메뉴 건너뛰기




Volumn 6, Issue , 2016, Pages

Nuquantus: Machine learning software for the characterization and quantification of cell nuclei in complex immunofluorescent tissue images

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; CARDIAC MUSCLE CELL; CELL NUCLEUS; CELL PROLIFERATION; CELL SURVIVAL; CONFOCAL MICROSCOPY; CYTOLOGY; FLUORESCENT ANTIBODY TECHNIQUE; HUMAN; IMAGE PROCESSING; MACHINE LEARNING; METABOLISM; PROCEDURES; SOFTWARE;

EID: 84961613316     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep23431     Document Type: Article
Times cited : (13)

References (49)
  • 2
    • 84863208608 scopus 로고    scopus 로고
    • Biological imaging software tools
    • Eliceiri, K. W. et al. Biological imaging software tools. Nature methods 9, 697-710 (2012).
    • (2012) Nature Methods , vol.9 , pp. 697-710
    • Eliceiri, K.W.1
  • 4
    • 60549104030 scopus 로고    scopus 로고
    • Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning
    • Jones, T. R. et al. Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning. Proceedings of the National Academy of Sciences 106, 1826-1831 (2009).
    • (2009) Proceedings of the National Academy of Sciences , vol.106 , pp. 1826-1831
    • Jones, T.R.1
  • 5
    • 84923775038 scopus 로고    scopus 로고
    • Visualizing cellular imaging data using PhenoPlot
    • Sailem, H. Z., Sero, J. E. & Bakal, C. Visualizing cellular imaging data using PhenoPlot. Nature communications 6, 1-6 (2015).
    • (2015) Nature Communications , vol.6 , pp. 1-6
    • Sailem, H.Z.1    Sero, J.E.2    Bakal, C.3
  • 6
    • 85032750965 scopus 로고    scopus 로고
    • Cell segmentation: 50 years down the road [life sciences]
    • IEEE
    • Meijering, E. Cell segmentation: 50 years down the road [life sciences]. Signal Processing Magazine, IEEE 29, 140-145 (2012).
    • (2012) Signal Processing Magazine , vol.29 , pp. 140-145
    • Meijering, E.1
  • 7
    • 84907484453 scopus 로고    scopus 로고
    • Accurate cell segmentation in microscopy images using membrane patterns
    • Dimopoulos, S., Mayer, C. E., Rudolf, F. & Stelling, J. Accurate cell segmentation in microscopy images using membrane patterns. Bioinformatics 30, 2644-2651 (2014).
    • (2014) Bioinformatics , vol.30 , pp. 2644-2651
    • Dimopoulos, S.1    Mayer, C.E.2    Rudolf, F.3    Stelling, J.4
  • 12
    • 84900449424 scopus 로고    scopus 로고
    • Methods for nuclei detection segmentation and classification in digital histopathology: A review-current status and future potential
    • Irshad, H., Veillard, A., Roux, L. & Racoceanu, D. Methods for Nuclei Detection, Segmentation, and Classification in Digital Histopathology: A Review-Current Status and Future Potential. Biomedical Engineering, IEEE Reviews in 7, 97-114 (2014).
    • (2014) Biomedical Engineering IEEE Reviews in , vol.7 , pp. 97-114
    • Irshad, H.1    Veillard, A.2    Roux, L.3    Racoceanu, D.4
  • 13
    • 3042547731 scopus 로고    scopus 로고
    • Combining intensity, edge and shape information for 2D and 3D segmentation of cell nuclei in tissue sections
    • Wahlby, C., Sintorn, I. M., Erlandsson, F., Borgefors, G. & Bengtsson, E. Combining intensity, edge and shape information for 2D and 3D segmentation of cell nuclei in tissue sections. J Microsc 215, 67-76 (2004).
    • (2004) J Microsc , vol.215 , pp. 67-76
    • Wahlby, C.1    Sintorn, I.M.2    Erlandsson, F.3    Borgefors, G.4    Bengtsson, E.5
  • 14
    • 84863831692 scopus 로고    scopus 로고
    • Detection and segmentation of cell nuclei in virtual microscopy images: A minimum-model approach
    • Wienert, S. et al. Detection and segmentation of cell nuclei in virtual microscopy images: A minimum-model approach. Scientific reports 2, 1-7 (2012).
    • (2012) Scientific Reports , vol.2 , pp. 1-7
    • Wienert, S.1
  • 15
    • 84875660765 scopus 로고    scopus 로고
    • An entropy-based automated cell nuclei segmentation and quantification: Application in analysis of wound healing process
    • Oswal, V., Belle, A., Diegelmann, R. & Najarian, K. An entropy-based automated cell nuclei segmentation and quantification: Application in analysis of wound healing process. Computational and mathematical methods in medicine 2013, 1-10 (2013).
    • (2013) Computational and Mathematical Methods in Medicine , vol.2013 , pp. 1-10
    • Oswal, V.1    Belle, A.2    Diegelmann, R.3    Najarian, K.4
  • 17
    • 80855159582 scopus 로고    scopus 로고
    • Cellular interplay between cardiomyocytes and nonmyocytes in cardiac remodeling
    • Takeda, N. & Manabe, I. Cellular interplay between cardiomyocytes and nonmyocytes in cardiac remodeling. International journal of inflammation 2011, 1-13 (2011).
    • (2011) International Journal of Inflammation , vol.2011 , pp. 1-13
    • Takeda, N.1    Manabe, I.2
  • 18
    • 84899081318 scopus 로고    scopus 로고
    • Fibroblasts in myocardial infarction: A role in inflammation and repair
    • Shinde, A. V. & Frangogiannis, N. G. Fibroblasts in myocardial infarction: A role in inflammation and repair. J Mol Cell Cardiol 70, 74-82 (2014).
    • (2014) J Mol Cell Cardiol , vol.70 , pp. 74-82
    • Shinde, A.V.1    Frangogiannis, N.G.2
  • 19
    • 84961608248 scopus 로고    scopus 로고
    • Cardiomyocyte proliferation vs progenitor cells in myocardial regeneration: The debate continues
    • Malliaras, K. & Terrovitis, J. Cardiomyocyte proliferation vs progenitor cells in myocardial regeneration: The debate continues. Glob Cardiol Sci Pract 2013, 303-315 (2013).
    • (2013) Glob Cardiol Sci Pract , vol.2013 , pp. 303-315
    • Malliaras, K.1    Terrovitis, J.2
  • 20
    • 84882759023 scopus 로고    scopus 로고
    • Adult c-kit(pos) cardiac stem cells are necessary and sufficient for functional cardiac regeneration and repair
    • Ellison, G. M. et al. Adult c-kit(pos) cardiac stem cells are necessary and sufficient for functional cardiac regeneration and repair. Cell 154, 827-842 (2013).
    • (2013) Cell , vol.154 , pp. 827-842
    • Ellison, G.M.1
  • 21
    • 84905995337 scopus 로고    scopus 로고
    • Cardiomyocyte-specific deletion of Gsk3alpha mitigates post-myocardial infarction remodeling, contractile dysfunction, and heart failure
    • Ahmad, F. et al. Cardiomyocyte-specific deletion of Gsk3alpha mitigates post-myocardial infarction remodeling, contractile dysfunction, and heart failure. Journal of the American College of Cardiology 64, 696-706 (2014).
    • (2014) Journal of the American College of Cardiology , vol.64 , pp. 696-706
    • Ahmad, F.1
  • 22
    • 84920087867 scopus 로고    scopus 로고
    • Recombinant neuregulin 1 does not activate cardiomyocyte DNA synthesis in normal or infarcted adult mice
    • Reuter, S., Soonpaa, M. H., Firulli, A. B., Chang, A. N. & Field, L. J. Recombinant neuregulin 1 does not activate cardiomyocyte DNA synthesis in normal or infarcted adult mice. Plos One 9, 1-15 (e115871) (2014).
    • (2014) Plos One , vol.9 , Issue.1-15 , pp. e115871
    • Reuter, S.1    Soonpaa, M.H.2    Firulli, A.B.3    Chang, A.N.4    Field, L.J.5
  • 25
    • 0018466704 scopus 로고
    • Statistical and structural approaches to texture
    • Haralick, R. M. Statistical and structural approaches to texture. Proceedings of the IEEE 67, 786-804 (1979).
    • (1979) Proceedings of the IEEE , vol.67 , pp. 786-804
    • Haralick, R.M.1
  • 26
    • 84894904278 scopus 로고    scopus 로고
    • Rotation-invariant HOG descriptors using fourier analysis in polar and spherical coordinates
    • Liu, K. et al. Rotation-invariant HOG descriptors using fourier analysis in polar and spherical coordinates. International Journal of Computer Vision 106, 342-364 (2014).
    • (2014) International Journal of Computer Vision , vol.106 , pp. 342-364
    • Liu, K.1
  • 27
    • 3242713335 scopus 로고    scopus 로고
    • Design of steerable filters for feature detection using canny-like criteria
    • IEEE Transactions on
    • Jacob, M. & Unser, M. Design of steerable filters for feature detection using canny-like criteria. Pattern Analysis and Machine Intelligence, IEEE Transactions on 26, 1007-1019 (2004).
    • (2004) Pattern Analysis and Machine Intelligence , vol.26 , pp. 1007-1019
    • Jacob, M.1    Unser, M.2
  • 30
    • 3343019470 scopus 로고
    • Measuring nominal scale agreement among many raters
    • Fleiss, J. L. Measuring nominal scale agreement among many raters. Psychological bulletin 76, 378-420 (1971).
    • (1971) Psychological Bulletin , vol.76 , pp. 378-420
    • Fleiss, J.L.1
  • 31
    • 18844383961 scopus 로고    scopus 로고
    • P38 MAP kinase inhibition enables proliferation of adult mammalian cardiomyocytes
    • Engel, F. B. et al. p38 MAP kinase inhibition enables proliferation of adult mammalian cardiomyocytes. Genes & development 19, 1175-1187 (2005).
    • (2005) Genes & Development , vol.19 , pp. 1175-1187
    • Engel, F.B.1
  • 32
    • 84911417634 scopus 로고    scopus 로고
    • Cardiac regeneration based on mechanisms of cardiomyocyte proliferation and differentiation
    • Senyo, S. E., Lee, R. T. & Kuhn, B. Cardiac regeneration based on mechanisms of cardiomyocyte proliferation and differentiation. Stem cell research 13, 532-541 (2014).
    • (2014) Stem Cell Research , vol.13 , pp. 532-541
    • Senyo, S.E.1    Lee, R.T.2    Kuhn, B.3
  • 33
    • 47549090286 scopus 로고    scopus 로고
    • Detection of S-phase cell cycle progression using 5-ethynyl-2'-deoxyuridine incorporation with click chemistry, an alternative to using 5-bromo-2'-deoxyuridine antibodies
    • Buck, S. B. et al. Detection of S-phase cell cycle progression using 5-ethynyl-2'-deoxyuridine incorporation with click chemistry, an alternative to using 5-bromo-2'-deoxyuridine antibodies. BioTechniques 44, 927-929 (2008).
    • (2008) BioTechniques , vol.44 , pp. 927-929
    • Buck, S.B.1
  • 34
    • 76749130078 scopus 로고    scopus 로고
    • Evaluation of 5-ethynyl-2?-deoxyuridine staining as a sensitive and reliable method for studying cell proliferation in the adult nervous system
    • Zeng, C. et al. Evaluation of 5-ethynyl-2?-deoxyuridine staining as a sensitive and reliable method for studying cell proliferation in the adult nervous system. Brain research 1319, 21-32 (2010).
    • (2010) Brain Research , vol.1319 , pp. 21-32
    • Zeng, C.1
  • 36
    • 0034979621 scopus 로고    scopus 로고
    • Cardiomyocyte apoptosis and ventricular remodeling after myocardial infarction in rats
    • Palojoki, E. et al. Cardiomyocyte apoptosis and ventricular remodeling after myocardial infarction in rats. American Journal of Physiology-Heart and Circulatory Physiology 280, H2726-H2731 (2001).
    • (2001) American Journal of Physiology-Heart and Circulatory Physiology , vol.280 , pp. 2726-2731
    • Palojoki, E.1
  • 38
    • 84942363006 scopus 로고    scopus 로고
    • Automatic single cell segmentation on highly multiplexed tissue images
    • Schüffler, P. J. et al. Automatic single cell segmentation on highly multiplexed tissue images. Cytometry Part A 87, 936-942 (2015).
    • (2015) Cytometry Part A , vol.87 , pp. 936-942
    • Schüffler, P.J.1
  • 40
    • 84961608248 scopus 로고    scopus 로고
    • Cardiomyocyte proliferation vs progenitor cells in myocardial regeneration: The debate continues
    • Malliaras, K. & Terrovitis, J. Cardiomyocyte proliferation vs progenitor cells in myocardial regeneration: The debate continues. Global cardiology science & practice 2013, 303 (2013).
    • (2013) Global Cardiology Science & Practice , vol.2013 , pp. 303
    • Malliaras, K.1    Terrovitis, J.2
  • 41
    • 84885988436 scopus 로고    scopus 로고
    • Are resident c-Kit+ cardiac stem cells really all that are needed to mend a broken heart?
    • Molkentin, J. D. & Houser, S. R. Are resident c-Kit+ cardiac stem cells really all that are needed to mend a broken heart? Circulation research 113, 1037-1039 (2013).
    • (2013) Circulation Research , vol.113 , pp. 1037-1039
    • Molkentin, J.D.1    Houser, S.R.2
  • 42
    • 55349132417 scopus 로고    scopus 로고
    • Cardiomyocyte death and renewal in the normal and diseased heart
    • Buja, L. M. & Vela, D. Cardiomyocyte death and renewal in the normal and diseased heart. Cardiovascular Pathology 17, 349-374 (2008).
    • (2008) Cardiovascular Pathology , vol.17 , pp. 349-374
    • Buja, L.M.1    Vela, D.2
  • 44
    • 1542319162 scopus 로고    scopus 로고
    • Mouse cardiac surgery: Comprehensive techniques for the generation of mouse models of human diseases and their application for genomic studies
    • Tarnavski, O. et al. Mouse cardiac surgery: Comprehensive techniques for the generation of mouse models of human diseases and their application for genomic studies. Physiological genomics 16, 349-360 (2004).
    • (2004) Physiological Genomics , vol.16 , pp. 349-360
    • Tarnavski, O.1
  • 45
    • 84883445522 scopus 로고    scopus 로고
    • Bone-derived stem cells repair the heart after myocardial infarction through transdifferentiation and paracrine signaling mechanisms
    • Duran, J. M. et al. Bone-derived stem cells repair the heart after myocardial infarction through transdifferentiation and paracrine signaling mechanisms. Circulation research 113, 539-552 (2013).
    • (2013) Circulation Research , vol.113 , pp. 539-552
    • Duran, J.M.1
  • 46
    • 84867721158 scopus 로고    scopus 로고
    • A characterization and targeting of the infarct border zone in a swine model of myocardial infarction
    • Duran, J. M. et al. A characterization and targeting of the infarct border zone in a swine model of myocardial infarction. Clinical and translational science 5, 416-421 (2012).
    • (2012) Clinical and Translational Science , vol.5 , pp. 416-421
    • Duran, J.M.1
  • 47
    • 76249091081 scopus 로고    scopus 로고
    • Patch-based nonlocal functional for denoising fluorescence microscopy image sequences
    • IEEE Transactions on
    • Boulanger, J. et al. Patch-based nonlocal functional for denoising fluorescence microscopy image sequences. Medical Imaging, IEEE Transactions on 29, 442-454 (2010).
    • (2010) Medical Imaging , vol.29 , pp. 442-454
    • Boulanger, J.1
  • 48
    • 0024053187 scopus 로고
    • Efficient component labeling of images of arbitrary dimension represented by linear bintrees
    • IEEE Transactions on
    • Samet, H. & Tamminen, M. Efficient component labeling of images of arbitrary dimension represented by linear bintrees. Pattern Analysis and Machine Intelligence, IEEE Transactions on 10, 579-586 (1988).
    • (1988) Pattern Analysis and Machine Intelligence , vol.10 , pp. 579-586
    • Samet, H.1    Tamminen, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.