The fast Fourier transform and its applications
The fast Fourier transform and its applications
LEDA: a platform for combinatorial and geometric computing
LEDA: a platform for combinatorial and geometric computing
Efficient Graph-Based Image Segmentation
International Journal of Computer Vision
Discovery of protein substructures in EM maps
WABI'05 Proceedings of the 5th International conference on Algorithms in Bioinformatics
Visualization of solution sets from automated docking of molecular structures
Proceedings of the 7th International Conference on Computer Graphics, Virtual Reality, Visualisation and Interaction in Africa
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Protein surface characterization using an invariant descriptor
Journal of Biomedical Imaging - Special issue on Mathematical Methods for Images and Surfaces 2011
Beta-sheet Detection and Representation from Medium Resolution Cryo-EM Density Maps
Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics
Intensity-Based Skeletonization of CryoEM Gray-Scale Images Using a True Segmentation-Free Algorithm
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
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Cryo-EM has become an increasingly powerful technique for elucidating the structure, dynamics, and function of large flexible macromolecule assemblies that cannot be determined at atomic resolution. However, due to the relatively low resolution of cryo-EM data, a major challenge is to identify components of complexes appearing in cryo-EM maps. Here, we describe EMatch, a novel integrated approach for recognizing structural homologues of protein domains present in a 6-10 Å resolution cryo-EM map and constructing a quasi-atomic structural model of their assembly. The method is highly efficient and has been successfully validated on various simulated data. The strength of the method is demonstrated by a domain assembly of an experimental cryo-EM map of native GroEL at 6 Å resolution.