Data used for multi-enrichment analysis as described in Reese et al 2019 doi:10.1016/j.jaci.2018.11.043, Epigenome-wide meta-analysis of DNA methylation and childhood asthma. It is provided for convenient testing of multienrichjam.
Format
Memtest is a Mem multi-enrichment object including two
enrichment tests 'Newborns' and 'OlderChildren'
Reese_genes is a list with names 'Newborns' and 'OlderChildren',
each with a character vector of gene symbols, named by ENTREZID,
representing genes associated with each cohort.
For example, the names(Reese_genes$Newborns) may be useful for
pathway enrichment methods that expect Entrez gene ID as input.
Source
Reese et al 2019 doi:10.1016/j.jaci.2018.11.043, Epigenome-wide meta-analysis of DNA methylation and childhood asthma
Details
Memtest is a Mem object with enrichment results
for 'Newborns' and 'OlderChildren'.
A minor change was made to published data:
Gene symbols were updated to current Entrez gene symbols as of November 2025. This process changed 'INADL' to 'PATJ' in the enrichment results.
Two additional genes were updated in 'geneHitIM' for genes not present in the IPA pathway results.
The
Reese_genesdata were also updated for consistency, and to ensure that thenames(Reese_genes)using Entrez ID would be consistent with the gene symbols shown. Finally, the genes inReese_genesshould be usable for other pathway enrichment tests.
Examples
# Mem data for Reese 2019 cohorts
data(Memtest)
# enrichment names
names(Memtest)
#> [1] "Newborns" "OlderChildren"
# genes represented
genes(Memtest)
#> [1] "ADCY3" "CASP8" "CITED2" "DDIT4" "IGF1R" "IL4" "MS4A2"
#> [8] "NAPA" "NR0B2" "PATJ" "POLR2B" "PPP2CA" "PRKAR2B" "PRKCH"
#> [15] "PRKCZ" "RBL2" "RPS6KA2" "RPS23" "RPTOR" "SLC7A1" "SMARCD3"
#> [22] "YWHAQ"
# gene sets, pathways represented
sets(Memtest)
#> [1] "Huntington's Disease Signaling"
#> [2] "mTOR Signaling"
#> [3] "Role Of Nfat In Cardiac Hypertrophy"
#> [4] "RAR Activation"
#> [5] "Creb Signaling In Neurons"
#> [6] "Tight Junction Signaling"
#> [7] "Dopamine-Darpp32 Feedback In Camp Signaling"
#> [8] "Hepatic Cholestasis"
#> [9] "eNOS Signaling"
#> [10] "Production Of Nitric Oxide And Reactive Oxygen Species In Macrophages"
#> [11] "Synaptic Long Term Depression"
#> [12] "Fc Epsilon RI Signaling"
#> [13] "Glioma Signaling"
#> [14] "HIPPO Signaling"
#> [15] "Growth Hormone Signaling"
#> [16] "p70S6K Signaling"
# Reese 2019 genes by cohort
data(Reese_genes)
# Number of genes per cohort
lengths(Reese_genes)
#> Newborns OlderChildren
#> 41 162
# first 6 gene symbols for Newborns
head(Reese_genes$Newborns)
#> 6296 87 11174 80216 79572 552889
#> "ACSM3" "ACTN1" "ADAMTS6" "ALPK1" "ATP13A3" "ATXN7L3B"
# first 6 Entrez gene IDs for OlderChildren
head(names(Reese_genes$OlderChildren))
#> [1] "23457" "11332" "54" "109" "285" "56311"