Identifying same-cell contours in image stacks: A key step in making 3d reconstructions

Annals of Biomedical Engineering

Volumn 39, Issue 2, 2011, Pages 698-705

  Leung, Tony Kin Shun ^a   Veldhuis, Jim H ^a   Krens, S F Gabby ^b   Heisenberg, C P ^b   Brodland, G Wayne ^a  

^a UNIVERSITY OF WATERLOO   (Canada)

^b MAX PLANCK INSTITUTE OF MOLECULAR CELL BIOLOGY AND GENETICS   (Germany)

Author keywords

3D reconstructions; Cell reconstruction; Confocal imaging; Contour grouping; Time lapse imaging

Indexed keywords

3D RECONSTRUCTION; CELL CONTOURS; CELL INFORMATION; CLOSE PACKED; CONFOCAL IMAGE; CONFOCAL IMAGING; CONTOUR GROUPING; IMAGE DATA; IMAGE SETS; IMAGE STACKS; INTENSITY DIFFERENCE; ISOTROPIC MODELS; KEY PROBLEMS; MULTIPLE REGIONS; SYNTHETIC DATA; TIME-LAPSE IMAGING;

ALGORITHMS; CELLS; CYTOLOGY; MEDICAL IMAGING; REPAIR;

THREE DIMENSIONAL;

ALGORITHM; ARTICLE; AUTOMATED PATTERN RECOGNITION; CELL TRACKING; COMPUTER ASSISTED DIAGNOSIS; CONFOCAL MICROSCOPY; IMAGE ENHANCEMENT; IMAGE SUBTRACTION; METHODOLOGY; MICROSCOPY; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; SIGNAL PROCESSING; THREE DIMENSIONAL IMAGING;

ALGORITHMS; CELL TRACKING; IMAGE ENHANCEMENT; IMAGE INTERPRETATION, COMPUTER-ASSISTED; IMAGING, THREE-DIMENSIONAL; MICROSCOPY, CONFOCAL; MICROSCOPY, VIDEO; PATTERN RECOGNITION, AUTOMATED; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; SIGNAL PROCESSING, COMPUTER-ASSISTED; SUBTRACTION TECHNIQUE;

EID: 79951556574     PISSN: 00906964     EISSN: 15739686     Source Type: Journal    
DOI: 10.1007/s10439-010-0198-9     Document Type: Article

References (13)

1. GW Brodland HH Chen 2000 The mechanics of cell sorting and envelopment J. BioMech. 33 845 851 10.1016/S0021-9290(00)00011-7 (Pubitemid 30265578)
2. GW Brodland J Yang J Sweny 2009 Cellular interfacial and surface tensions determined from aggregate compression tests using a finite element model HFSP J. 3 273 281 10.2976/1.3175812 20057960
3. HH Chen GW Brodland 2000 Cell-level finite element studies of viscous cells in planar aggregates J. BioMech. Eng. 122 394 401 1:STN:280: DC%2BD3cvoslagtQ%3D%3D 10.1115/1.1286563 11036563
4. TF Holekamp D Turaga TE Holy 2008 Fast three-dimensional fluorescence imaging of activity in neural populations by objective-coupled planar illumination microscopy Neuron 57 661 672 1:CAS:528:DC%2BD1cXjslegt7o%3D 10.1016/j.neuron.2008.01.011 18341987 (Pubitemid 351337670)
5. J Huisken DY Stainier 2009 Selective plane illumination microscopy techniques in developmental biology Development 136 1963 1975 1:CAS:528:DC%2BD1MXovVKktr0%3D 10.1242/dev.022426 19465594
6. MS Hutson J Veldhuis X Ma HE Lynch PG Cranston GW Brodland 2009 Combining laser microsurgery and finite element modeling to assess cell-level epithelial mechanics Biophys. J. 97 3075 3085 1:CAS:528:DC%2BC3cXksFaisg%3D%3D 10.1016/j.bpj.2009.09.034 20006944
7. AK Jain MN Murty PJ Flynn 1999 Data clustering: a review ACM Comput. Surv. 31 264 323 10.1145/331499.331504
8. J Levman T Leung P Causer D Plewes AL Martel 2008 Classification of dynamic contrast-enhanced magnetic resonance breast lesions by support vector machines IEEE Trans. Med. Imaging 27 688 696 1:STN:280:DC%2BD1c3ovVGlsg%3D%3D 10.1109/TMI.2008.916959 18450541 (Pubitemid 351634376)
9. J Li ID Greener S Inada VP Nikolski M Yamamoto JC Hancox H Zhang R Billeter IR Efimov H Dobrzynski MR Boyett 2008 Computer three-dimensional reconstruction of the atrioventricular node Circ. Res. 102 975 985 1:CAS:528:DC%2BD1cXkvVenurc%3D 10.1161/CIRCRESAHA.108.172403 18309098 (Pubitemid 351591556)
10. GW Milligan MC Cooper 1987 Methodology review: clustering methods Appl. Psychol. Meas. 11 329 354 10.1177/014662168701100401
11. TJ Riehle WT Mahle WJ Parks D Sallee III DA Fyfe 2008 Real-time three-dimensional echocardiographic acquisition and quantification of left ventricular indices in children and young adults with congenital heart disease: comparison with magnetic resonance imaging J. Am. Soc. Echocardiogr. 21 78 83 10.1016/j.echo.2007.05.021 17628400 (Pubitemid 350299832)
12. JH Veldhuis GW Brodland CJ Wiebe GJ Bootsma 2005 Multiview robotic microscope reveals the in-plane kinematics of amphibian neurulation Ann. Biomed. Eng. 33 821 828 10.1007/s10439-005-3309-2 16078621 (Pubitemid 40878488)
13. J Yang GW Brodland 2009 Estimating interfacial tension from the shape histories of cells in compressed aggregates: a computational study Ann. Biomed. Eng. 37 5 1019 1027 10.1007/s10439-009-9649-6 19214749