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Volumn 4, Issue 3, 2014, Pages 547-552

Gitter: A robust and accurate method for quantification of colony sizes from plate images

Author keywords

Array; Genetics; Image analysis; R; Synthetic genetic

Indexed keywords

ACCURACY; ARTICLE; ARTIFACT; DROSOPHILA MELANOGASTER; ESCHERICHIA COLI; GITTER; IMAGE ANALYSIS; IMAGE PROCESSING; NONHUMAN; ROTATION; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES POMBE;

EID: 84897000871     PISSN: None     EISSN: 21601836     Source Type: Journal    
DOI: 10.1534/g3.113.009431     Document Type: Article
Times cited : (88)

References (29)
  • 1
    • 0037461024 scopus 로고    scopus 로고
    • Automatic analysis of DNA microarray images using mathematical morphology
    • Angulo, J., and J. Serra, 2003 Automatic analysis of DNA microarray images using mathematical morphology. Bioinformatics 19: 553-562.
    • (2003) Bioinformatics , vol.19 , pp. 553-562
    • Angulo, J.1    Serra, J.2
  • 2
    • 33749621803 scopus 로고    scopus 로고
    • Microarray image addressing based on the radon transform, in IEEE International Conference on Image Processing, 2005. ICIP. IEEE International Conference on Image Processing. New York City, NY, USA.
    • Antoniol, G., Ceccarelli M., and A. Petrosino, 2005 Microarray image addressing based on the radon transform, in IEEE International Conference on Image Processing, 2005. ICIP 2005, volume 1. IEEE International Conference on Image Processing. New York City, NY, USA.
    • (2005) , vol.1
    • Antoniol, G.1    Ceccarelli, M.2    Petrosino, A.3
  • 3
    • 31544450286 scopus 로고    scopus 로고
    • Construction of Escherichia coli k-12 in-frame, single-gene knockout mutants: the Keio collection.
    • 2006.0008
    • Baba, T., Ara T., M. Hasegawa, Takai Y., Y. Okumura et al., 2006 Construction of Escherichia coli k-12 in-frame, single-gene knockout mutants: the Keio collection. Mol. Syst. Biol. 2: 2006.0008
    • (2006) Mol. Syst. Biol. , vol.2
    • Baba, T.1    Ara, T.2    Hasegawa, M.3    Takai, Y.4    Okumura, Y.5
  • 4
    • 80054756682 scopus 로고    scopus 로고
    • Array-based synthetic genetic screens to map bacterial pathways and functional networks in Escherichia coli
    • Babu, M., Gagarinova A., and A. Emili, 2011 Array-based synthetic genetic screens to map bacterial pathways and functional networks in Escherichia coli. Methods Mol. Biol. 781: 99-126.
    • (2011) Methods Mol. Biol. , vol.781 , pp. 99-126
    • Babu, M.1    Gagarinova, A.2    Emili, A.3
  • 6
    • 84871480672 scopus 로고    scopus 로고
    • Differential analysis of high-throughput quantitative genetic interaction data
    • Bean G.J., and T. Ideker, 2012 Differential analysis of high-throughput quantitative genetic interaction data. Genome Biol. 13: R123.
    • (2012) Genome Biol. , vol.13
    • Bean, G.J.1    Ideker, T.2
  • 7
    • 50249125915 scopus 로고    scopus 로고
    • Detection of linear structures in biological images, in Conference Record of the Forty-First Asilomar Conference on Signals, Systems and Computers, 2007. ACSSC 2007. Asilomar Conference on Signals, Systems & Computers. Asilomar Grounds, Pacific Grove, California, USA.
    • Berlemont, S., Aaron B., F. Cloppet, and J.-C. Olivo-Marin, 2007 Detection of linear structures in biological images, pp. 1279-1283 in Conference Record of the Forty-First Asilomar Conference on Signals, Systems and Computers, 2007. ACSSC 2007. Asilomar Conference on Signals, Systems & Computers. Asilomar Grounds, Pacific Grove, California, USA.
    • (2007) , pp. 1279-1283
    • Berlemont, S.1    Aaron, B.2    Cloppet, F.3    Olivo-Marin, J.-C.4
  • 9
    • 33845792555 scopus 로고    scopus 로고
    • Cellprofiler: image analysis software for identifying and quantifying cell phenotypes
    • Carpenter A.E., Jones T.R., Lamprecht M.R., Clarke C., Kang I.H. et al., 2006 Cellprofiler: image analysis software for identifying and quantifying cell phenotypes. Genome Biol. 7: R100.
    • (2006) Genome Biol. , vol.7
    • Carpenter, A.E.1    Jones, T.R.2    Lamprecht, M.R.3    Clarke, C.4    Kang, I.H.5
  • 10
    • 33747367151 scopus 로고    scopus 로고
    • A strategy for extracting and analyzing large-scale quantitative epistatic interaction data
    • Collins S.R., Schuldiner M., Krogan N.J., and J. S. Weissman, 2006 A strategy for extracting and analyzing large-scale quantitative epistatic interaction data. Genome Biol. 7: R63.
    • (2006) Genome Biol. , vol.7
    • Collins, S.R.1    Schuldiner, M.2    Krogan, N.J.3    Weissman, J.S.4
  • 14
    • 0037173615 scopus 로고    scopus 로고
    • Functional profiling of the Saccharomyces cerevisiae genome
    • Giaever, G., Chu A.M., Ni L., C. Connelly, L. Riles et al., 2002 Functional profiling of the Saccharomyces cerevisiae genome. Nature 418: 387-391.
    • (2002) Nature , vol.418 , pp. 387-391
    • Giaever, G.1    Chu, A.M.2    Ni, L.3    Connelly, C.4    Riles, L.5
  • 15
    • 82355191645 scopus 로고    scopus 로고
    • Automated protein-dna interaction screening of Drosophila regulatory elements
    • Hens, K., J.-D. Feuz, Isakova A., A. Iagovitina, A. Massouras et al., 2011 Automated protein-dna interaction screening of Drosophila regulatory elements. Nat. Methods 8: 1065-1070.
    • (2011) Nat. Methods , vol.8 , pp. 1065-1070
    • Hens, K.1    Feuz, J.-D.2    Isakova, A.3    Iagovitina, A.4    Massouras, A.5
  • 16
    • 42349100173 scopus 로고    scopus 로고
    • The chemical genomic portrait of yeast: uncovering a phenotype for all genes
    • Hillenmeyer M.E., Fung E., J. Wildenhain, Pierce S.E., S. Hoon et al., 2008 The chemical genomic portrait of yeast: uncovering a phenotype for all genes. Science 320: 362-365.
    • (2008) Science , vol.320 , pp. 362-365
    • Hillenmeyer, M.E.1    Fung, E.2    Wildenhain, J.3    Pierce, S.E.4    Hoon, S.5
  • 17
    • 0142184341 scopus 로고    scopus 로고
    • Global analysis of protein localization in budding yeast
    • Huh, W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W. et al., 2003 Global analysis of protein localization in budding yeast. Nature 425: 686-691.
    • (2003) Nature , vol.425 , pp. 686-691
    • Huh, W.-K.1    Falvo, J.V.2    Gerke, L.C.3    Carroll, A.S.4    Howson, R.W.5
  • 18
    • 77953255163 scopus 로고    scopus 로고
    • Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe
    • Kim, D.-U., Hayles J., D. Kim, Wood V., H.-O. Park et al., 2010 Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe. Nat. Biotechnol. 28: 617-623.
    • (2010) Nat. Biotechnol. , vol.28 , pp. 617-623
    • Kim, D.-U.1    Hayles, J.2    Kim, D.3    Wood, V.4    Park, H.-O.5
  • 19
    • 77952726404 scopus 로고    scopus 로고
    • Colonyzer: automated quantification of micro-organism growth characteristics on solid agar
    • Lawless, C., Wilkinson D.J., Young A., Addinall S.G., and D. A. Lydall, 2010 Colonyzer: automated quantification of micro-organism growth characteristics on solid agar. BMC Bioinformatics 11: 287.
    • (2010) BMC Bioinformatics , vol.11 , pp. 287
    • Lawless, C.1    Wilkinson, D.J.2    Young, A.3    Addinall, S.G.4    Lydall, D.A.5
  • 20
    • 77951959633 scopus 로고    scopus 로고
    • Ebimage-an r package for image processing with applications to cellular phenotypes
    • Pau, G., Fuchs F., O. Sklyar, Boutros M., and W. Huber, 2010 Ebimage-an r package for image processing with applications to cellular phenotypes. Bioinformatics 26: 979-981.
    • (2010) Bioinformatics , vol.26 , pp. 979-981
    • Pau, G.1    Fuchs, F.2    Sklyar, O.3    Boutros, M.4    Huber, W.5
  • 21
    • 30944458446 scopus 로고    scopus 로고
    • Extension of chronological life span in yeast by decreased tor pathway signaling
    • Powers R.W., Kaeberlein M., Caldwell S.D., Kennedy B.K., and S. Fields, 2006 Extension of chronological life span in yeast by decreased tor pathway signaling. Genes Dev. 20: 174-184.
    • (2006) Genes Dev. , vol.20 , pp. 174-184
    • Powers, R.W.1    Kaeberlein, M.2    Caldwell, S.D.3    Kennedy, B.K.4    Fields, S.5
  • 22
    • 54249107599 scopus 로고    scopus 로고
    • Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast
    • Roguev, A., Bandyopadhyay S., M. Zofall, Zhang K., T. Fischer et al., 2008 Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. Science 322: 405-410.
    • (2008) Science , vol.322 , pp. 405-410
    • Roguev, A.1    Bandyopadhyay, S.2    Zofall, M.3    Zhang, K.4    Fischer, T.5
  • 23
    • 79954602588 scopus 로고    scopus 로고
    • A fully automatic gridding method for cDNA microarray images
    • Rueda, L., and I. Rezaeian, 2011 A fully automatic gridding method for cDNA microarray images. BMC Bioinformatics 12: 113.
    • (2011) BMC Bioinformatics , vol.12 , pp. 113
    • Rueda, L.1    Rezaeian, I.2
  • 24
    • 38149041689 scopus 로고    scopus 로고
    • Accurate, precise modeling of cell proliferation kinetics from time-lapse imaging and automated image analysis of agar yeast culture arrays
    • Shah N.A., Laws R.J., Wardman B., Zhao L.P., and J. L. Hartman, 2007 Accurate, precise modeling of cell proliferation kinetics from time-lapse imaging and automated image analysis of agar yeast culture arrays. BMC Syst. Biol. 1: 3.
    • (2007) BMC Syst. Biol. , vol.1 , pp. 3
    • Shah, N.A.1    Laws, R.J.2    Wardman, B.3    Zhao, L.P.4    Hartman, J.L.5
  • 25
    • 0035861532 scopus 로고    scopus 로고
    • Systematic genetic analysis with ordered arrays of yeast deletion mutants
    • Tong, Y A.H.., Evangelista M., Parsons A.B., Xu H., Bader G.D. et al., 2001 Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science 294: 2364-2368.
    • (2001) Science , vol.294 , pp. 2364-2368
    • Tong, Y.A.H.1    Evangelista, M.2    Parsons, A.B.3    Xu, H.4    Bader, G.D.5
  • 26
    • 10744230485 scopus 로고    scopus 로고
    • Global mapping of the yeast genetic interaction network.
    • Tong A.H., Lesage G., Bader G.D., and H. Ding, 2002 Global mapping of the yeast genetic interaction network. Science 303(5659):808-13.
    • (2002) Science , vol.303 , Issue.5659 , pp. 808-813
    • Tong, A.H.1    Lesage, G.2    Bader, G.D.3    Ding, H.4
  • 27
    • 75749095658 scopus 로고    scopus 로고
    • Integrating high-throughput genetic interaction mapping and high-content screening to explore yeast spindle morphogenesis
    • Vizeacoumar F.J., N. van Dyk, Vizeacoumar F.S., Cheung V., J. Li et al., 2010 Integrating high-throughput genetic interaction mapping and high-content screening to explore yeast spindle morphogenesis. J. Cell Biol. 188: 69-81.
    • (2010) J. Cell Biol. , vol.188 , pp. 69-81
    • Vizeacoumar, F.J.1    van Dyk, N.2    Vizeacoumar, F.S.3    Cheung, V.4    Li, J.5
  • 29
    • 84896941507 scopus 로고    scopus 로고
    • ggplot2: Elegant Graphics for Data Analysis. Springer, New York.
    • Wickham, H. 2009 ggplot2: Elegant Graphics for Data Analysis. Springer, New York.
    • (2009)
    • Wickham, H.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.