GLANET specifications

Unique identifier:
OMICS_18535
Software type:
Package/Module
Restrictions to use:
None
Programming languages:
Java, Perl
Stability:
Stable
Name:
Genomic Loci AssociatioN and Enrichment Tool
Interface:
Command line interface, Graphical user interface
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Maintained:
Yes

versioning

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No versioning.

GLANET distribution

download

GLANET support

Documentation

Maintainers

  • Burçak Otlu <>
  • Oznur Tastan <>

forum

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Credits

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Publications

Institution(s)

Department of Computer Engineering, Middle East Technical University, Ankara, Turkey; Department of Computer Engineering, Bilkent University, Ankara, Turkey; Department of Statistics, Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison, WI, USA

Funding source(s)

Supported by TÜBITAK, 2211-C PhD Scholarship, Bilim Akademisi - The Science Academy, Turkey under the BAGEP program and L’Oreal-UNESCO under the UNESCO-L’OREAL National Fellowships Programme for Young Women in Life Sciences.

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Burcak Otlu

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GLANET is both a desktop and command line application.
GLANET provides annotation and enrichment analysis for varying length of genomic intervals with respect to a rich annotation library.
GLANET adjusts for genomic biases such as GC content and mappability in its sampling based enrichment analysis which reduces false positives.
GLANET allows user to extend its annotation library with user defimed gene sets and user defined genomic intervals.
GLANET enables Regulatory Sequence Analysis for overlapping SNPs and Transcription Factors pairs when the input consists of SNPs only.
GLANET analyses gene and gene sets not only in exon based but also in intron, proximal and distal region based.
Furthermore, GLANET provides joint Transcription Factor (TF) and KEGG Pathway analyses.

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