COMBImage: a modular parallel processing framework for pairwise drug combination analysis that quantifies temporal changes in label-free video microscopy movies

BMC Bioinformatics
Efthymia ChantziMats G Gustafsson

Abstract

Large-scale pairwise drug combination analysis has lately gained momentum in drug discovery and development projects, mainly due to the employment of advanced experimental-computational pipelines. This is fortunate as drug combinations are often required for successful treatment of complex diseases. Furthermore, most new drugs cannot totally replace the current standard-of-care medication, but rather have to enter clinical use as add-on treatment. However, there is a clear deficiency of computational tools for label-free and temporal image-based drug combination analysis that go beyond the conventional but relatively uninformative end point measurements. COMBImage is a fast, modular and instrument independent computational framework for in vitro pairwise drug combination analysis that quantifies temporal changes in label-free video microscopy movies. Jointly with automated analyses of temporal changes in cell morphology and confluence, it performs and displays conventional cell viability and synergy end point analyses. The image processing algorithms are parallelized using Google's MapReduce programming model and optimized with respect to method-specific tuning parameters. COMBImage is shown to process time-lapse microscopy mov...Continue Reading

References

Oct 1, 1990·Antiviral Research·M N Prichard, C Shipman
Feb 15, 2003·IEEE Transactions on Medical Imaging·Christophe ZimmerJean-Christophe Olivo-Marin
Jun 12, 2003·Proceedings of the National Academy of Sciences of the United States of America·Alexis A BorisyCurtis T Keith
Aug 21, 2008·Nature Protocols·Elin LindhagenRolf Larsson
Mar 25, 2009·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Evanthia GalanisJan C Buckner
Apr 9, 2014·Journal of Biomolecular Screening·Shantanu SinghAuguste Genovesio
Apr 24, 2014·Molecular Cancer Therapeutics·Muhammad KashifMats G Gustafsson
Jun 7, 2014·Frontiers in Pharmacology·John C Dawson, Neil O Carragher
May 7, 2016·Bioinformatics·Giovanni Y Di VeroliDuncan I Jodrell
Jul 20, 2016·Cytometry. Part a : the Journal of the International Society for Analytical Cytology·Nicola Bougen-ZhukovLit-Hsin Loo
Apr 14, 2017·Annals of Oncology : Official Journal of the European Society for Medical Oncology·M A QaziS K Singh

❮ Previous
Next ❯

Methods Mentioned

BETA
Extraction
feature extraction
Assay

Software Mentioned

COMBIA
Hadoop
TLVM
MapReduce
COMBImage
package
Combenefit
MATLAB
COMBO
SynergyFinder

Related Concepts

Related Feeds

Astrocytes

Astrocytes are glial cells that support the blood-brain barrier, facilitate neurotransmission, provide nutrients to neurons, and help repair damaged nervous tissues. Here is the latest research.