weight.gsets.with.msprot

Given a gene functional association network and a list of multi-subunit proteins, the gene weights in a list of pathways are assigned with a procedure of correction for multi-subunit proteins.

A network-based gene weighting algorithm for pathway enrichment analysis, using either RNA-seq or microarray data. Zhaoyuan Fang, Weidong Tian and Hongbin Ji (2012) <doi:10.1038/cr.2011.149>.

Zhaoyuan Fang

GANPA

Gene Association Network-Based Pathway Analysis (GANPA)

weight.gsets.with.msprot function

<dl> <dt>gsets</dt>
<dd>A gene association network stored in a list.</dd> <dt>isets.multi</dt>
<dd>Pathways stored in the form of a list of gene sets.</dd> <dt>msp.groups</dt>
<dd>A list of multi-subunit proteins.</dd></dl>

Arguments

Zhaoyuan Fang, Weidong Tian and Hongbin Ji

Author

Weight genes in pathways with a gene association network after correction for multi-subunit proteins — weight.gsets.with.msprot

<dl>

 <dt>gsets</dt>
<dd>A gene association network stored in a list.</dd>

 <dt>isets.multi</dt>
<dd>Pathways stored in the form of a list of gene sets.</dd>

 <dt>msp.groups</dt>
<dd>A list of multi-subunit proteins.</dd>

</dl>

weight.gsets.with.msprot: Weight genes in pathways with a gene association network after correction for multi-subunit proteins

Description

Usage

Value

Arguments

Author

References

See Also