DESCRIPTION:

List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Monocyte count. The EFO term monocyte count was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.

LABEL:

GWAS: monocyte count

SCORE TYPE:

P-Value

THRESHOLD:

<= 0.05

GENES IN THRESHOLD:

8

DATE ADDED:

2017-05-02

DATE UPDATED:

2024-10-22

SPECIES:

AUTHORS:

MF Keller, AP Reiner, Y Okada, FJ van Rooij, AD Johnson, MH Chen, AV Smith, AP Morris, T Tanaka, L Ferrucci, AB Zonderman, G Lettre, T Harris, M Garcia, S Bandinelli, R Qayyum, LR Yanek, DM Becker, LC Becker, C Kooperberg, B Keating, J Reis, H Tang, E Boerwinkle, Y Kamatani, K Matsuda, N Kamatani, Y Nakamura, M Kubo, S Liu, A Dehghan, JF Felix, A Hofman, AG Uitterlinden, CM van Duijn, OH Franco, DL Longo, AB Singleton, BM Psaty, MK Evans, LA Cupples, JI Rotter, CJ O'Donnell, A Takahashi, JG Wilson, SK Ganesh, MA Nalls

TITLE:

Trans-ethnic meta-analysis of white blood cell phenotypes.

JOURNAL:

Human molecular genetics Dec 2014, Vol 23, pp. 6944-60

ABSTRACT:

White blood cell (WBC) count is a common clinical measure used as a predictor of certain aspects of human health, including immunity and infection status. WBC count is also a complex trait that varies among individuals and ancestry groups. Differences in linkage disequilibrium structure and heterogeneity in allelic effects are expected to play a role in the associations observed between populations. Prior genome-wide association study (GWAS) meta-analyses have identified genomic loci associated with WBC and its subtypes, but much of the heritability of these phenotypes remains unexplained. Using GWAS summary statistics for over 50 000 individuals from three diverse populations (Japanese, African-American and European ancestry), a Bayesian model methodology was employed to account for heterogeneity between ancestry groups. This approach was used to perform a trans-ethnic meta-analysis of total WBC, neutrophil and monocyte counts. Ten previously known associations were replicated and six new loci were identified, including several regions harboring genes related to inflammation and immune cell function. Ninety-five percent credible interval regions were calculated to narrow the association signals and fine-map the putatively causal variants within loci. Finally, a conditional analysis was performed on the most significant SNPs identified by the trans-ethnic meta-analysis (MA), and nine secondary signals within loci previously associated with WBC or its subtypes were identified. This work illustrates the potential of trans-ethnic analysis and ascribes a critical role to multi-ethnic cohorts and consortia in exploring complex phenotypes with respect to variants that lie outside the European-biased GWAS pool. PUBMED: 25096241
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