GeneProf is a web-based, graphical software suite that allows users to analyse data produced using high-throughput sequencing platforms (RNA-seq and ChIP-seq; "Next-Generation Sequencing" or NGS): Next-gen analysis for next-gen data!
Some of GeneProf's highlights include:
- Easy-to-use web-based interface:Access your data at any time from any reasonably modern computer with a working internet connection -- no need to install any software! (cp. Section 'System Requirements').
- Analysis wizards make your life easy:Pre-defined, step-by-step workflows make it possible for anybody to analyse their short read data in a minimum of hands-on time. (cp. SubConcept 'Analysis Wizards').
- Versatile modules:Advanced users and data analysis experts benefit from GeneProf's broad range of analysis modules, which can be combined freely a minimum of hands-on time (cp. Concept 'Workflows').
- Integrated Analysis:Analysis ofChIP-seq and RNA-seq data in one place, plus support for the integration of other external data (e.g. from microarrays).
- Comprehensive Resource:GeneProf provides a comprehensive resource of analyzed next-generation sequencing data. Experimental results can be easily accessed and compared and the analysis procedures employed to produce the data are fully transparent and can be accessed readily (cp. Tutorial 'Examining Public Next-Gen Data..').
- Extensibility:Algorithm developers and computer programmers can develop their own modules and extend the functionality of GeneProf. Existing software can be easily wrapped and integrated in the GeneProf framework (cp. Section 'Module Development: Adding new..') and data from GeneProf may be used externally (cp. Section 'Web API: Retrieving Data from ..').
GeneProf is academic software developed at the Centre for Regenerative Medicine / Institute for Stem Cell Research, University of Edinburgh and has benefited from funding by
the Medical Research Council and the EU Framework 7 Project "EuroSyStem".
If you use GeneProf for your work, please provide accession numbers for your data analysis experiment(s) and cite:
Halbritter F,
Vaidya HJ,
Tomlinson SR.
GeneProf: analysis of high-throughput sequencing experiments.
Nature Methods 9(1), 7-8 (
2011). PubMed ID:
22205509,
Full Article @ Nature Methods.
Further information about GeneProf, the authors and how to cite in the Introduction section. Also check out our screencasts section for a collection of videos about GeneProf!
Click here to find out more!