mesoBin: A list of binary 'DDDataSet' objects.

In ddgraph: Distinguish direct and indirect interactions with Graphical Modelling

Description

mesoBin is a list of objects of class DDDataSet. It has been generated with the following code:

mesoBin <- toDDDataSet(readFurlongData(), prettyNames=TRUE)

Usage

data(mesoBin)

Details

The dataset represents binary binding signal for 5 transcription factors (TFs) at 1-5 time points during embryonic mesoderm development in Drosophila Melanogaster (Zinzen et al, 2009). The original data has been binarized by taking any signal greater than the threshold authors used as positive binding event.

The list contains 7 objects of type DDDataSet for 7 cis-regulatory module (CRM) classes. These classes are: neg (negative class of CRMs), Meso (CRMs active in early mesoderm), Meso_SM (CRMs active in early mesoderm and somatic muscle), VM (visceral muscle), SM (somatic muscle), VM_SM (active in both somatic and visceral muscle) and CM (active in cardiac muscle).

References

Robert P. Zinzen et al., "Combinatorial binding predicts spatio-temporal cis-regulatory activity," Nature 462, no. 7269 (November 5, 2009): 65-70.

See Also

mesoCont.

Examples

data(mesoBin)
names(mesoBin)
class(mesoBin$VM)

ddgraph documentation built on Nov. 17, 2017, 10:50 a.m.