CAGE genetic correlations

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Accession ID type

Illumina Probe (ILMN_1772189)

HGNC (ABCD1)

HT-12 Array Address (4890609)

Ensembl Transcript (ENST00000218104)

UCSC (uc004fif.2)

RefSeq mRNA (NM_000033.2)

Summary table of phenotypic and genetic correlations > 1SD (\(\hat{r}_G\) > 0.24)

Search by gene or probe ID. Use the \(r_P\) and \(\hat{r}_G\) sliders to filter the data.

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Negative \(\hat{r}_G\) threshold

Positive \(\hat{r}_G\) threshold

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Positive \(r_P\) threshold

Only show pairs in chromatin interaction data

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Genome-wide \(\hat{r}_G\) heatmap

A circle plot of \(\hat{r}_G\) data for the selected gene. Please select an \(\hat{r}_G\) threshold.

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Arc plot of a gene and its correlated pairs (intra-chromosomal)

Data is split into gene-gene interactions based on whether the \(\hat{r}_G\) is positive or negative.
Select an \(\hat{r}_G\) threshold to show all interactions between the chosen value and 1.0, or the value and -1.0.

The line colour reflects the \(\hat{r}_G\) value. Darker = closer to 1.0 or -1.0.

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Network plot of a gene and its correlated pairs

Data is split into gene-gene interactions based on whether the \(\hat{r}_G\) is positive or negative.
Select an \(\hat{r}_G\) threshold to show all interactions above 2\(\sigma\)

The line colour reflects the \(\hat{r}_G\) value. Blue is positive, red is negative

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Select \(\hat{r}_G\) threshold

About this browser and data

The data displayed through this website is a result of the Lukowski et al., 2017 paper , published in Nature Communications. If you would like to use any of the results displayed or downloaded from this page in a publication, please cite this work. This R Shiny app was developed by Sam Lukowski.

Data shown is > 1SD (\(\hat{r}_G\) > 0.24). For the complete dataset comprising 2,755,498 genetic correlations, please download this file: Complete CAGE rG data (115MB compressed).

The genetic correlation data presented here used the gene expression and SNP genotype data from the Consortium for the Architecture of Gene Expression (CAGE) . The main article describing the cohort and detailed processing methods is The Genetic Architecture of Gene Expression in Peripheral Blood, Lloyd-Jones et al (2017).