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Volumn 31, Issue 12, 2015, Pages i142-i150

Deconvolving molecular signatures of interactions between microbial colonies

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; BACILLUS CEREUS; BACILLUS SUBTILIS; CHEMISTRY; MASS SPECTROMETRY; ORGANISMAL INTERACTION; POISSON DISTRIBUTION; PROCEDURES;

EID: 84931057803     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btv251     Document Type: Conference Paper
Times cited : (10)

References (34)
  • 1
    • 84878044033 scopus 로고    scopus 로고
    • Maldi imaging mass spectrometry: Statistical data analysis and current computational challenges
    • Alexandrov T. (2012). Maldi imaging mass spectrometry: statistical data analysis and current computational challenges. BMC Bioinformatics, 13 (Suppl. 16) , S11
    • (2012) BMC Bioinformatics , vol.13 , pp. S11
    • Alexandrov, T.1
  • 2
    • 84889040813 scopus 로고    scopus 로고
    • Analysis and interpretation of imaging mass spectrometry data by clustering mass-to-charge images according to their spatial similarity
    • Alexandrov T., et al. (2013a) Analysis and interpretation of imaging mass spectrometry data by clustering mass-to-charge images according to their spatial similarity. Anal. Chem., 85, 11189-11195
    • (2013) Anal. Chem , vol.85 , pp. 11189-11195
    • Alexandrov, T.1
  • 3
    • 84872289454 scopus 로고    scopus 로고
    • Maldi-imaging segmentation is a powerful tool for spatial functional proteomic analysis of human larynx carcinoma
    • Alexandrov T., et al. (2013b) Maldi-imaging segmentation is a powerful tool for spatial functional proteomic analysis of human larynx carcinoma. J. Cancer Res. Clin. Oncol., 139, 85-95
    • (2013) J. Cancer Res. Clin. Oncol , vol.139 , pp. 85-95
    • Alexandrov, T.1
  • 4
    • 84948644832 scopus 로고
    • Determination of fatty acid in surfactin and elucidation of the total structure of surfactin
    • Atsushi K., et al. (1969). Determination of fatty acid in surfactin and elucidation of the total structure of surfactin. Agric. Biol. Chem., 33, 973-976
    • (1969) Agric. Biol. Chem , vol.33 , pp. 973-976
    • Atsushi, K.1
  • 6
    • 0028473819 scopus 로고
    • Solution three-dimensional structure of surfactin: A cyclic lipopeptide studied by 1H-NMR, distance geometry, and molecular dynamics
    • Bonmatin J., et al. (1994). Solution three-dimensional structure of surfactin: a cyclic lipopeptide studied by 1H-NMR, distance geometry, and molecular dynamics. Biopolymers, 34, 975-986
    • (1994) Biopolymers , vol.34 , pp. 975-986
    • Bonmatin, J.1
  • 7
    • 69949095925 scopus 로고    scopus 로고
    • Imaging mass spectrometry of a specific fragment of mitogen-activated protein kinase/extracellular signal-regulated kinase kinase kinase 2 discriminates cancer from uninvolved prostate tissue
    • Cazares L.H., et al. (2009). Imaging mass spectrometry of a specific fragment of mitogen-activated protein kinase/extracellular signal-regulated kinase kinase kinase 2 discriminates cancer from uninvolved prostate tissue. Clin. Cancer Res., 15, 5541-5551
    • (2009) Clin. Cancer Res , vol.15 , pp. 5541-5551
    • Cazares, L.H.1
  • 8
    • 84867345063 scopus 로고    scopus 로고
    • A cross-platform toolkit for mass spectrometry and proteomics
    • Chambers M., et al. (2012). A cross-platform toolkit for mass spectrometry and proteomics. Nat. Biotechnol., 30, 918-920
    • (2012) Nat. Biotechnol , vol.30 , pp. 918-920
    • Chambers, M.1
  • 9
    • 33748659203 scopus 로고    scopus 로고
    • Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching
    • Du P., et al. (2006). Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching. Bioinformatics, 22, 2059-2065
    • (2006) Bioinformatics , vol.22 , pp. 2059-2065
    • Du, P.1
  • 10
    • 84865548780 scopus 로고    scopus 로고
    • Maldi-quant: A versatile r package for the analysis of mass spectrometry data
    • Gibb S. and Strimmer K. (2012). MALDI-quant: a versatile r package for the analysis of mass spectrometry data. Bioinformatics, 28, 2270-2271
    • (2012) Bioinformatics , vol.28 , pp. 2270-2271
    • Gibb, S.1    Strimmer, K.2
  • 11
    • 53549111100 scopus 로고    scopus 로고
    • High-throughput proteomic analysis of formalin- fixed paraffin-embedded tissue microarrays using maldi imaging mass spectrometry
    • Groseclose M.R., et al. (2008). High-throughput proteomic analysis of formalin- fixed paraffin-embedded tissue microarrays using MALDI imaging mass spectrometry. Proteomics, 8, 3715-3724
    • (2008) Proteomics , vol.8 , pp. 3715-3724
    • Groseclose, M.R.1
  • 13
    • 58149113051 scopus 로고    scopus 로고
    • Concise representation of mass spectrometry images by probabilistic latent semantic analysis
    • Hanselmann M., et al. (2008). Concise representation of mass spectrometry images by probabilistic latent semantic analysis. Anal. Chem., 80, 9649-9658
    • (2008) Anal. Chem , vol.80 , pp. 9649-9658
    • Hanselmann, M.1
  • 14
    • 84864713988 scopus 로고    scopus 로고
    • Enzymatic resistance to the lipopeptide surfactin as identified through imaging mass spectrometry of bacterial competition
    • Hoefler B., et al. (2012). Enzymatic resistance to the lipopeptide surfactin as identified through imaging mass spectrometry of bacterial competition. Proc. Natl Acad. Sci. U.S.A, 109, 13082-13087
    • (2012) Proc. Natl Acad. Sci. U.S.A , vol.109 , pp. 13082-13087
    • Hoefler, B.1
  • 15
    • 79952595273 scopus 로고    scopus 로고
    • Weighted elastic net model for mass spectrometry imaging processing
    • Hong D. and Zhang F. (2010). Weighted elastic net model for mass spectrometry imaging processing. Math. Model. Nat. Phenom., 5, 115-133
    • (2010) Math. Model. Nat. Phenom , vol.5 , pp. 115-133
    • Hong, D.1    Zhang, F.2
  • 16
    • 84865161531 scopus 로고    scopus 로고
    • Imaging mass spectrometry statistical analysis
    • Jones E., et al. (2012). Imaging mass spectrometry statistical analysis. J. Proteomics, 75, 4962-4989
    • (2012) J. Proteomics , vol.75 , pp. 4962-4989
    • Jones, E.1
  • 17
    • 33845910712 scopus 로고    scopus 로고
    • Extended data analysis strategies for high resolution imaging ms: New methods to deal with extremely large image hyperspectral datasets
    • Klerk L., et al. (2007). Extended data analysis strategies for high resolution imaging ms: New methods to deal with extremely large image hyperspectral datasets. Int. J. Mass Spectrom., 260, 222-236
    • (2007) Int. J. Mass Spectrom , vol.260 , pp. 222-236
    • Klerk, L.1
  • 18
    • 84886736787 scopus 로고    scopus 로고
    • Numerical experiments with maldi imaging data
    • Kobarg J.H., et al. (2013). Numerical experiments with MALDI imaging data. Adv. Comput. Math., 40, 667-682
    • (2013) Adv. Comput. Math , vol.40 , pp. 667-682
    • Kobarg, J.H.1
  • 19
    • 0002719797 scopus 로고
    • The Hungarian method for the assignment problem
    • Kuhn H.W. (1955). The Hungarian method for the assignment problem. Naval Res. Logist. Q., 2, 83-97
    • (1955) Naval Res. Logist. Q. , vol.2 , pp. 83-97
    • Kuhn, H.W.1
  • 20
    • 84864036295 scopus 로고    scopus 로고
    • Efficient sparse coding algorithms
    • Schölkopf B. et al (eds MIT Press
    • Lee H., et al. (2007). Efficient sparse coding algorithms. In: Schölkopf B. et al (eds) , Advances in Neural Information Processing Systems, MIT Press, Vol. 19, pp. 801-808
    • (2007) Advances in Neural Information Processing Systems , vol.19 , pp. 801-808
    • Lee, H.1
  • 21
    • 36348988577 scopus 로고    scopus 로고
    • Specific maldi imaging and profiling for biomarker hunting and validation: Fragment of the 11s proteasome activator complex, reg alpha fragment, is a new potential ovary cancer biomarker
    • Lemaire R., et al. (2007). Specific MALDI imaging and profiling for biomarker hunting and validation: fragment of the 11s proteasome activator complex, reg alpha fragment, is a new potential ovary cancer biomarker. J. Proteome Res., 6, 4127-4134
    • (2007) J. Proteome Res , vol.6 , pp. 4127-4134
    • Lemaire, R.1
  • 22
    • 84876097941 scopus 로고    scopus 로고
    • The non-negative matrix factorization toolbox for biological data mining
    • Li Y. and Ngom A. (2013). The non-negative matrix factorization toolbox for biological data mining. Source Code Biol. Med., 8, 10
    • (2013) Source Code Biol. Med , vol.8 , pp. 10
    • Li, Y.1    Ngom, A.2
  • 24
    • 84907550896 scopus 로고    scopus 로고
    • Sparse coding for multitask and transfer learning
    • Dasgupta S. and Mcallester D. (eds. ICML-13) . JMLR Workshop and Conference Proceedings
    • Maurer A., et al. (2013). Sparse coding for multitask and transfer learning. In: Dasgupta S. and Mcallester D. (eds.) Proceedings of the 30th International Conference on Machine Learning (ICML-13) . JMLR Workshop and Conference Proceedings, pp. 343-351
    • (2013) Proceedings of the 30th International Conference on Machine Learning , pp. 343-351
    • Maurer, A.1
  • 25
    • 84897475454 scopus 로고    scopus 로고
    • Sparsity-based generalization bounds for predictive sparse coding
    • Dasgupta S. and Mcallester D. (eds. ICML-13) . JMLR Workshop and Conference Proceedings
    • Mehta N. and Gray A.G. (2013). Sparsity-based generalization bounds for predictive sparse coding. In: Dasgupta S. and Mcallester D. (eds.) Proceedings of the 30th International Conference on Machine Learning (ICML-13) . JMLR Workshop and Conference Proceedings, Vol. 28, pp. 36-44
    • (2013) Proceedings of the 30th International Conference on Machine Learning , vol.28 , pp. 36-44
    • Mehta, N.1    Gray, A.G.2
  • 26
    • 0030779611 scopus 로고    scopus 로고
    • Sparse coding with an overcomplete basis set: A strategy employed by v1?
    • Olshausen B.A. and Field D.J. (1997). Sparse coding with an overcomplete basis set: a strategy employed by v1?. Vision Res., 37, 3311-3325
    • (1997) Vision Res , vol.37 , pp. 3311-3325
    • Olshausen, B.A.1    Field, D.J.2
  • 27
    • 84931076549 scopus 로고    scopus 로고
    • Identification of surfactins and iturins produced by potent fungal antagonist, bacillus subtilis k1 isolated from aerial roots of banyan (ficus benghalensis) tree using mass spectrometry
    • Pathak K. and Keharia H. (2014). Identification of surfactins and iturins produced by potent fungal antagonist, bacillus subtilis k1 isolated from aerial roots of banyan (ficus benghalensis) tree using mass spectrometry. 3 Biotech, 4, 283-295
    • (2014) 3 Biotech , vol.4 , pp. 283-295
    • Pathak, K.1    Keharia, H.2
  • 28
    • 77950661168 scopus 로고    scopus 로고
    • Classification of her2 receptor status in breast cancer tissues by maldi imaging mass spectrometry
    • Rauser S., et al. (2010). Classification of her2 receptor status in breast cancer tissues by MALDI imaging mass spectrometry. J. Proteome Res., 9, 1854-1863
    • (2010) J. Proteome Res , vol.9 , pp. 1854-1863
    • Rauser, S.1
  • 29
    • 67549123703 scopus 로고    scopus 로고
    • Matrix factorization techniques for analysis of imaging mass spectrometry data
    • BIBE 2008. 8th IEEE International Conference
    • Siy P., et al. (2008). Matrix factorization techniques for analysis of imaging mass spectrometry data. In: BioInformatics and BioEngineering, 2008. BIBE 2008. 8th IEEE International Conference, pp. 1-6
    • (2008) BioInformatics and BioEngineering , vol.2008 , pp. 1-6
    • Siy, P.1
  • 31
    • 84863826784 scopus 로고    scopus 로고
    • On the importance of mathematical methods for analysis ofMALDI-imaging mass spectrometry data
    • Trede D., et al. (2012). On the importance of mathematical methods for analysis ofMALDI-imaging mass spectrometry data. J. Integr. Bioinform., 9, 189
    • (2012) J. Integr. Bioinform , vol.9 , pp. 189
    • Trede, D.1
  • 32
    • 50849127829 scopus 로고    scopus 로고
    • Imaging mass spectrometry based exploration of biochemical tissue composition using peak intensity weighted PCA
    • LISA 2007. IEEE/NIH
    • Van de Plas R., et al. (2007). Imaging mass spectrometry based exploration of biochemical tissue composition using peak intensity weighted PCA. In: Life Science Systems and Applications Workshop, LISA 2007. IEEE/NIH, pp. 209-212
    • (2007) Life Science Systems and Applications Workshop , pp. 209-212
    • Van De Plas, R.1
  • 33
    • 84862999012 scopus 로고    scopus 로고
    • Mass spectral molecular networking of living microbial colonies
    • Watrous J., et al. (2012). Mass spectral molecular networking of living microbial colonies. Proc. Natl Acad. Sci., 109, E1743-E1752
    • (2012) Proc. Natl Acad. Sci , vol.109 , pp. E1743-E1752
    • Watrous, J.1
  • 34
    • 84869106994 scopus 로고    scopus 로고
    • Primer on agar-based microbial imaging mass spectrometry
    • Yang J., et al. (2012). Primer on agar-based microbial imaging mass spectrometry. J. Bacteriol., 194, 6023-6028
    • (2012) J. Bacteriol , vol.194 , pp. 6023-6028
    • Yang, J.1


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