Histological image classification using biologically interpretable shape-based features

BMC Medical Imaging

Volumn 13, Issue 1, 2013, Pages

  Kothari, Sonal ^a   Phan, John H ^b   Young, Andrew N ^c,d   Wang, May D ^a,b  

^a GEORGIA INSTITUTE OF TECHNOLOGY   (United States)

^b Emory University   (United States)

^c EMORY UNIVERSITY   (United States)

^d GRADY HEALTH SYSTEM   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; ARTIFICIAL INTELLIGENCE; AUTOMATED PATTERN RECOGNITION; BIOPSY; COMPUTER ASSISTED DIAGNOSIS; HUMAN; IMAGE ENHANCEMENT; METHODOLOGY; NEOPLASM; PATHOLOGY; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY;

ALGORITHMS; ARTIFICIAL INTELLIGENCE; BIOPSY; HUMANS; IMAGE ENHANCEMENT; IMAGE INTERPRETATION, COMPUTER-ASSISTED; NEOPLASMS; PATTERN RECOGNITION, AUTOMATED; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY;

MLCS; MLOWN;

EID: 84874812053     PISSN: None     EISSN: 14712342     Source Type: Journal    
DOI: 10.1186/1471-2342-13-9     Document Type: Article

References (39)

1. Siegel R, Ward E, Brawley O, Jemal A. Cancer statistics, 2011. CA Cancer J Clin 2011, 61(4):212-236. 10.3322/caac.20121, 21685461.
2. Teloken PE, Thompson RH, Tickoo SK, Cronin A, Savage C, Reuter VE, Russo P. Prognostic Impact of Histological Subtype on Surgically Treated Localized Renal Cell Carcinoma. J Urol 2009, 182(5):2132-2136. 10.1016/j.juro.2009.07.019, 19758615.
3. Eble J, Sauter G, Epstein J, Sesterhenn I. Pathology and genetics of tumours of the urinary system and male genital organs 2004, Lyon: IARC press Lyon.
4. Demir C, Yener B. Automated cancer diagnosis based on histopathological images: a systematic survey 2005, Tech Rep: Rensselaer Polytechnic Institute.
5. Gurcan MN, Boucheron LE, Can A, Madabhushi A, Rajpoot NM, Yener B. Histopathological image analysis: A review. Biomed Eng, IEEE Rev 2009, 2:147-171.
6. Chaudry Q, Raza SH, Sharma Y, Young AN, Wang MD. Improving renal cell carcinoma classification by automatic region of interest selection. BioInformatics and BioEngineering, 2008 BIBE 2008 8th IEEE International Conference on: 2008 2008, 1-6. Athens, Greece: IEEE.
7. Chaudry Q, Raza SH, Young AN, Wang MD. Automated Renal Cell Carcinoma Subtype Classification Using Morphological, Textural and Wavelets Based Features. J Signal Process Syst 2009, 55(1):15-23.
8. Waheed S, Moffitt RA, Chaudry Q, Young AN, Wang MD. Computer Aided Histopathological Classification of Cancer Subtypes. Bioinformatics and Bioengineering, 2007 BIBE 2007 Proceedings of the 7th IEEE International Conference on: 2007 2007, 503-508. Boston, United States: IEEE.
9. Choi HJ, Choi HK. Grading of renal cell carcinoma by 3D morphological analysis of cell nuclei. Comput Biol Med 2007, 37(9):1334-1341. 10.1016/j.compbiomed.2006.12.008, 17331492.
10. François C, Moreno C, Teitelbaum J, Bigras G, Salmon I, Danguy A, Brugal G, van Velthoven R, Kiss R, Decaestecker C. Improving accuracy in the grading of renal cell carcinoma by combining the quantitative description of chromatin pattern with the quantitative determination of cell kinetic parameters. Cytometry B Clin Cytom 2000, 42(1):18-26.
11. Raza SH, Sharma Y, Chaudry Q, Young AN, Wang MD. Automated classification of renal cell carcinoma subtypes using scale invariant feature transform. Engineering in Medicine and Biology Society, 2009 EMBC 2009 Annual International Conference of the IEEE: 3-6 Sept. 2009 2009 2009, 6687-6690. Minneapolis, United States: IEEE.
12. Doyle S, Agner S, Madabhushi A, Feldman M, Tomaszewski J. Automated grading of breast cancer histopathology using spectral clustering with textural and architectural image features. Biomedical Imaging: From Nano to Macro, 2008 ISBI 2008 5th IEEE International Symposium on: 2008 2008, 496-499. Paris, France: IEEE.
13. Sertel O, Kong J, Catalyurek UV, Lozanski G, Saltz JH, Gurcan MN. Histopathological image analysis using model-based intermediate representations and color texture: Follicular lymphoma grading. J Signal ProcessSyst 2009, 55(1):169-183.
14. Kuhl F, Giardina C. Elliptic Fourier features of a closed contour. Comput Graph Image Process 1982, 18(3):236-258.
15. Lee D, Antani S, Long L. Similarity measurement using polygon curve representation and fourier descriptors for shape-based vertebral image retrieval. In: SPIE Medical Imaging 2003, 2003:1283-1291.
16. Rangayyan R, El-Faramawy N, Desautels J, Alim O. Measures of acutance and shape for classification of breast tumors. IEEE Trans Med Imaging 1997, 16(6):799-810. 10.1109/42.650876, 9533580.
17. Cukierski W, Nandy K, Gudla P, Meaburn K, Misteli T, Foran D, Lockett S. Ranked retrieval of segmented nuclei for objective assessment of cancer gene repositioning. BMC Bioinforma 2012, 13(1):232.
18. Yang L, Tuzel O, Chen W, Meer P, Salaru G, Goodell LA, Foran DJ. PathMiner: a Web-based tool for computer-assisted diagnostics in pathology. IEEE Trans Inf Technol Biomed 2009, 13:291-299.
19. Comaniciu D, Meer P. Cell Image Segmentation for Diagnostic Pathology. Advanced Algorithmic Approaches to Medical Image Segmentation 2002, 541-558. London: Springer, Suri JS, Setarehdan SK, Singh S.
20. Lao Z, Shen D, Xue Z, Karacali B, Resnick S, Davatzikos C. Morphological classification of brains via high-dimensional shape transformations and machine learning methods. Neuroimage 2004, 21(1):46-57. 10.1016/j.neuroimage.2003.09.027, 14741641.
21. Berg AC, Berg TL, Malik J. Shape matching and object recognition using low distortion correspondences. Computer Vision and Pattern Recognition, 2005 CVPR 2005 IEEE Computer Society Conference on: 2005 2005 2005, 26-33. San Diego, United States: IEEE, Volume 21..
22. McLendon R, Friedman A, Bigner D, Van Meir E, Brat D, Mastrogianakis G, Olson J, Mikkelsen T, Lehman N, Aldape K. Cancer Genome Atlas Research Network. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 2008, 455(7216):1061-1068. 10.1038/nature07385, 2671642, 18772890.
23. Kothari S, Phan JH, Moffitt RA, Stokes TH, Hassberger SE, Chaudry Q, Young AN, Wang MD. Automatic batch-invariant color segmentation of histological cancer images. Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on: March 30 2011-April 2 2011 2011 2011, 657-660. Chicago, United States: IEEE.
24. Persoon E, Fu K. Shape discrimination using Fourier descriptors. IEEE Trans Syst Man Cybern 1977, 7(3):170-179.
25. Wong W, Shih F, Liu J. Shape-based image retrieval using support vector machines, Fourier descriptors and self-organizing maps. Inform Sci 2007, 177(8):1878-1891.
26. McGill R, Tukey J, Larsen W. Variations of box plots. Am Stat 1978, 32(1):12-16.
27. Haralick R, Shanmugam K, Dinstein I. Textural features for image classification. IEEE Trans Syst Man Cybern 1973, 3(6):610-621.
28. Tae-Yun K, Hyun-Ju C, Soon-Joo C, Heung-Kook C. Study on texture analysis of renal cell carcinoma nuclei based on the Fuhrman grading system. Enterprise networking and Computing in Healthcare Industry, 2005 HEALTHCOM 2005 Proceedings of 7th International Workshop on: 2005 2005, 384-387.
29. Laine A, Fan J. Texture classification by wavelet packet signatures. IEEE Trans Pattern Anal Mach Intell 1993, 15(11):1186-1191.
30. Jafari-Khouzani K, Soltanian-Zadeh H. Multiwavelet grading of pathological images of prostate. IEEE Trans Biomed Eng 2003, 50(6):697-704. 10.1109/TBME.2003.812194, 12814236.
31. Sudbø J, Marcelpoil R, Reith A. New algorithms based on the Voronoi Diagram applied in a pilot study on normal mucosa and carcinomas. Anal Cell Pathol 2000, 21(2):71-86.
32. Kothari S, Phan JH, Young AN, Wang MD. Histological Image Feature Mining Reveals Emergent Diagnostic Properties for Renal Cancer. Bioinformatics and Biomedicine (BIBM), 2011 IEEE International Conference on: 2011 2011, 422-425. Atlanta, United States: IEEE.
33. Kothari S, Chaudry Q, Wang MD. Extraction of informative cell features by segmentation of densely clustered tissue images. Engineering in Medicine and Biology Society, 2009 Annual International Conference of the IEEE: 3-6 Sept. 2009 2009 2009, 6706-6709. Minneapolis, United States: IEEE.
34. Platt J, Cristianini N, Shawe-Taylor J. Large margin DAGs for multiclass classification. Adv Neural Inf Process Syst 2000, 12(3):547-553.
35. Boser B, Guyon I, Vapnik V. training algorithm for optimal margin classifiers 1992, 144-152. New York, NY, USA: ACM.
36. Chang CC, Lin CJ. LIBSVM: A library for support vector machines. ACM Trans Intell Syst Technol (TIST) 2011, 2(3):27.
37. Hastie T, Tibshirani R, Friedman JH. The elements of statistical learning: data mining, inference, and prediction 2009, Verlag: Springer.
38. Ding C, Peng H. Minimum redundancy feature selection from microarray gene expression data. J Bioinforma Comput Biol 2005, 3(2):185.
39. Sakai Y, Watanabe S, Matsukuma S. Chromophobe renal cell carcinoma showing oncocytoma-like hyalinized and edematous stroma: a case report and review of the literature. Urol Oncol 2004, 22(6):461-464. 10.1016/j.urolonc.2004.03.015, 15610861.