Literature DB >> 7915552

Pattern recognition and classification of images of biological macromolecules using artificial neural networks.

R Marabini1, J M Carazo.   

Abstract

The goal of this work was to analyze an image data set and to detect the structural variability within this set. Two algorithms for pattern recognition based on neural networks are presented, one that performs an unsupervised classification (the self-organizing map) and the other a supervised classification (the learning vector quantization). The approach has a direct impact in current strategies for structural determination from electron microscopic images of biological macromolecules. In this work we performed a classification of both aligned but heterogeneous image data sets as well as basically homogeneous but otherwise rotationally misaligned image populations, in the latter case completely avoiding the typical reference dependency of correlation-based alignment methods. A number of examples on chaperonins are presented. The approach is computationally fast and robust with respect to noise. Programs are available through ftp.

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Year:  1994        PMID: 7915552      PMCID: PMC1275906          DOI: 10.1016/S0006-3495(94)80974-9

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  16 in total

1.  Three-dimensional reconstruction of the ribosome from Escherichia coli.

Authors:  T Wagenknecht; J M Carazo; M Radermacher; J Frank
Journal:  Biophys J       Date:  1989-03       Impact factor: 4.033

2.  Image reconstruction reveals the complex molecular organization of adenovirus.

Authors:  P L Stewart; R M Burnett; M Cyrklaff; S D Fuller
Journal:  Cell       Date:  1991-10-04       Impact factor: 41.582

Review 3.  Studying ribosome structure by electron microscopy and computer-image processing.

Authors:  J Frank; M Radermacher; T Wagenknecht; A Verschoor
Journal:  Methods Enzymol       Date:  1988       Impact factor: 1.600

4.  A stochastic model of retinotopy: a self organizing process.

Authors:  M Cottrell; J C Fort
Journal:  Biol Cybern       Date:  1986       Impact factor: 2.086

5.  Structure of mitochondrial F1-ATPase studied by electron microscopy and image processing.

Authors:  E J Boekema; J A Berden; M G van Heel
Journal:  Biochim Biophys Acta       Date:  1986-10-08

6.  Use of nonlinear mapping in multivariate image analysis of molecule projections.

Authors:  M Radermacher; J Frank
Journal:  Ultramicroscopy       Date:  1985       Impact factor: 2.689

7.  Classification of images of biomolecular assemblies: a study of ribosomes and ribosomal subunits of Escherichia coli.

Authors:  J Frank; J P Bretaudiere; J M Carazo; A Verschoor; T Wagenknecht
Journal:  J Microsc       Date:  1988-05       Impact factor: 1.758

8.  Variations of the three-dimensional structure of the Escherichia coli ribosome in the range of overlap views. An application of the methods of multicone and local single-cone three-dimensional reconstruction.

Authors:  J M Carazo; T Wagenknecht; J Frank
Journal:  Biophys J       Date:  1989-03       Impact factor: 4.033

9.  Three-dimensional reconstruction of the 70S Escherichia coli ribosome in ice: the distribution of ribosomal RNA.

Authors:  J Frank; P Penczek; R Grassucci; S Srivastava
Journal:  J Cell Biol       Date:  1991-11       Impact factor: 10.539

10.  The portal protein of bacteriophage SPP1: a DNA pump with 13-fold symmetry.

Authors:  P Dube; P Tavares; R Lurz; M van Heel
Journal:  EMBO J       Date:  1993-04       Impact factor: 11.598

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  21 in total

1.  Three-dimensional reconstruction of a recombinant influenza virus ribonucleoprotein particle.

Authors:  J Martín-Benito; E Area; J Ortega; O Llorca; J M Valpuesta; J L Carrascosa; J Ortín
Journal:  EMBO Rep       Date:  2001-04       Impact factor: 8.807

2.  Eukaryotic chaperonin CCT stabilizes actin and tubulin folding intermediates in open quasi-native conformations.

Authors:  O Llorca; J Martín-Benito; M Ritco-Vonsovici; J Grantham; G M Hynes; K R Willison; J L Carrascosa; J M Valpuesta
Journal:  EMBO J       Date:  2000-11-15       Impact factor: 11.598

3.  Structure of eukaryotic prefoldin and of its complexes with unfolded actin and the cytosolic chaperonin CCT.

Authors:  Jaime Martín-Benito; Jasminka Boskovic; Paulino Gómez-Puertas; José L Carrascosa; C Torrey Simons; Sally A Lewis; Francesca Bartolini; Nicholas J Cowan; José M Valpuesta
Journal:  EMBO J       Date:  2002-12-02       Impact factor: 11.598

4.  3D structure of the influenza virus polymerase complex: localization of subunit domains.

Authors:  Estela Area; Jaime Martín-Benito; Pablo Gastaminza; Eva Torreira; José M Valpuesta; José L Carrascosa; Juan Ortín
Journal:  Proc Natl Acad Sci U S A       Date:  2003-12-22       Impact factor: 11.205

5.  Alternating translocation of protein substrates from both ends of ClpXP protease.

Authors:  Joaquin Ortega; Hyun Sook Lee; Michael R Maurizi; Alasdair C Steven
Journal:  EMBO J       Date:  2002-09-16       Impact factor: 11.598

6.  Molecular clamp mechanism of substrate binding by hydrophobic coiled-coil residues of the archaeal chaperone prefoldin.

Authors:  Victor F Lundin; Peter C Stirling; Juan Gomez-Reino; Jill C Mwenifumbo; Jennifer M Obst; José M Valpuesta; Michel R Leroux
Journal:  Proc Natl Acad Sci U S A       Date:  2004-03-19       Impact factor: 11.205

7.  Architecture and nucleic acids recognition mechanism of the THO complex, an mRNP assembly factor.

Authors:  Alvaro Peña; Kamil Gewartowski; Seweryn Mroczek; Jorge Cuéllar; Aleksandra Szykowska; Andrzej Prokop; Mariusz Czarnocki-Cieciura; Jan Piwowarski; Cristina Tous; Andrés Aguilera; José L Carrascosa; José María Valpuesta; Andrzej Dziembowski
Journal:  EMBO J       Date:  2012-02-07       Impact factor: 11.598

8.  Large T-antigen double hexamers imaged at the simian virus 40 origin of replication.

Authors:  M Valle; C Gruss; L Halmer; J M Carazo; L E Donate
Journal:  Mol Cell Biol       Date:  2000-01       Impact factor: 4.272

9.  Ultrastructural and functional analyses of recombinant influenza virus ribonucleoproteins suggest dimerization of nucleoprotein during virus amplification.

Authors:  J Ortega; J Martín-Benito; T Zürcher; J M Valpuesta; J L Carrascosa; J Ortín
Journal:  J Virol       Date:  2000-01       Impact factor: 5.103

10.  Structure of GroEL in complex with an early folding intermediate of alanine glyoxylate aminotransferase.

Authors:  Armando Albert; Cristina Yunta; Rocío Arranz; Alvaro Peña; Eduardo Salido; José María Valpuesta; Jaime Martín-Benito
Journal:  J Biol Chem       Date:  2010-01-07       Impact factor: 5.157

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