Image enhancement for increased dot-counting efficiency in FISH

Journal of Microscopy

Volumn 228, Issue 2, 2007, Pages 211-226

  Shah, Shishir ^a  

^a Department of Computer Science ^*  (United States)

Author keywords

Camera characterization; Fluorescence dot counting; Fluorescence in situ hybridization; High dynamic range imaging; Image enhancement

Indexed keywords

CAMERAS; CYTOLOGY; EFFICIENCY; ERRORS; FLUORESCENCE IMAGING; FLUORESCENCE MICROSCOPY; IMAGE ANALYSIS; MOLECULAR BIOLOGY; QUALITY CONTROL; SIGNAL DETECTION;

CAMERA CHARACTERIZATION; COLOR CHANNELS; DOT COUNTING; FLUORESCENCE DOT COUNTING; FLUORESCENCE IN SITU HYBRIDIZATION; FLUORESCENCE IN-SITU HYBRIDIZATION IMAGES; HIGH DYNAMIC RANGE IMAGES; HIGH-DYNAMIC RANGE IMAGING; INTENSITY VALUES; REMAPPING;

IMAGE ENHANCEMENT;

ARTICLE; CAMERA; CHROMOSOME ABERRATION; CHROMOSOME ANALYSIS; FLUORESCENCE IN SITU HYBRIDIZATION; IMAGE ANALYSIS; MATHEMATICAL ANALYSIS; MEDICAL RESEARCH; PRIORITY JOURNAL;

EID: 35549000245     PISSN: 00222720     EISSN: 13652818     Source Type: Journal    
DOI: 10.1111/j.1365-2818.2007.01842.x     Document Type: Article

References (63)

1. Alleysson, D. & Süsstrunk, S. (2002) On adaptive non-linearity for color discrimination and chromatic adaptation. IS&T First European Conference on Color in Graphics, Image, and Vision. Poitiers, France.
2. Arkesteijn, G.J., Erpelinck, S.L., Martens, A.C., Hagemeijer, A. & Hagenbeek, A. (1996) The use of FISH with chromosome-specific repetitive DNA probes for the follow-up of leukemia patients. Correlations and discrepancies with bone marrow cytology. Cancer Genet. Cytogenet. 88, 69 75.
3. Barch, M.J., Lawce, H.J. & Arsham, M.S. (1991) Peripheral blood culture. The ACT Cytogenetics Laboratory Manual, 2nd edn. (ed. by M.J. Barch pp. 17 30. Raven Press, New York.
4. Borck, G., Rio, M., Sanlaville, D., et al 2004) Genome-wide screening using automated fluorescent genotyping to detect cryptic cytogenetic abnormalities in children with idiopathic syndromic mental retardation. Clin. Genet. 66, 122 127.
5. Brainard, D. & Wandell, B. (1986) Analysis of the Retinex theory of color vision. J. Opt. Soc. Am. A 3, 1651 1661.
6. Canny, J. (1986) A computational approach to edge detection. IEEE Trans. Pattern Anal. Mach. Intell. 8, 679 698.
7. Carpenter, N.J. (2001) Molecular cytogenetics. Semin. Pediatr. Neurol. 8, 135 146.
8. Castleman, K.R. (1993) Color compensation for digitized FISH images. Bioimaging 1, 159 163.
9. Castleman, K.R. (1994) Digital image color compensation with unequal integration periods. Bioimaging 2, 160 162.
10. Debevec, P. & Malik, J. (1997) Recovering high dynamic range radiance maps from photographs. Proceedings of the 24th Annual Conference on Computer Graphics and Interactive Techniques. ACM Press /Addison-Wesley.
11. Devlin, K., Chalmers, A., Wilkie, A. & Purgathofer, W. (2002) Tone reproduction and physically based spectral rendering. Eurographics 2002: State of the Art Reports.
12. Ellis, C.M., Dyson, M.J., Stephenson, T.J. & Maltby, E.L. (2005) HER2 amplification status in breast cancer: a comparison between immunohistochemical staining and fluorescence in situ hybridisation using manual and automated quantitative image analysis scoring techniques. J. Clin. Pathol. 58, 710 714.
13. Evans, M.I., Sharp, M., Tepperberg, J., Kilpatrick, M.W., Tsipouras, P. & Tafas, T. (2006) Automated microscopy of amniotic fluid cells: detection of FISH signals using the FastFISH(R) imaging system. Fetal Diagn. Ther. 21, 523 527.
14. Funt, B., Ciurea, F. & McCann, J. (2004) Retinex in Matlab. J. Electron. Imaging 13, 48 57.
15. Horn, B.K.P. (1974) Determining lightness from an image. Comp. Graph. Image Process. 3, 277 299.
16. Hu, H., Miharu, N., Mizunoe, T., Nakaoka, Y., Okamoto, E. & Ohama, K. (1996) Detection of aneuploidy in human spermatozoa using fluorescence in situ hybridization (FISH). Jpn. J. Hum. Genet. 41, 381 389.
17. Hurlbert, A. (1986) Formal connections between lightness algorithms. J. Opt. Soc. Am. A 3, 1684 1692.
18. Jobson, D., Rahman, Z. & Woodell, G. (1997) A multiscale Retinex for bridging the gap between color images and the human observation of scenes. IEEE Trans. Image Process. 6, 965 976.
19. Kajtar, B., Mehes, G., Lorch, T., Deak, L., Kneifne, M., Alpar, D. & Pajor, L. (2006) Automated fluorescent in situ hybridization (FISH) analysis of t(9;22)(q34;q11) in interphase nuclei. Cytometry A 69, 506 514.
20. Kapur, J., Sahoo, P.K. & Wong, A.K. (1985) A new method for gray-level picture thresholding. Comp. Vision Graph. Image Process. 29, 273 285.
21. Kitayama, Y., Igarashi, H. & Sugimura, H. (1999) Amplification of FISH signals using intermittent microwave irradiation for analysis of chromosomal instability in gastric cancer. J. Clin. Pathol: Mol. Pathol. 52, 357 359.
22. Klinger, K.W. (1994) FISH: sensitivity and specificity on sorted and unsorted cells. Ann. N.Y. Acad. Sci. 731, 48 56.
23. Ko, E., Rademaker, A. & Martin, R. (2001) Microwave decondensation and codenaturation: a new methodology to maximize FISH data from donors with very low concentrations of sperm. Cytogenet. Cell Genet. 95, 143 145.
24. Kobayashi, K., Kitayama, Y., Igarashi, H., Yoshino, G., Kobayashi, T., Kazui, T. & Sugimura, H. (2000) Intratumor heterogeneity of centromere numerical abnormality in multiple primary gastric cancers: application of fluorescence in situ hybridization with intermittent microwave irradiation on paraffin-embedded tissue. Jpn. J. Cancer Res. 91, 1134 1141.
25. Land, E. (1964) The Retinex. Am. Sci. 52, 247 264.
26. Land, E.H. (1986) An alternative technique for the computation of the designator in the Retinex theory of color vision. Natl. Acad. Sci. USA 83, 3078 3080.
27. Landstrom, A.P. & Tefferi, A. (2006) Fluorescent in situ hybridization in the diagnosis, prognosis, and treatment monitoring of chronic myeloid leukemia. Leuk. Lymphoma 47, 397 402.
28. Lev, D., Daniely, M., Zudik, A., et al 2005) Automatic scanning of interphase FISH for prenatal diagnosis in uncultured amniocytes. Genet. Test 9, 41 47.
29. Leversha, M.A. (2001) Mapping of genomic clones by fluorescence in situ hybridization. Methods Mol. Biol. 175, 109 127.
30. Levsky, J.M. & Singer, R.H. (2003) Fluorescence in situ hybridization: past, present and future. J. Cell Sci. 15, 2833 2838.
31. CD34+ hematopoietic progenitor cells from maternal peripheral blood. Blood 89, 2347 2358.
32. Merchant, F.A. & Castleman, K.R. (2002) Strategies for automated fetal cell screening. Reprod. Update 8, 509 521.
33. Merchant, F.A. & Castleman, K.R. (2005) Computer-assisted microscopy. Handbook of Image and Video Processing, 2nd edn ed. by A.C. Bovik), pp. 1311 1340. Elsevier Academic Press, San Diego, CA.
34. Mesker, W.E., Burg, J.M.V., Oud, P.S., Knepfle, C.F., Velzen, M.C.O.-V., Schipper, N.W. & Tanke, H.J. (1994) Detection of immunocytochemically stained rare events using image analysis. Cytometry 17, 209 215.
35. Meyer, F. (1979) Iterative image transformation for an automatic screening of cervical cancer. J. Histochem. Cytochem. 27, 128 135.
36. Meylan, L. & Süsstrunk, A. (2006) High dynamic range image rendering with a Retinex-based adaptive filter. IEEE Trans. Image Process. 15, 2820 2830.
37. Meylan, L. & Süsstrunk, S. (2004) Bio-inspired image enhancement for natural color images. IS&T/SPIE Electronic Imaging 2004: The Human Vision and Electronic Imaging IX. San Jose, CA.
38. Netten, H., Young, I.T., Vliet, L.J.V., Tanke, H.J., Vroljik, H. & Sloos, W.C. (1997) FISH and chips: automation of fluorescent dot counting in interphase cell nuclei. Cytometry 28, 1 10.
39. Oosterwijk, J.C., Knepfle, C.F., Mesker, W.E., et al 1998) Strategies for rare-event detection: an approach for automated fetal cell detection in maternal blood. Am. J. Hum. Genet. 63, 1783 1792.
40. Opstal, D.V., Hemel, J.O.V., Eussen, B.H., et al 1995) A chromosome 21-specific cosmid cocktail for the detection of chromosome 21 aberrations in interphase nuclei. Prenat. Diagn. 15, 705 711.
41. Pattanaik, S.N., Ferwerda, J.A., Fairchild, M.D. & Greenberg, D.P. (1998) A multiscale model of adaptation and spatial vision for realistic image display. SIGGRAPH 98 Annual Conference on Computer Graphics.
42. Pehlivan, T., Rubio, C., Rodrigo, L., Remohi, J., Pellicer, A. & Simon, C. (2003) Preimplantation genetic diagnosis by fluorescence in situ hybridization: clinical possibilities and pitfalls. J. Soc. Gynecol. Invest. 10, 315 322.
43. Philip, J., Bryndorf, T. & Christensen, B. (1994) Prenatal aneuploidy detection in interphase cells by fluorescence in situ hybridization (FISH). Prenat. Diagn. 14, 1203 1215.
44. Pinkel, D., Straume, T. & Gray, J. (1986) Cytogenetic analysis using quantitative high sensitivity fluorescence hybridization. Proc. Natl. Acad. Sci. USA 83, 2934 2938.
45. Poynton, C. (2003) Digital Video and HDTV, Algorithms and Interfaces, Morgan Kaufmann, San Francisco, CA.
46. Pratt, W.K. (1991) Digital Image Processing, Wiley, New York.
47. Price, J.O., Elias, S., Wachtel, S.S., et al 1991) Prenatal diagnosis with fetal cells isolated from maternal blood by multiparameter flow cytometry. Am. J. Obstet. Gynecol. 165, 1731 1737.
48. Raap, A.K., Corput, M.P.C. v. d., Vervenne, R.A.W., Gijlwijk, R.P.M.V., Tanke, H.J. & Wiegant, J. (1995) Ultra-sensitive FISH using peroxidase-mediated deposition of biotin- or fluorochrome tyramides. Hum. Mol. Genet. 4, 529 534.
49. Rahman, Z., Jobson, D.D. & Woodell, G.A. (2004) Retinex processing for automatic image enhancement. J. Electron. Imaging 13, 100 110.
50. Ridler, T.W. & Calvard, S. (1978) Picture thresholding using an iterative selection method. IEEE Trans. Syst. Man. Cyber. 8, 630 632.
51. Rijke, F.M. v. d., Vrolijk, H., Sloos, W., Tanke, H.J. & Raap, A.K. (1996) Sample preparation and in situ hybridization techniques for automated molecular cytogenetic analysis of white blood cells. Cytometry 24, 151 157.
52. Rizzi, A., Gatta, C. & Marini, D. (2004) From Retinex to automatic color equalization issues in developing a new algorithm for unsupervised color equalization. J. Electron. Imaging 13, 15 28.
53. Roylance, R. (2002) Methods of molecular analysis: assessing losses and gains in tumours. Mol. Pathol. 55, 25 28.
54. Ruangvutilert, P., Delhanty, J.D., Rodeck, C.H. & Harper, J.C. (2000) Relative efficiency of FISH on metaphase and interphase nuclei from non-mosaic trisomic or triploid fibroblast cultures. Prenat. Diagn. 20, 159 162.
55. Rubio, C., Rodrigo, L., Perez-Cano, I., et al 2005) FISH screening of aneuploidies in preimplantation embryos to improve IVF outcome. Reprod. Biomed. Online 11, 497 506.
56. Schlick, C. (1994) A fast alternative to Phong's specular model. Graphics Gems IV (ed. by P.S. Heckbert pp. 385 387. Academic Press Professional, Boston.
57. Spitzer, H. & Semo, S. (2002) Color constancy: a biological model and its application for still and video images. Pattern Recognit. 35, 1645 1659.
58. Swiger, R.R. & Tucker, J.D. (1996) Fluorescence in situ hybridization: a brief review. Environ. Mol. Mutagen. 27, 245 254.
59. Truong, K., Boenders, J., Maciorowski, Z., Vielh, P., Dutrillaux, B., Malfoy, B. & Bourgeois, C.A. (1997) Signal amplification of FISH for automated detection using image cytometry. Anal. Cell Pathol. 13, 137 146.
60. Vliet, L.J.V., Young, I.T. & Beckers, A.L.D. (1989) A non-linear Laplace operator as edge detector in noisy images. Comput. Vis. Graph. Image Process. 45, 167 195.
61. Whitaker, J.E., Haugland, R.P., Ryan, D., Hewitt, P.C., Haugland, R.P. & Prendergast, F.G. (1992) Fluorescent rhodol derivatives: versatile, photostable labels and tracers. Anal. Biochem. 207, 267 279.
62. Yan, J., Guilbault, E., Massé, J., Bronsard, M., DeGrandpré, P., Forest, J.-C. & Drouin, R. (2000) Optimization of the fluorescence in situ hybridization (FISH) technique for high detection efficiency of very small proportions of target interphase nuclei. Clin. Genet. 58, 309 318.
63. Young, I.T. & Roos, R. (1988) Acuity: image analysis for the personal computer. Pattern Recognition and Artificial Intelligence - Towards an Integration (eds. by E.S. Gelsema and L.N. Kanal pp. 5 16. Elsevier Science, Amsterdam.