simulated_HELIX_data: A simulated HELIX dataset for LUCID
In LUCIDus: LUCID with Multiple Omics Data
simulated_HELIX_data R Documentation
A simulated HELIX dataset for LUCID
Description
The Human Early-Life Exposome (HELIX) project is a multi-center
research project that aims to characterize early-life environmental exposures
and associate these with omics biomarkers and child health outcomes (Vrijheid,
2014. doi: 10.1289/ehp.1307204). This is a simulated subset of the HELIX data
released for the Exposome Data Challenge 2021 (held by ISGlobal), used to
illustrate the LUCID model on three omics layers.
The three omics layers share the same 420 subjects in the same row order, so
they can be passed together as the Z list of a parallel or serial fit,
or used one at a time for early integration.
Usage
simulated_HELIX_data
Format
A list of 4 elements, each with 420 observations:
- phenotype
A 420 by 6 data frame holding the exposure, the outcome
and the covariates: id; hs_hg_m_scaled, the scaled
maternal exposure to in-utero mercury, used as G;
ck18_scaled, a scaled continuous indicator of
metabolic-dysfunction-associated fatty liver disease (MAFLD), used as
Y; and the covariates hs_child_age_yrs_None,
e3_sex_None and h_fish_preg_Ter.
- methylome
A 420 by 10 matrix of methylomics features.
- transcriptome
A 420 by 10 matrix of transcriptomics features.
- miRNA
A 420 by 10 matrix of miRNA features.
LUCIDus documentation built on Sept. 3, 2026, 1:06 a.m.
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| simulated_HELIX_data | R Documentation |
A simulated HELIX dataset for LUCID
Description
The Human Early-Life Exposome (HELIX) project is a multi-center research project that aims to characterize early-life environmental exposures and associate these with omics biomarkers and child health outcomes (Vrijheid, 2014. doi: 10.1289/ehp.1307204). This is a simulated subset of the HELIX data released for the Exposome Data Challenge 2021 (held by ISGlobal), used to illustrate the LUCID model on three omics layers.
The three omics layers share the same 420 subjects in the same row order, so
they can be passed together as the Z list of a parallel or serial fit,
or used one at a time for early integration.
Usage
simulated_HELIX_data
Format
A list of 4 elements, each with 420 observations:
- phenotype
A 420 by 6 data frame holding the exposure, the outcome and the covariates:
id;hs_hg_m_scaled, the scaled maternal exposure to in-utero mercury, used asG;ck18_scaled, a scaled continuous indicator of metabolic-dysfunction-associated fatty liver disease (MAFLD), used asY; and the covariateshs_child_age_yrs_None,e3_sex_Noneandh_fish_preg_Ter.- methylome
A 420 by 10 matrix of methylomics features.
- transcriptome
A 420 by 10 matrix of transcriptomics features.
- miRNA
A 420 by 10 matrix of miRNA features.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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