eagle-i University of PennsylvaniaUniversity of Pennsylvania
See it in Search

Early Growth Genetics Consortium

Summary:

The EGG (Early Growth Genetics) Consortium represents a collaborative effort to combine data from multiple genome-wide association studies (GWAS) in order to identify additional human genome loci that have an impact on a variety of traits related to early growth.

The consortium has initially studied child birth weight (Freathy et al. Nature Genetics 2010, Horikoshi et al. Nature Genetics 2013), as well as performing meta-analyses of more detailed measures of birth head circumference (Taal et al. Nature Genetics 2012, Ikram et al. Nature Genetics 2012), birth length (van der Valk et al. Human Molecular Genetics 2014), childhood obesity (Bradfield et al. Nature Genetics 2012), pubertal growth (Cousminer et al. Hum Molec Genet. 2013), Tanner stage (Cousminer et al. Hum Molec Genet. 2014) and childhood BMI (Felix et al. Hum Molec Genet. 2015). Through these efforts, many loci influencing these traits have been identified, a subset of which also influence adult traits and diseases.

Resources:

Databases

  • EGG GWAS: Birth length summary statistics ( Database )

    "We are releasing the summary data from our discovery genome-wide meta-analysis of birth length, in order to enable other researchers to examine particular variants or loci of their interest for association with this trait. The file includes the beta, standard error, P-value and total sample size at over 2 million directly genotyped or imputed single nucleotide polymorphisms (SNPs) from the HapMap project (NCBI build 36). Trait values for birth length were transformed to sex and gestational age adjusted SD scores and assessed for association with each SNP using linear regression of the standardized birth length score against genotype using an additive genetic model.

    Dataset Details
    The birth length dataset was generated by performing a meta-analysis of 22 population-based studies (total N = 28,459 individuals)."

  • EGG GWAS: Birth weight summary statistics ( Database )

    "We are releasing the summary data from our genome-wide meta-analyses of birth weight, in order to enable other researchers to examine particular variants or loci of their interest for association with this trait. The file includes P-values and direction of effect at over 2 million directly genotyped or imputed single nucleotide polymorphisms (SNPs) from the HapMap project (release 27). To minimise the possibility of identification of individuals from these summary results, we are not releasing allele frequency data from our samples. Trait values for birth weight (BW) were transformed to a Z-score and assessed for association with each SNP using linear regression of the birth weight Z-score against genotype using an additive genetic model, with sex and, where available, gestational age as covariables.

    Dataset Details
    The birth weight dataset was generated by performing a meta-analysis of up to 18 population-based European studies (total n = 26,836 individuals)."

  • EGG GWAS: Childhood obesity summary data ( Database )

    "We are releasing the summary data from the genome-wide meta-analysis of childhood obesity (cases defined as BMI>95th percentile; controls defined as BMI<50th percentile) in subjects of European ancestry, in order to enable other researchers to examine particular variants or loci of their interest for association with this trait. The file includes P-values and direction of effect at over 2 million directly genotyped or imputed single nucleotide polymorphisms (SNPs) based on the HapMap Utah residents of Northern and Western European ancestry (CEU) SNPs (Phase 2, release 22). To minimize the possibility of identification of individuals from these summary results, we are not releasing allele frequency data from our samples. We assessed for association with each SNP in the case-control setting using an additive genetic model.

    Dataset Details
    The childhood obesity dataset was generated by performing a meta-analysis of up to 14 studies consisting of 5,530 cases (≥95th percentile of body mass index (BMI)) and 8,318 controls (<50th percentile of BMI). The data made available is where the genomic control was applied to the overall meta-analysis results and the results filtered to where there was data available for at least 8 participating cohorts for any given SNP."

  • EGG GWAS: Head circumference summary data ( Database )

    "We are releasing the summary data from our genome-wide meta-analyses of infant head circumference, in order to enable other researchers to examine particular variants or loci of their interest for association with this trait. The file includes the beta, standard error, P-values, effect allele frequencies and total sample size at over 2 million directly genotyped or imputed single nucleotide polymorphisms (SNPs) from the HapMap project (release 27). Trait values for infant head circumference (HC) were transformed to sex and age adjusted SD scores and assessed for association with each SNP using linear regression of the head circumference Z-score against genotype using an additive genetic model.

    Dataset Details
    The head circumference dataset was generated by performing a meta-analysis of 7 population-based European studies (total n = 10,678 individuals)."

  • EGG GWAS: Pubertal growth summary data ( Database )

    "Here we present the summary data from the genome-wide meta-analysis of three measures of the pubertal growth spurt in subjects of European ancestry. These data include directly genotyped SNPs and SNPs imputed against the HapMap CEU data (release 22).

    Three measures of the pubertal growth spurt were run separately for males and females, and then with both sexes combined. Please see the publication for more details on how each phenotype was calculated. To ensure high quality data, only SNPs for which 90% of samples were successful are included in these files. The number of study subjects for each SNP may vary, and the maximum number may differ from that in the paper due to different filtering criteria. P-values are corrected for genomic inflation."

  • EGG GWAS: Tanner Stage summary data ( Database )

    "Here we present the summary data from the genome-wide meta-analysis of Tanner Stage, a measure of sexual maturation, in subjects of European ancestry. These data include directly genotyped SNPs and SNPs imputed against the HapMap CEU data (release 22).

    Tanner stage data on male genital development and female breast development were run separately and combined. Please see the publication for more details on each phenotype. To ensure high quality data, only SNPs for which 90% of samples were successful are included. P-values are corrected for genomic inflation."

Resource Collection


Web Links:

Last updated: 2016-07-12T19:57:56.455-04:00

Copyright © 2016 by the President and Fellows of Harvard College
The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016