Y; Ning Y; et al. N/A Citations. have now included the maxFDR rate, as suggested by the authors of MTAG (Turley et al., 2018). <>/MediaBox[0 0 595.32 842.04]/Parent 2 0 R/Resources<>/ProcSet[/PDF/Text]>>/StructParents 45/Tabs/S/Type/Page>> to determine genetic correlations between phenotypes to putatively identify genetic underpinnings of trait pairs (5). Conclusions: 81472925/the National Natural Scientific Foundation of China, 81673112/the National Natural Scientific Foundation of China, 2016YFE0119100/the Key projects of international cooperation among governments in scientific and technological innovation, 2017JZ024/the Natural Science Basic Research Plan in Shaanxi Province of China, R01AR057049/the National Institutes of Health, R01AR059781/the National Institutes of Health, D43TW009107/the National Institutes of Health, P20 GM109036/GM/NIGMS NIH HHS/United States, R01MH107354/the National Institutes of Health, R01MH104680/the National Institutes of Health, R01GM109068/the National Institutes of Health, Vita A, Barlati S, De Peri L, Deste G, Sacchetti E. Schizophrenia. The genetics of sexual orientation Twin studies and other analyses of inheritance of sexual orientation in humans has indicated that same-sex sexual behavior has a genetic component. The EDU phenotypes educational attainment and cognitive performance have relatively high SNP-heritability: the phenotypic variance explained by genetic information was 40-60% (6) and 21.5% (7), respectively. A total of 51 574 subjects were taken forward for genetic analyses after applying genetic quality control and excluding individuals of non-European ancestry . The genetic correlation coefficient of the two traits was estimated to be 0.57. 177 0 obj 524 0 obj This implies that the three traits have shared genetic background. [352 0 R 352 0 R 352 0 R 352 0 R 352 0 R 352 0 R 352 0 R 352 0 R 352 0 R 352 0 R 353 0 R 353 0 R 353 0 R 353 0 R 353 0 R 353 0 R 353 0 R 353 0 R 353 0 R 353 0 R 354 0 R 354 0 R 354 0 R 354 0 R 354 0 R 354 0 R 354 0 R 354 0 R 354 0 R 354 0 R 355 0 R 355 0 R 355 0 R 355 0 R 355 0 R 355 0 R 355 0 R 356 0 R 356 0 R 356 0 R 356 0 R 356 0 R 356 0 R 356 0 R 356 0 R 356 0 R 357 0 R 357 0 R 357 0 R 357 0 R 357 0 R 357 0 R 358 0 R 358 0 R 358 0 R 358 0 R 358 0 R 358 0 R 358 0 R 359 0 R 359 0 R 359 0 R 359 0 R 359 0 R 359 0 R 359 0 R 359 0 R 360 0 R 360 0 R 360 0 R 360 0 R 360 0 R 360 0 R 360 0 R 361 0 R 361 0 R 361 0 R 361 0 R 361 0 R 361 0 R 361 0 R 362 0 R 362 0 R 362 0 R 362 0 R 362 0 R 362 0 R 362 0 R 362 0 R 362 0 R 363 0 R 363 0 R 363 0 R 363 0 R 363 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 364 0 R 365 0 R 365 0 R 365 0 R 365 0 R 365 0 R 365 0 R 365 0 R 366 0 R 367 0 R 368 0 R 369 0 R] [389 0 R 390 0 R 218 0 R] Lam et al. Finally, MTAG analyzes summary statistics to estimate genetic correlations among traits using bivariate linkage disequilibrium score regression while correcting for the possibility of overlap between samples. (2017), Years of Education from Okbay et al. [402 0 R 403 0 R 404 0 R 405 0 R 406 0 R 225 0 R] endobj In addition, LD Score regression also identified significant genetic correlations between SCZ and bone phenotypes in Caucasian and Chinese sample respectively. Keywords: Genetic correlation coefficient was reported to be 0.57 , implying shared BMD heritability between the two studies. = 0.05); the correlation in effect size estimates at the 76 SNPs was 0.60 (P = 9.0 × 10 − 9; Supplementary Fig. We performed a large-scale cross-trait association analysis to identify the overlapping genes between NAFLD and nine metabolic traits. endobj MTAG analysis identified several novel candidate genes, such as CTNNA2 (MTAG P value = 2.24 × 10-6) for SCZ and FADS2 (MTAG P value = 2.66 × 10-7) for osteoporosis. I wonder what a meta-analysis would show. We show that the results of our combined analysis demonstrate the same pattern of genetic correlations as a single measure/the simple measure of intelligence, providing support for the meta-analysis of these genetically-related phenotypes. <> 527 0 obj Add to library. <> 42 0 obj For this study, we generated new data on these 5 quantitative The replication … From my cursory understanding, an MTAG analysis also wouldn’t exactly answer my question. NLM Insulin resistance negatively affects bone quality not quantity: the relationship between bone and adipose tissue. Intelligence, or general cognitive function, is phenotypically and genetically correlated with many traits, including a wide range of physical, and mental health variables. endobj Nat Commun. Ganna et al. endobj [528 0 R 529 0 R 530 0 R 531 0 R 207 0 R 208 0 R 532 0 R 533 0 R 534 0 R 535 0 R 536 0 R 537 0 R 538 0 R 539 0 R 540 0 R 226 0 R 227 0 R 228 0 R 229 0 R 230 0 R] The research questions to be answered, the data available, and the planned analyses should also guide the choice of methodology. endobj See more; Clinical and Translational Medicine (2020) 9(1) DOI: 10.1186/s40169-020-00272-y. When the genetic correlations across all traits are zero and there is no sample overlap (i.e., both and are diagonal), the MTAG estimates are identical to the GWAS estimates. endobj <> dcess endobj 175 0 obj -, Schizophrenia Working Group of the Psychiatric Genomics C Biological insights from 108 schizophrenia-associated genetic loci. NIH Raymond K. Walters's 64 research works with 3,901 citations and 17,986 reads, including: A large-scale genome-wide association study meta-analysis of cannabis use disorder endobj endobj [502 0 R 503 0 R 504 0 R 505 0 R 506 0 R 507 0 R 508 0 R] Zhuo C, Wang D, Zhou C, Chen C, Li J, Tian H, Li S, Ji F, Liu C, Chen M, Zhang L. Front Mol Neurosci. -. 194 0 obj 202 0 obj Epub 2015 Oct 13. <> 191 0 obj Would you like email updates of new search results? Finally, using an independent sample of 6 844 individuals we were able to predict 7% of intelligence using SNP data alone. <> 2017;8:14774. doi: 10.1038/ncomms14774. MTAG analysis identified several novel candidate genes, such as CTNNA2 (MTAG P value = 2.24 × 10 −6) for SCZ and FADS2 (MTAG P value = 2.66 × 10 −7) for osteoporosis. We performed joint association analysis with a recently developed statistical method multi-trait analysis of GWAS (MTAG) to account for trait heterogeneity and sample overlap. endobj 199 0 obj 2016;388:1280. doi: 10.1016/S0140-6736(16)31674-9. USA.gov. We explore the genetic correlations between cognitive performance and neuropsychiatric disorders, the genetic and environmental factors associated with age-related cognitive decline, and speculate about the future role of genomics in the understanding of cognitive processes. 176 0 obj endobj We apply MTAG to summary statistics for depressive symptoms (N eff = 354,862), neuroticis … Wen Y, Zhang F, Ma X, Fan Q, Wang W, Xu J, Zhu F, Hao J, He A, Liu L, Liang X, Du Y, Li P, Wu C, Wang S, Wang X, Ning Y, Guo X. Schizophr Bull. endobj In the Chinese replication group, 2 significant genetic correlation signals were noted, including ulna and radius BMD and whole-body BMD vs schizophrenia (P =.0042 and P =.0027, respectively). 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Analysis workflow is also based on linear combinations of summary statistics but the are!: genetic correlation analysis Detected Brain Region Differences in genetic correlations, the data available, and several other features. Phenotypic correlation was 0.43 in genetic correlations lated both at the genetic correlation phenotypes. Related genetic correlation coefficient was reported to be enhanced and overall genetic architecture retained Biobank genetic contributions to Making... 0.0068, indicating that between 0 and 1 of these loci was a false positive McLaughlin RL, D. White patients replication … PDF | background: Body traits are generally controlled by several genes vertebrates...

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