Document Detail


Localizing and extracting filament distributions from microscopy images.
MedLine Citation:
PMID:  23458491     Owner:  NLM     Status:  In-Data-Review    
Abstract/OtherAbstract:
Detailed quantitative measurements of biological filament networks represent a crucial step in understanding architecture and structure of cells and tissues, which in turn explain important biological events such as wound healing and cancer metastases. Confocal microscope images of biological specimens marked for different structural proteins constitute an important source for observing and measuring meaningful parameters of biological networks. Unfortunately, current efforts at quantitative estimation of architecture and orientation of biological filament networks from microscopy images are predominantly limited to visual estimation and indirect experimental inference. Here we describe a new method for localizing and extracting filament distributions from 2D confocal microscopy images. The method combines a filter-based detection of pixels likely to contain a filament with a constrained reverse diffusion-based approach for localizing the filaments centrelines. We show with qualitative and quantitative experiments, using both simulated and real data, that the new method can provide more accurate centreline estimates of filament in comparison to other approaches currently available. In addition, we show the algorithm is more robust with respect to variations in the initial filter-based filament detection step often used. We demonstrate the application of the method in extracting quantitative parameters from an experiment that seeks to quantify the effects of carbon nanotubes on actin cytoskeleton in live HeLa cells. We show that their presence can disrupt the overall actin cytoskeletal organization in such cells.
Authors:
S Basu; K N Dahl; G K Rohde
Publication Detail:
Type:  Journal Article    
Journal Detail:
Title:  Journal of microscopy     Volume:  250     ISSN:  1365-2818     ISO Abbreviation:  J Microsc     Publication Date:  2013 Apr 
Date Detail:
Created Date:  2013-03-05     Completed Date:  -     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  0204522     Medline TA:  J Microsc     Country:  England    
Other Details:
Languages:  eng     Pagination:  57-67     Citation Subset:  IM    
Copyright Information:
© 2013 The Authors Journal of Microscopy © 2013 Royal Microscopical Society.
Affiliation:
Center for Bioimage Informatics, Carnegie Mellon University, Pittsburgh, Pennsylvania, U.S.A. Department of Biomedical Engineering, Carnegie Mellon University, Pittsburgh, Pennsylvania, U.S.A. Department of Chemical Engineering, Carnegie Mellon University, Pittsburgh, Pennsylvania, U.S.A. Department of Electrical and Computer Engineering, Carnegie Mellon University, Pittsburgh, Pennsylvania, U.S.A.
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