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Volumn 9, Issue 1, 2012, Pages 228-239

RENNSH: A novel α-helix identification approach for intermediate resolution electron density maps

Author keywords

intermediate resolution electron density maps; refined classification; secondary structure identification; spherical harmonic descriptors; Structural bioinformatics

Indexed keywords

ALPHA-HELIX; BIOLOGICAL MACROMOLECULE; CLASSIFICATION FRAMEWORK; DESCRIPTORS; ELECTRON DENSITY MAPS; ENERGY FUNCTIONS; IDENTIFICATION ACCURACY; IDENTIFICATION APPROACH; IDENTIFICATION METHOD; IDENTIFICATION OF PROTEINS; MACHINE LEARNING PROBLEM; SECONDARY STRUCTURES; SPHERICAL HARMONICS; STRUCTURAL BIOINFORMATICS; THREE-DIMENSIONAL STRUCTURE;

EID: 81455139775     PISSN: 15455963     EISSN: None     Source Type: Journal    
DOI: 10.1109/TCBB.2011.52     Document Type: Article
Times cited : (15)

References (31)
  • 1
    • 14844322305 scopus 로고    scopus 로고
    • Large macromolecular complexes in the protein data bank: A status report
    • DOI 10.1016/j.str.2005.01.008
    • S. Dutta and H.M. Berman, "Large Macromolecular Complexes in the Protein Data Bank: A Status Report," Structure, vol. 13, no. 3, pp. 381-388, 2005. (Pubitemid 40342877)
    • (2005) Structure , vol.13 , Issue.3 , pp. 381-388
    • Dutta, S.1    Berman, H.M.2
  • 4
    • 0033794003 scopus 로고    scopus 로고
    • Nmr spectroscopy: A multifaceted approach to macromolecular structure
    • A.E. Ferentz and G. Wagner, "Nmr Spectroscopy: A Multifaceted Approach to Macromolecular Structure," Quarterly Rev. of Biophysics, vol. 33, no. 1, pp. 29-65, 2000.
    • (2000) Quarterly Rev. of Biophysics , vol.33 , Issue.1 , pp. 29-65
    • Ferentz, A.E.1    Wagner, G.2
  • 6
    • 36348977502 scopus 로고    scopus 로고
    • Automatic structure interpretation of single particle cryo-electron microscopy: From images to psuedo-atomic models
    • DOI 10.1109/ISBI.2007.356832, 4193266, 2007 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings
    • C. Bajaj, "Automatic Structure Interpretation of Single Particle Cryo-Electron Microscopy: From Images to Psuedo-Atomic Models," Proc. IEEE Fourth Int'l Symp. Biomedical Imaging (ISBI '07): From Nano to Macro, pp. 236-239, Apr. 2007. (Pubitemid 350141069)
    • (2007) 2007 4th IEEE International Symposium on Biomedical Imaging: From Nano to Macro - Proceedings , pp. 236-239
    • Bajaj, C.L.1
  • 7
    • 0035906702 scopus 로고    scopus 로고
    • Bridging the information gap: Computational tools for intermediate resolution structure interpretation
    • DOI 10.1006/jmbi.2001.4633
    • W. Jiang, M.L. Baker, S.J. Ludtke, and W. Chiu, "Bridging the Information Gap: Computational Tools for Intermediate Resolution Structure Interpretation," J. Molecular Biology, vol. 308, no. 5, pp. 1033-1044, 2001. (Pubitemid 32574375)
    • (2001) Journal of Molecular Biology , vol.308 , Issue.5 , pp. 1033-1044
    • Jiang, W.1    Baker, M.L.2    Ludtke, S.J.3    Chiu, W.4
  • 8
    • 33847730593 scopus 로고    scopus 로고
    • EMatch: Discovery of high resolution structural homologues of protein domains in intermediate resolution Cryo-EM maps
    • DOI 10.1109/TCBB.2007.1003
    • K. Lasker, O. Dror, M. Shatsky, R. Nussinov, and H. Wolfson, "Ematch: Discovery of High Resolution Structural Homologues of Protein Domains in Intermediate Resolution Cryo-Em Maps," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 4, no. 1, pp. 28-39, Jan.-Mar. 2007. (Pubitemid 46375814)
    • (2007) IEEE/ACM Transactions on Computational Biology and Bioinformatics , vol.4 , Issue.1 , pp. 28-39
    • Lasker, K.1    Dror, O.2    Shatsky, M.3    Nussinov, R.4    Wolfson, H.J.5
  • 9
    • 34250843133 scopus 로고    scopus 로고
    • Identification of alpha-helices from low resolution protein density maps
    • L.Y.
    • A.D. Palu, H.J., P.E., and L.Y., "Identification of Alpha-Helices from Low Resolution Protein Density Maps," Proc. Computational Systems Bioinformatics Conf., pp. 89-98, 2006.
    • (2006) Proc. Computational Systems Bioinformatics Conf. , pp. 89-98
    • Palu, A.D.1    E, H.J.P.2
  • 10
    • 33846061281 scopus 로고    scopus 로고
    • Identification of Secondary Structure Elements in Intermediate-Resolution Density Maps
    • DOI 10.1016/j.str.2006.11.008, PII S0969212606004722
    • M.L. Baker, T. Ju, and W. Chiu, "Identification of Secondary Structure Elements in Intermediate-Resolution Density Maps," Structure, vol. 15, no. 1, pp. 7-19, 2007. (Pubitemid 46073771)
    • (2007) Structure , vol.15 , Issue.1 , pp. 7-19
    • Baker, M.L.1    Ju, T.2    Chiu, W.3
  • 11
    • 34248218084 scopus 로고    scopus 로고
    • Computing a family of skeletons of volumetric models for shape description
    • DOI 10.1016/j.cad.2007.02.006, PII S0010448507000450, Geometric Modeling and Processing 2006
    • T. Ju, M.L. Baker, and W. Chiu, "Computing a Family of Skeletons of Volumetric Models for Shape Description," Computer Aided Design, vol. 39, no. 5, pp. 352-360, 2007. (Pubitemid 46726282)
    • (2007) CAD Computer Aided Design , vol.39 , Issue.5 , pp. 352-360
    • Ju, T.1    Baker, M.L.2    Chiu, W.3
  • 12
    • 55949096418 scopus 로고    scopus 로고
    • Computational approaches for automatic structural analysis of large biomolecular complexes
    • Oct. Dec.
    • Z. Yu and C.L. Bajaj, "Computational Approaches for Automatic Structural Analysis of Large Biomolecular Complexes," IEEE/ACM Trans. Computational Biology and Bioinformatics, vol. 5, no. 4, pp. 568-582, Oct.-Dec. 2008.
    • (2008) IEEE/ACM Trans. Computational Biology and Bioinformatics , vol.5 , Issue.4 , pp. 568-582
    • Yu, Z.1    Bajaj, C.L.2
  • 13
    • 26444580200 scopus 로고    scopus 로고
    • Automatic ultrastructure segmentation of reconstructed cryoEM maps of icosahedral viruses
    • DOI 10.1109/TIP.2005.852770
    • Z. Yu and C. Bajaj, "Automatic Ultrastructure Segmentation of Reconstructed Cryoem Maps of Icosahedral Viruses," IEEE Trans. Image Processing, vol. 14, no. 9, pp. 1324-1337, Sept. 2005. (Pubitemid 41430895)
    • (2005) IEEE Transactions on Image Processing , vol.14 , Issue.9 , pp. 1324-1337
    • Yu, Z.1    Bajaj, C.2
  • 16
    • 0031677647 scopus 로고    scopus 로고
    • The bootstrap and its application in signal processing
    • Jan.
    • A. Zoubir and B. Boashash, "The Bootstrap and its Application in Signal Processing," IEEE Signal Processing Magazine, vol. 15, no. 1, pp. 56-76, Jan. 1998.
    • (1998) IEEE Signal Processing Magazine , vol.15 , Issue.1 , pp. 56-76
    • Zoubir, A.1    Boashash, B.2
  • 17
    • 22544470628 scopus 로고    scopus 로고
    • Active learning: Theory and applications to automatic speech recognition
    • July
    • G. Riccardi and D. Hakkani-Tur, "Active Learning: Theory and Applications to Automatic Speech Recognition," IEEE Trans. Speech and Audio Processing, vol. 13, no. 4, pp. 504-511, July 2005.
    • (2005) IEEE Trans. Speech and Audio Processing , vol.13 , Issue.4 , pp. 504-511
    • Riccardi, G.1    Hakkani-Tur, D.2
  • 19
    • 77953212350 scopus 로고    scopus 로고
    • Fast computation of 3D spherical fourier harmonic descriptors-a complete orthonormal basis for a rotational invariant representation of three-dimensional objects
    • H. Skibbe, M. Reisert, Q. Wang, O. Ronneberger, and H. Burkhardt, "Fast Computation of 3D Spherical Fourier Harmonic Descriptors-A Complete Orthonormal Basis for a Rotational Invariant Representation of Three-Dimensional Objects," Proc. IEEE 12th Int'l Conf. Computer Vision3 (ICCV '09), 2009.
    • (2009) Proc. IEEE 12th Int'l Conf. Computer Vision3 (ICCV '09)
    • Skibbe, H.1    Reisert, M.2    Wang, Q.3    Ronneberger, O.4    Burkhardt, H.5
  • 20
    • 0033377664 scopus 로고    scopus 로고
    • EMAN: Semiautomated software for high-resolution single-particle reconstructions
    • DOI 10.1006/jsbi.1999.4174
    • S.J. Ludtke, P.R. Baldwin, and W. Chiu, "Eman: Semiautomated Software for High-Resolution Single-Particle Reconstructions," J. Structural Biology, vol. 128, no. 1, pp. 82-97, 1999. (Pubitemid 30013436)
    • (1999) Journal of Structural Biology , vol.128 , Issue.1 , pp. 82-97
    • Ludtke, S.J.1    Baldwin, P.R.2    Chiu, W.3
  • 21
    • 0030239753 scopus 로고    scopus 로고
    • Algorithms for finding the axis of a helix: Fast rotational and parametric least-squares methods
    • DOI 10.1016/0097-8485(95)00075-5
    • J.A. Christopher, R. Swanson, and T.O. Baldwin, "Algorithms for Finding the Axis of a Helix: Fast Rotational and Parametric Least-Squares Methods," Computers and Chemistry, vol. 20, no. 3, pp. 339-345, 1996. (Pubitemid 126360196)
    • (1996) Computers and Chemistry , vol.20 , Issue.3 , pp. 339-345
    • Christopher, J.A.1    Swanson, R.2    Baldwin, T.O.3
  • 22
    • 0024921948 scopus 로고
    • Defining the axis of a Helix
    • P.C. Kahn, "Defining the Axis of a Helix," Computers and Chemistry, vol. 13, no. 3, pp. 185-189, 1989.
    • (1989) Computers and Chemistry , vol.13 , Issue.3 , pp. 185-189
    • Kahn, P.C.1
  • 23
    • 75549084424 scopus 로고    scopus 로고
    • Pdbselect 1992-2009 and pdbfilter-select
    • S. Griep and U. Hobohm, "Pdbselect 1992-2009 and Pdbfilter-Select," Nucleic Acids Research, vol. 38, pp. 318-319, 2010.
    • (2010) Nucleic Acids Research , vol.38 , pp. 318-319
    • Griep, S.1    Hobohm, U.2
  • 25
    • 0025796458 scopus 로고
    • Refinements to nearest-neighbor searching in KDimensional Trees
    • R.F. Sproull, "Refinements to Nearest-Neighbor Searching in KDimensional Trees," Algorithmica, vol. 6, no. 4, pp. 579-589, 1991.
    • (1991) Algorithmica , vol.6 , Issue.4 , pp. 579-589
    • Sproull, R.F.1
  • 26
    • 33745369515 scopus 로고    scopus 로고
    • New algorithms for efficient high-dimensional nonparametric classification
    • T. Liu, A.W. Moore, and A. Gray, "New Algorithms for Efficient High-Dimensional Nonparametric Classification," J. Machine Learning Research, vol. 7, pp. 1135-1158, Dec. 2006. (Pubitemid 43946312)
    • (2006) Journal of Machine Learning Research , vol.7 , pp. 1135-1158
    • Liu, T.1    Moore, A.W.2    Gray, A.3
  • 27
    • 0001020875 scopus 로고    scopus 로고
    • Performance evaluation of the nearest feature line method in image classification and retrieval
    • Nov.
    • S.Z. Li, K.L. Chan, and C. Wang, "Performance Evaluation of the Nearest Feature Line Method in Image Classification and Retrieval," IEEE Trans. Pattern Analysis and Machine Intelligence, vol. 22, no. 11, pp. 1335-1339, Nov. 2000.
    • (2000) IEEE Trans. Pattern Analysis and Machine Intelligence , vol.22 , Issue.11 , pp. 1335-1339
    • Li, S.Z.1    Chan, K.L.2    Wang, C.3
  • 31
    • 42949096020 scopus 로고    scopus 로고
    • Mechanism of Gate Opening in the 20S Proteasome by the Proteasomal ATPases
    • DOI 10.1016/j.molcel.2008.03.004, PII S1097276508001755
    • J. Rabl, D.M. Smith, Y. Yu, S.-C. Chang, A.L. Goldberg, and Y. Cheng, "Mechanism of Gate Opening in the 20s Proteasome by the Proteasomal Atpases," Molecular Cell, vol. 30, no. 3, pp. 360-368, 2008. (Pubitemid 351615314)
    • (2008) Molecular Cell , vol.30 , Issue.3 , pp. 360-368
    • Rabl, J.1    Smith, D.M.2    Yu, Y.3    Chang, S.-C.4    Goldberg, A.L.5    Cheng, Y.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.