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Bioinformatics. 2016 Feb 15;32(4):587-9. doi: 10.1093/bioinformatics/btv612. Epub 2015 Oct 27.

LOLA: enrichment analysis for genomic region sets and regulatory elements in R and Bioconductor.

Author information

1
CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences.
2
CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Department of Laboratory Medicine, Medical University of Vienna, 1090 Vienna, Austria and Max Planck Institute for Informatics, 66123 Saarbrücken, Germany.

Abstract

Genomic datasets are often interpreted in the context of large-scale reference databases. One approach is to identify significantly overlapping gene sets, which works well for gene-centric data. However, many types of high-throughput data are based on genomic regions. Locus Overlap Analysis (LOLA) provides easy and automatable enrichment analysis for genomic region sets, thus facilitating the interpretation of functional genomics and epigenomics data.

AVAILABILITY AND IMPLEMENTATION:

R package available in Bioconductor and on the following website: http://lola.computational-epigenetics.org.

PMID:
26508757
PMCID:
PMC4743627
DOI:
10.1093/bioinformatics/btv612
[Indexed for MEDLINE]
Free PMC Article

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