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	Recent Updates Current Papers Search All Papers Search Comments Research News Current Hypotheses Idea Lab Online Discussions Virtual Conferences Interviews What We Know SchizophreniaGene Animal Models Drugs in Trials Research Tools Grants Jobs Conferences Journals Community Calendar General Information Member Directory Researcher Profiles Institutes and Labs Mission History SRF Team Advisory Board Support Us How to Cite Fan (E)Mail The Schizophrenia Research Forum web site is sponsored by NARSAD, the Mental Health Research Association, and supported in part by a contract from the National Institute of Mental Health, National Institutes of Health, Department of Health and Human Services		SchizophreniaGene (SZGene) Top Results  Status: Updated 7 March 2010 Ranking based on HuGENet interim guidelines for the assessment of genetic association studies # Gene Ethnicity Polymorphism N minor (Grade) I2 (Grade) Bias Reason (Grade) Overall Grade 1 PGBD1 All rs13211507 5075 (A) 0 (A) (A) A 2 NRGN All rs12807809 12620 (A) 0 (A) (A) A 3 NOTCH4 All rs3131296 7829 (A) 19 (A) (A) A 4 PDE4B All rs910694 2393 (A) 2 (A) (A) A 5 TCF4 All rs9960767 4143 (A) 20 (A) (A) A 6 DAOA Asian rs778293 3609 (A) 18 (A) (A) A 7 TPH1 All rs1800532 6039 (A) 20 (A) (A) A 8 HTR2A Caucasian rs6311 4665 (A) 22 (A) (A) A 9 RELN Caucasian rs7341475 3170 (A) 0 (A) (A) A 10 MDGA1 All rs11759115 1347 (A) 15 (A) (A) A 11 CCKAR All rs1800857 1326 (A) 0 (A) (A) A 12 DRD4 Asian rs1800955 2881 (A) 0 (A) A 13 DRD1 All rs4532 1089 (A) 0 (A) (A) A 14 APOE Caucasian APOE_e2/3/4 1118 (A) 0 (A) (A) A 15 GWA_11p14.1 Caucasian rs1602565 3973 (A) 46 (B) (A) B 16 DISC1 Caucasian rs3737597 102 (B) 0 (A) (A) B 17 PLXNA2 Caucasian rs841865 506 (B) 24 (A) (A) B 18 GABRB2 Caucasian rs6556547 182 (B) 0 (A) (A) B 19 AKT1 Caucasian rs3803300 506 (B) 40 (B) (A) B 20 DRD2 All rs1801028 892 (B) 21 (A) (A) B 21 SRR Asian rs408067 1362 (A) 49 (B) (A) B 22 PRSS16 All rs6932590 13934 (A) n.a. (A) Regr (C) C 23 HIST1H2BJ All rs6913660 10335 (A) 0 (A) Low OR (C) C 24 GWA_16p13.12 All rs7192086 10078 (A) 16 (A) Low OR (C) C 25 ZNF804A All rs1344706 17494 (A) 46 (B) Low OR (C) C 26 AHI1 All rs2064430 17466 (A) 0 (A) Low OR (C) C 27 DTNBP1 Caucasian rs3213207 3459 (A) 0 (A) Low OR (C) C 28 MTHFR All rs1801133 6718 (A) 58 (C) (A) C 29 RPP21 All rs3130375 1392 (A) 63 (C) (A) C 30 C6orf217 All rs1475069 25144 (A) 19 (A) Low OR (C) C 31 RGS4 All rs2661319 18318 (A) 17 (A) Low OR (C) C 32 RPGRIP1L All rs9922369 1292 (A) 64 (C) (A) C 33 NRG1 All rs10503929 1835 (A) 0 (A) Low OR (C) C 34 GWA_10q26.13 All rs17101921 2119 (A) 67 (C) (A) C 35 GRIK3 All rs6691840 773 (B) 4 (A) F, HWE (C) C 36 HP Caucasian Hp_1/2 2602 (A) 0 (A) Low OR (C) C 37 COMT All rs737865 11219 (A) 4 (A) Low OR, F (C) C 38 OPCML Caucasian rs3016384 15673 (A) 62 (C) Low OR (C) C 39 GRIN2B All rs1019385 1269 (A) 58 (C) F, HWE (C) C 40 PPP3CC All rs2461491 10602 (A) 0 (A) Low OR (C) C 41 DAO All rs4623951 1871 (A) 0 (A) Low OR (C) C 42 IL1B All rs16944 2972 (A) 0 (A) Low OR (C) C 43 SLC18A1 All rs2270641 979 (B) 85 (C) Regr, F (C) C Each nominally significant meta-analysis in SZGene is graded based on HuGENet (Human Genome Epidemiology Network) interim criteria for the assessment of cumulative evidence of genetic associations (Ioannidis et al, 2008; Khoury et al, 2009). These criteria take into account amount of evidence (i.e. sample size, measured as "N minor"), consistency of replication (i.e. heterogeneity across studies, measured as "I2"), and protection from bias ("Bias reason"). 1. Amount of evidence: grade "A" is assigned when the total number of minor alleles of cases and controls combined in the meta-analyses exceeds 1,000, "B" when it is between 100 and 1,000, and "C" when it is less than 100. 2. Consistency of replication: grade "A" is assigned for I2 point estimates <25%, "B" for I2 values of 25–50%, and "C" for I2 values >50%. This criterion does not apply to meta-analyses with a P-value <1x10-7 after exclusion of the initial studie(s), as described in Khoury et al, 2009. 3. Protection from bias: the following potential reasons for bias in the meta-analysis results are systematically assessed: summary OR <1.15 ("Low OR"), loss of significance after exclusion of first study ("F"), loss of significance after exclusion of studies with deviations from Hardy-Weinberg equilibrium in control populations ("HWE"), or evidence for positive publication bias using a modified regression test ("Regr"). If none of the latter conditions are met grade "A" is assigned, otherwise grade "C". Overall epidemiological credibility is graded as "A" (=strong) if associations received three A grades, "B" (=moderate) if they received at least one B grade but no C grades, and "C" (=weak) if they received a C grade in any of the three assessment criteria. Loci with the same grade are ordered by P-value. For more details see "Top Results Methods" and reference below. Reference Ioannidis JP, Boffetta P, Little J, O'Brien TR, Uitterlinden AG, Vineis P, Balding DJ, Chokkalingam A, Dolan SM, Flanders WD, Higgins JP, McCarthy MI, McDermott DH, Page GP, Rebbeck TR, Seminara D, Khoury MJ (2008) "Assessment of cumulative evidence on genetic associations: interim guidelines." Int J Epidemiol 37(1):120-32. Abstract Khoury MJ, Bertram L, Boffetta P, Butterworth AS, Chanock SJ, Dolan SM, Fortier I, Garcia-Closas M, Gwinn M, Higgins JP, Janssens AC, Ostell J, Owen RP, Pagon RA, Rebbeck TR, Rothman N, Bernstein JL, Burton PR, Campbell H, Chockalingam A, Furberg H, Little J, O'Brien TR, Seminara D, Vineis P, Winn DM, Yu W, Ioannidis JP (2009) "Genome-wide association studies, field synopses, and the development of the knowledge base on genetic variation and human diseases." Am J Epidemiol 170(3):269-79. Abstract
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