메뉴 건너뛰기




Volumn 230, Issue 2, 2008, Pages 177-191

Constraint factor graph cut-based active contour method for automated cellular image segmentation in RNAi screening

Author keywords

Active contour; Automatic image segmentation; Constraint factor; Fluorescent microscopy; Genome wide screening; Graph cut; Morphological algorithm; RNAi

Indexed keywords

CYTOLOGY; GENES; GRAPHIC METHODS; IMAGE ANALYSIS; IMAGE ENHANCEMENT; IMAGE QUALITY; QUALITY CONTROL;

EID: 42649114797     PISSN: 00222720     EISSN: 13652818     Source Type: Journal    
DOI: 10.1111/j.1365-2818.2008.01974.x     Document Type: Conference Paper
Times cited : (31)

References (45)
  • 1
    • 85169177640 scopus 로고    scopus 로고
    • Ahuja, N., Magnanti, T. & Orlin, J. (1993) Network Flows: Theory, Algorithms and Applications. Prentice Hall, New Jersey.
  • 2
    • 85169171801 scopus 로고    scopus 로고
    • Bamford, P. & Lovell, B. (1998) Unsupervised cell nucleus segmentation with active contours - an efficient algorithm based on immersion simulations. Signal Process. 71, 203 213.
  • 3
    • 85169184762 scopus 로고    scopus 로고
    • Blake, A., Rother, C., Brown, M., Perez, P. & Torr, P. (2004) Interactive image segmentation using an adaptive GMMRF model. Eur. Conf. Comput. Vis. 3, 428 441.
  • 4
    • 85169175118 scopus 로고    scopus 로고
    • Boutros, M., Kiger, A.A., Armknecht, S., et al 2004) Genome-wide RNAi analysis of growth and viability in drosophila cells. Science 303, 832 835.
  • 5
    • 85169184221 scopus 로고    scopus 로고
    • Boykov, Y. & Funka-Lea, G. (2006) Graph cuts and efficient N-D image segmentation. Int. J. Comput. Vis. 70 (2 109 131.
  • 6
    • 85169179114 scopus 로고    scopus 로고
    • Boykov, Y. & Jolly, M. (2001) Interactive graph cuts for optimal boundary and region segmentation of objects in N-D images. Int. Conf. Comput. Vis. 1, 105 112.
  • 7
    • 85169176187 scopus 로고    scopus 로고
    • Boykov, Y. & Kolmogorov, V. (2003) Computing geodesic and minimal surfaces via graph cuts. Int. Conf. Comput. Vis. 1, 26 33.
  • 8
    • 85169187621 scopus 로고    scopus 로고
    • Boykov, Y. & Kolmogorov, V. (2004) An experimental comparison of min-cut/max-flow algorithms for energy minimization in vision. IEEE Trans. Pattern Anal. Mach. Intell. 26 (9 1124 1137.
  • 9
    • 85169184652 scopus 로고    scopus 로고
    • Boykov, Y., Kolmogorov, V., Cremeers, D. & Delong, A. (2006) An integral solution to surface evolution PDEs via geo-cuts. Eur. Conf. Comput. Vis. 3, 409 422.
  • 10
    • 85169173340 scopus 로고    scopus 로고
    • Carpenter, A., Jones, T., Lamprecht, M., et al 2006) CellProfiler: image analysis for high throughput microscopy. Available at URL : http://www. Cellprofiler.org.
  • 11
    • 85169174011 scopus 로고    scopus 로고
    • Caselles, V., Kimmel, R. & Sapiro, G. (1997) Geodesic active contours. Int. J. Comput. Vis. 22 (1 61 79.
  • 12
    • 85169178483 scopus 로고    scopus 로고
    • Chen, S., Cao, L., Liu, J. & Tang, X. (2006) Automatic segmentation of lung fields from radiographic images of SARS patients using a new graph cuts algorithm. Int. Conf. Pattern Recognit. 1, 271 274.
  • 13
    • 85169181655 scopus 로고    scopus 로고
    • Dufour, A., Shinin, V., Tajbakhsh, S., Guillén-Aghion, N., Olivo-Marlin, J.-C. & Zimmer, C. (2005) Segmentation and tracking fluorescent cells in dynamic 3-D microscopy with coupled active surfaces. IEEE Trans. Image Process. 14 (9 1396 1410.
  • 14
    • 85169188585 scopus 로고    scopus 로고
    • Ford, L. & Fulkerson, D. (1962) Flows in Networks. Princeton University Press, New Jersey.
  • 15
    • 85169178653 scopus 로고    scopus 로고
    • Freeman, W. & Adelson, E. (1991) The design and use of steerable Filters. IEEE Trans. Pattern Anal. Mach. Intell. 13 (9 891 906.
  • 16
    • 85169178220 scopus 로고    scopus 로고
    • Garbay, C., Chassery, J.M. & Brugal, G. (1986) An iterative region-growing process for cell image segmentation based on local color similarity and global shape criteria. Anal. Quant. Cytol. Histol. 8, 25 34.
  • 17
    • 85169171988 scopus 로고    scopus 로고
    • Garrido, A. & Pérez de la Blanca, N. (2000) Applying deformable templates for cell image segmentation. Pattern Recogn. 33 (5 821 832.
  • 18
    • 85169181331 scopus 로고    scopus 로고
    • Gonzalez, R.C. & Woods, R.E. (2002) Digital Image Processing. 2nd edn. Prentice Hall. New Jersey.
  • 19
    • 85169184363 scopus 로고    scopus 로고
    • Kiger, A., Baum, B., Jones, S., Jones, M., Coulson, A., Echeverri, C. & Perrimon, N. (2003) A functional genome analysis of cell morphology using RNA interference. J. Biol. 2, 27.
  • 20
    • 85169185933 scopus 로고    scopus 로고
    • Kass, M., Witkin, A. & Terzopoulos, D. (1987) Snakes: active contour models. Int. J. Comput. Vis. 1, 321 331.
  • 21
    • 85169187838 scopus 로고    scopus 로고
    • Kolmogorov, Y. & Boykov, Y. (2005) What metrics can be approximated by geo-cuts, or global optimization of length/area and flux. International Conference on Computer Vision. 1, 564 571.
  • 22
    • 85169184940 scopus 로고    scopus 로고
    • Kolmogorov, Y. & Zabih, R. (2004) What energy functions can be minimized via graph cuts. IEEE Trans. Pattern Anal. Mach. Intell. 26 (2 147 159.
  • 23
    • 85169184599 scopus 로고    scopus 로고
    • Kumar, M., Torr, P.H.S. & Zisserman, A. (2005) OBJ CUT. IEEE. Conference of Computer Vision and Pattern Recognition. 1, 18 25.
  • 24
    • 85169188648 scopus 로고    scopus 로고
    • Malpica, N., Ortiz de Solórzano, C., Vaquero, J.J., Santos, A., Vallcorba, I., García-Sagredo J.M. & del Pozo, F. (1997) Applying watershed algorithms to the segmentation of clustered nuclei. Cytometry 28, 289 297.
  • 25
    • 85169183882 scopus 로고    scopus 로고
    • Otsu, N. (1978) A threshold selection method from gray level histogram. IEEE Trans. Syst. Man Cybern. 8, 62 66.
  • 26
    • 85169185982 scopus 로고    scopus 로고
    • Osher, S. & Sethian, J.A. (1988) Fronts propagating with curvature-dependent speed: algorithms based on Hamilton-Jacobi formulations. J. Comp. Phy. 79, 12 49.
  • 27
    • 85169188198 scopus 로고    scopus 로고
    • Ortiz de Solórzano, C., Malladi, R., Lelievre, S.A. & Lockett, S.J. (2001) Segmentation of nuclei and cells using membrane related protein markers. J. Microsc. 201, 404 415.
  • 28
    • 85169174471 scopus 로고    scopus 로고
    • Ridler, T.W. & Calvard, S. (1978) Picture thresholding using an iterative selection method. IEEE Trans. Syst. Man. Cybern. 8, 62 66.
  • 29
    • 85169178590 scopus 로고    scopus 로고
    • Sethian, J. (1999) Level Set Methods and Fast Marching Methods. 2nd edn. Cambridge University Press, Cambridge.
  • 30
    • 85169177612 scopus 로고    scopus 로고
    • Shi, J. & Malik, J. (2000) Normalized cuts and image segmentation. IEEE Trans. Pattern Anal. Mach. Intell. 22 (8 888 905.
  • 31
    • 85169176792 scopus 로고    scopus 로고
    • Slabaugh, G. & Unal, G. (2005) Graph cuts segmentation using an elliptical shape prior. IEEE Int. Conf. Image Processing. 2, II-1222 II-1225.
  • 32
    • 85169186498 scopus 로고    scopus 로고
    • van Rijsbergen, C 1979) Information Retrieval. 2nd edn. Butterworth.
  • 33
    • 85169182199 scopus 로고    scopus 로고
    • Vese, L. A. & Chan, T.F. (2002) A multiphase level set framework for image segmentation using the Mumford and Shah model. Int. J. Comput. Vis. 50 (3 271 293.
  • 34
    • 85169174608 scopus 로고    scopus 로고
    • Vincent, L. & Soille, P. (1991) Watersheds in digital spaces: an efficient algorithm based on immersion simulations. IEEE Trans. Pattern Anal. Mach. Intell. 13, 583 598.
  • 35
    • 85169184751 scopus 로고    scopus 로고
    • Wang, S. & Siskind, J. (2001) Image segmentation with minimum mean cut. Int. Conf. Comput. Vis. 577 524.
  • 36
    • 85169178581 scopus 로고    scopus 로고
    • Wählby, C., Lindblad, J., Vondrus, M., Bengtsson, E. & Björkesten, L. (2002) Algorithms for cytoplasm segmentation of fluorescence labeled cells. Anal. Cell. Pathol. 24, 101 111.
  • 37
    • 85169180029 scopus 로고    scopus 로고
    • Wählby, C., Sintorn, I.-M., Erlandsson, F., Borgefors, G. & Bengtsson, E. (2004) Combining intensity, edge and shape information for 2D and 3D segmentation of cell nuclei in tissue sections. J. Microsc. 215, 67 76.
  • 38
    • 85169182681 scopus 로고    scopus 로고
    • Wu, Z. & Leahy, R. (1993) An optimal graph theoretic approach to data clustering: theory and its application to image segmentation. IEEE Trans. Pattern Anal. Mach. Intell. 15 (11 1101 1113.
  • 39
    • 85169178583 scopus 로고    scopus 로고
    • Xu, N., Bansal, R. & Ahuja, N. (2003) Object segmentation using graph cuts based active contours. IEEE Conf. Comput. Vis. Pattern Recognit. 2, 46 53.
  • 40
    • 85169179444 scopus 로고    scopus 로고
    • Xiong, G., Zhou, X. & Ji, L. (2006) Segmentation of drosophila RNAi fluorescence images using level sets IEEE Trans. Circuits Syst I: Fundam. Theory Appl. 53 (11 2415 2424.
  • 41
    • 85169177219 scopus 로고    scopus 로고
    • Yang, X., Li, H. & Zhou, X. (2006) Nuclei segmentation using marker-controlled watershed, tracking using mean-shift, and Kalman filter in time-lapse microscopy. IEEE Trans. Circuits Syst. I: Regul. Pap. 53 (11 2405 2414.
  • 42
    • 85169181492 scopus 로고    scopus 로고
    • Zhao, H.-K., Chan, T.F., Merriman, B. & Osher, S. (1996) A variational level set approach to multiphase motion. J. Comp. Phy. 127, 179 195.
  • 43
    • 85169173723 scopus 로고    scopus 로고
    • Zhou, X., Liu, K.-Y., Bradley, P., Perrimon, N. & Wong, S.T.C. (2005) Towards automated cellular image segmentation for RNAi genome-wide screening. Proc. Med. Image Comput. Comput. Assist. Interv. 885 892.
  • 44
    • 85169177223 scopus 로고    scopus 로고
    • Zhou, X. & Wong, S. (2006a) High content cellular imaging for drug development. IEEE Signal Process. Mag. 23 (2 170 174.
  • 45
    • 85169173548 scopus 로고    scopus 로고
    • Zhou, X. & Wong, S. (2006b) Informatics challenges of high-throughput microscopy. IEEE Signal Process. Mag. 23 (3 63 72.


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.