Automated classification of protein crystallization images using support vector machines with scale-invariant texture and Gabor features

Acta Crystallographica. Section D, Biological Crystallography
Shen PanDeirdre Meldrum

Abstract

Protein crystallography laboratories are performing an increasing number of experiments to obtain crystals of good diffraction quality. Better automation has enabled researchers to prepare and run more experiments in a shorter time. However, the problem of identifying which experiments are successful remains difficult. In fact, most of this work is still performed manually by humans. Automating this task is therefore an important goal. As part of a project to develop a new and automated high-throughput capillary-based protein crystallography instrument, a new image-classification subsystem has been developed to greatly reduce the number of images that require human viewing. This system must have low rates of false negatives (missed crystals), possibly at the cost of raising the number of false positives. The image-classification system employs a support vector machine (SVM) learning algorithm to classify the blocks making up each image. A new algorithm to find the area within the image that contains the drop is employed. The SVM uses numerical features, based on texture and the Gabor wavelet decomposition, that are calculated for each block. If a block within an image is classified as containing a crystal, then the entire image...Continue Reading

Citations

Jan 15, 2010·Journal of Structural and Functional Genomics·Christian A Cumbaa, Igor Jurisica
Nov 20, 2008·Acta Crystallographica. Section D, Biological Crystallography·Roy LiuGlen Spraggon
Mar 24, 2012·Acta Crystallographica. Section F, Structural Biology and Crystallization Communications·Janet NewmanFrank von Delft
Oct 27, 2009·PLoS Computational Biology·Wesley C Van VoorhisLance J Stewart
Dec 8, 2015·Crystal Growth & Design·Madhav SigdelRamazan S Aygun
May 7, 2015·Acta Crystallographica. Section D, Biological Crystallography·Nader MorshedPaul D Adams
Feb 18, 2014·Crystal Growth & Design·Madhav SigdelRamazan S Aygun

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