DOI: 10.1016/j.jsb.2004.06.006. XMIPP: a new generation of an open-source image processing package for electron microscopy

XMIPP: a new generation of an open-source image processing package for electron microscopy

10.1016/j.jsb.2004.06.006

Crossref journal-article

Elsevier BV

Journal of Structural Biology (78)

Bibliography

Sorzano, C. O. S., Marabini, R., VelÃ¡zquez-Muriel, J., Bilbao-Castro, J. R., Scheres, S. H. W., Carazo, J. M., & Pascual-Montano, A. (2004). XMIPP: a new generation of an open-source image processing package for electron microscopy. Journal of Structural Biology, 148(2), 194â204.

Authors 7

C.O.S. Sorzano (first)
R. Marabini (additional)
J. Velázquez-Muriel (additional)
J.R. Bilbao-Castro (additional)
S.H.W. Scheres (additional)
J.M. Carazo (additional)
A. Pascual-Montano (additional)

References 87 Referenced 420

10.1177/016173468400600107 / Ultrasonic Imag. / Simultaneous algebraic reconstruction technique (SART): a superior implementation of the ART algorithm by Andersen (1984)
10.1073/pnas.0307127101 / Proc. Natl. Acad. Sci. USA / 3D structure of the influenza virus polymerase complex: localization of subunit domains by Area (2004)
10.1093/emboj/20.6.1462 / EMBO J. / The DnaB–DnaC complex: a structure based on interactions among assymetric dimers by Bárcena (2001)
{'year': '1981', 'series-title': 'Pattern Recognition with Fuzzy Objective Function Algorithms', 'author': 'Bezdek', 'key': '10.1016/j.jsb.2004.06.006_bib4'} / Pattern Recognition with Fuzzy Objective Function Algorithms by Bezdek (1981)
Bilbao-Castro, J.R., Carazo, J.M., García, I., Fernández, J.J., 2003. Parallel iterative reconstruction methods for structure determination of biological specimens by electron microscopy. In: Proc. of IEEE Intl. Congress on Image Processing. vol. 1. pp. 565–568 (10.1109/ICIP.2003.1247024)
10.1093/emboj/cdg555 / EMBO J. / Visualization of DNA-induced conformational changes in the DNA repair kinase DNA-PKcs by Boskovic (2003)
10.1111/j.1365-2818.1990.tb02958.x / J. Microsc. / Fuzzy sets-based classification of electron microscopy images of biological macromolecules with an application to ribosomal particles by Carazo (1990)
{'key': '10.1016/j.jsb.2004.06.006_bib8', 'series-title': 'Inherently Parallel Algorithms in Feasibility and Optimization and Their Applications', 'first-page': '101', 'article-title': 'Averaging strings of sequential iterations for convex feasibility problems', 'author': 'Censor', 'year': '2000'} / Inherently Parallel Algorithms in Feasibility and Optimization and Their Applications / Averaging strings of sequential iterations for convex feasibility problems by Censor (2000)
10.1109/42.959302 / IEEE Trans. Med. Imag. / BICAV: A block-iterative parallel algorithm for sparse systems with pixel-related weighting by Censor (2001)
10.1016/S0167-8191(00)00100-9 / Parallel computing / Component averaging: an efficient iterative parallel algorithm for large and sparse unstructured problems by Censor (2001)
10.1016/0022-2836(71)90452-9 / J. Mol. Biol. / Harmonic analysis of electron microscope images with rotational symmetry by Crowther (1971)
10.1006/jsbi.1996.0003 / J. Struct. Biol. / MRC image processing programs by Crowther (1996)
10.1016/S0006-3495(02)75196-5 / Biophys. J. / Modeling shape and topology of low-resolution density maps of biological macromolecules by de Alarcón (2002)
10.1006/jsbi.2001.4422 / J. Struct. Biol. / Correlation of topographic surface and volume data from 3D electron microscopy by Dimmeler (2001)
10.1038/78929 / Nat. Struct. Biol. / Observing single biomolecules at work with the atomic force microscope by Engel (2000)
10.1016/S1047-8477(02)00017-5 / J. Struct. Biol. / High performance electron tomography of complex biological specimens by Fernández (2002)
10.1074/jbc.M212198200 / J. Biological Chemistry / Three-dimensional reconstruction of the Saccharomyces cerevisiae multidrug resistance protein Pdr5p by Ferreira-Pereira (2003)
{'year': '1996', 'series-title': 'Three Dimensional Electron Microscopy of Macromolecular Assemblies', 'author': 'Frank', 'key': '10.1016/j.jsb.2004.06.006_bib18'} / Three Dimensional Electron Microscopy of Macromolecular Assemblies by Frank (1996)
10.1146/annurev.biophys.31.082901.134202 / Ann. Rev. Biophy. Biomol. Struct. / Single-particle imaging of macromolecules by cryo-electron microscopy by Frank (2002)
10.1006/jsbi.1996.0030 / J. Struct. Biol. / SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields by Frank (1996)
10.1002/1361-6374(199503)3:1<12::AID-BIO2>3.3.CO;2-U / Bioimaging / Reconstruction and representation of surface data from two-dimensional crystalline biological macromolecules by Fuchs (1995)
10.1016/S0092-8674(00)80690-X / Cell / Solution structure of the E. coli 70S ribosome at 11.5Å resolution by Gabashvili (2000)
10.1016/S0304-3991(02)00157-2 / Ultramicroscopy / An assay for local quality in cryo-electro micrographs of single particles by Gao (2002)
{'key': '10.1016/j.jsb.2004.06.006_bib24', 'article-title': 'Optimization of basis functions for both reconstruction and visualization', 'volume': 'vol. 46', 'author': 'Garduño', 'year': '2001'} / Optimization of basis functions for both reconstruction and visualization by Garduño (2001)
10.1016/0022-5193(72)90180-4 / J. Theor. Biol. / Iterative methods for the three-dimensional reconstruction of an object from projections by Gilbert (1972)
Gómez-Lorenzo, M.G., Valle, M., Donate, L.E., Gruss, C., Bárcena, M., Sorzano, C.O.S., Frank, J., Carazo, J.M., 2002. Structural studies of SV40 large T-antigen on the origin of replication. In: Proc. of the 15th International Conference on Electron Microscopy (ICEM). Durban, South Africa
{'year': '1999', 'series-title': 'Using MPI: Portable Parallel Programming with the Message Passing Interface', 'author': 'Gropp', 'key': '10.1016/j.jsb.2004.06.006_bib27'} / Using MPI: Portable Parallel Programming with the Message Passing Interface by Gropp (1999)
10.1093/emboj/cdg612 / EMBO J. / Large T antigen on the simian virus 40 origin of replication: a 3D snapshot prior to DNA replication by Gómez-Lorenzo (2003)
10.1074/jbc.M309743200 / J. Biol. Chem. / Three-dimensional rearrangements within inositol 1,4,5-trisphosphate receptor by calcium by Hamada (2003)
{'year': '1980', 'series-title': 'Image Reconstruction from Projections: The Fundamentals of Computerized Tomography', 'author': 'Herman', 'key': '10.1016/j.jsb.2004.06.006_bib30'} / Image Reconstruction from Projections: The Fundamentals of Computerized Tomography by Herman (1980)
10.1016/j.jsb.2003.10.011 / J. Struct. Biol. / Automated determination of parameters describing power spectra of micrograph images in electron microscopy by Huang (2003)
Jonić, S., Thévenaz, P., Unser, M., 2003. Multiresolution-based registration of a volume to a set of its projections. In: Proc. of the SPIE Symposium on Medical Imaging. vol. 5032. San Diego, pp. 1049–1052 (10.1117/12.480241)
10.1016/S1047-8477(03)00115-1 / J. Struct. Biol. / Revisiting the structure of Alvinella pompejana hemoglobin at 20Å resolution by cryoelectron microscopy by Jouan (2003)
10.1007/BF00337288 / Biol. Cybernet. / Self-organized formation of topologically correct feature maps by Kohonen (1982)
{'year': '1997', 'series-title': 'Self-organizing Maps', 'author': 'Kohonen', 'key': '10.1016/j.jsb.2004.06.006_bib35'} / Self-organizing Maps by Kohonen (1997)
10.1016/S0925-2312(98)00030-7 / Neurocomputing / The self-organizing maps by Kohonen (1998)
10.1364/JOSAA.7.001834 / J. Opt. Soc. Am. A / Multidimensional digital image representations using generalized Kaiser-Bessel window functions by Lewitt (1990)
10.1088/0031-9155/37/3/015 / Phys. Med. Biol. / Alternatives to voxels for image representation in iterative reconstruction algorithms by Lewitt (1992)
10.1038/sj.onc.1206649 / Oncogene / Electron microscopy and 3D reconstructions reveal that human ATM kinase uses an arm-like domain to clamp around double-stranded DNA by Llorca (2003)
{'key': '10.1016/j.jsb.2004.06.006_bib40', 'first-page': '639', 'article-title': '3D reconstruction of the ATP-bound form of CCT reveals assymetric folding conformation of a type II chaperonin', 'volume': '7', 'author': 'Llorca', 'year': '1999', 'journal-title': 'Nat. Struct. Biol.'} / Nat. Struct. Biol. / 3D reconstruction of the ATP-bound form of CCT reveals assymetric folding conformation of a type II chaperonin by Llorca (1999)
10.1006/jsbi.1999.4174 / J. Struct. Biol. / EMAN: semiautomated software for high-resolution single-particle reconstructions by Ludtke (1999)
10.1006/jmbi.2001.5133 / J. Mol. Biol. / A 11.5 single particle reconstruction of GroEL using EMAN by Ludtke (2001)
10.1016/S1097-2765(00)80421-9 / Mol. Cell / Cryo-electron microscopy reveals the functional organization of an enveloped virus, Semliki Forest virus by Mancini (2000)
10.1016/S0969-2126(97)00229-3 / Structure / High-resolution icosahedral reconstruction: fulfilling the promise of cryo-electron microscopy by Mancini (1997)
10.1016/S0006-3495(94)80974-9 / Biophys. J. / Pattern recognition and classification of images of biological macromolecules using artificial neural networks by Marabini (1994)
10.1016/S0304-3991(97)00127-7 / Ultramicroscopy / 3D reconstruction in electron microscopy using ART with smooth spherically symmetric volume elements (blobs) by Marabini (1998)
10.1006/jsbi.1996.0036 / J. Struct. Biol. / Xmipp: An image processing package for electron microscopy by Marabini (1996)
10.1006/jsbi.1997.3923 / J. Struct. Biol. / Three-dimensional reconstruction from reduced sets of very noisy images acquired following a single-axis tilt schema: application of a new three-dimensional reconstruction algorithm and objective comparison with weighted backprojection by Marabini (1997)
Marabini, R., Sorzano, C.O.S., Fernández, J.J., Matej, S., Carazo, J.M., Herman, G.T., 2002. 3D reconstruction of 2D crystals from projections in real space. In: Proc. of the 1st International Symposium on Biomedical Imaging. Washington, pp. 689–692 (10.1109/ISBI.2002.1029351)
10.1109/TIP.2003.822620 / IEEE Trans. Image Process. / 3D reconstruction of 2D crystals by Marabini (2004)
10.1002/cpe.592 / Concurr. Comput.: Practice Experience / Space-time tradeoffs for parallel 3D reconstruction algorithms for virus-structure determination by Marinescu (2001)
10.1109/23.467854 / IEEE Trans. Nuclear Sci. / Efficient 3D grids for image reconstruction using spherically symmetric volume elements by Matej (1995)
10.1016/S0248-4900(03)00086-8 / Biol. Cell / Use of cryo-negative staining in tomographic reconstruction of biological objects: application to T4 bacteriophage by Messaoudi (2003)
10.1016/S1047-8477(03)00069-8 / J. Struct. Biol. / Accurate determination of local defocus and specimen tilt in electron microscopy by Mindell (2003)
10.1006/jmbi.2000.3635 / J. Molecular Biology / The 3D arrangement of the 23S and 5S rRNA in the Escherichia coli 50S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5Å resolution by Mueller (2000)
10.1074/jbc.M303798200 / J. Biol. Chem. / Assembly of archaeal cell division protein FtsZ and a GTPase-inactive mutant into double-stranded filaments by Oliva (2003)
10.1016/S0304-3991(00)00022-X / Ultramicroscopy / Mapping and fuzzy classification of macromolecular images using self organizing neural networks by Pascual (2000)
10.1016/S0031-3203(00)00167-9 / Pattern Recognit. / Smoothly distributed fuzzy c-means: a new self-organizing map by Pascual-Marqui (2001)
10.1006/jsbi.2001.4369 / J. Struct. Biol. / A novel neural network technique for analysis and classification of EM single-particle images by Pascual-Montano (2001)
10.1016/S1047-8477(02)00008-4 / J. Struct. Biol. / Quantitative self-organizing maps for clustering electron tomograms by Pascual-Montano (2002)
10.1016/S0743-7315(03)00061-3 / J. Par. Distr. Comp. / The telescience portal for tomography applications by Peltier (2003)
10.1016/0304-3991(94)90038-8 / Ultramicroscopy / The ribosome at improved resolution: new techniques for merging and orientation refinement in 3D cryo-electron microscopy of biological particles by Penczek (1994)
10.1021/bi026876v / Biochemistry / Isolation, characterization and electron microscopic single particle analysis of the NADH:ubiquinone oxidoreductase (complex I) from the hyperthermophilic eubacterium Aquifex aeolicus by Peng (2003)
10.1016/0304-3991(94)90003-5 / Ultramicroscopy / Three-dimensional reconstruction from random projections-orientational alignment via radon transforms by Radermacher (1994)
10.1074/jbc.M208623200 / J. Biol. Chem. / Resolution of the VI ATPase from Manduca sexta into subcomplexes and visualization of an ATPase-active A3B3EG complex by electron microscopy by Rizzo (2003)
10.1016/S0079-6107(01)00004-9 / Progr. Biophys. Mol. Biol. / Determining the structure of biological macromolecules by transmission electron microscopy, single particle analysis and 3D reconstruction by Ruprecht (2001)
10.1006/jsbi.2001.4330 / J. Struct. Biol. / Fourier amplitude decay of electron cryomicroscopic images of single particles and effects on structure determination by Saad (2001)
10.1109/T-C.1969.222678 / IEEE Trans. Comput. / A nonlinear mapping for data structure analysis by Sammon (1969)
10.1016/S0969-2126(98)00051-3 / Struct. Fold. Design / Three-dimensional reconstructions from cryoelectron microscopy images reveal an intimate complex between helicase DnaB and its loading partner DnaC by San Martín (1998)
10.1073/pnas.0437992100 / Proc. Natl. Acad. Sci. USA / Nanodissection and high-resolution imaging of the Rhodopseudomonas viridis photosynthetic core complex in native membranes by AFM. Atomic force microscopy by Scheuring (2003)
10.1083/jcb.200210060 / J. Cell Biol. / Characterization of the translocon of the outer envelope of chloroplasts by Schleiff (2003)
10.1016/j.jsb.2004.01.006 / J. Struct. Biol. / A multiresolution approach to pose assignment in 3-D electron microscopy of single particles by Sorzano (2004)
10.1006/jsbi.2001.4338 / J. Struct. Biol. / The effect of overabundant projection directions on 3D reconstruction algorithms by Sorzano (2001)
Sorzano, C.O.S., Marabini, R., Fernández, J.J., Velázquez-Muriel, J.A., Herman, G.T., Carazo, J.M., 2002a. New reconstruction conditions greatly improve the reconstruction quality. In: Proc. of the 15th International Conference on Electron Microscopy (ICEM). Durban, South Africa, pp. 431–432
Sorzano, C.O.S., Marabini, R., Herman, G.T., Carazo, J.M., 2002b. Volumetric constraints in 3D tomography applied to electron microscopy. In: Proc. of the 1st International Symposium on Biomedical Imaging. Washington, USA, pp. 641–644 (10.1109/ISBI.2002.1029339)
10.1088/0031-9155/49/4/003 / Phys. Med. Biol. / Transfer function restoration in 3D electron microscopy via iterative data refinement by Sorzano (2004)
10.1515/zna-1966-0417 / Z. Naturforsch / Zur defokussierungsabhängigkeit des phasenkontrastes bei der elektronen-mikroskopischen abbildung by Thon (1966)
10.1016/0304-3991(93)90179-2 / Ultramicroscopy / Contrast transfer for frozen-hydrated specimens II: amplitude contrast at very low frequencies by Toyoshima (1993)
10.1109/34.75515 / IEEE Trans. Pattern Anal. Mach. Intell. / Fast B-spline transforms for continuous image representation and interpolation by Unser (1991)
10.1111/j.1365-2818.1973.tb03834.x / J. Microsc. / Phase contrast electron microscopy of biological materials by Unwin (1973)
{'key': '10.1016/j.jsb.2004.06.006_bib81', 'first-page': '187', 'article-title': 'Use of multivariate statistical statistics in analysing the images of biological macromolecules', 'volume': '6', 'author': 'van Heel', 'year': '1981', 'journal-title': 'Ultramicroscopy'} / Ultramicroscopy / Use of multivariate statistical statistics in analysing the images of biological macromolecules by van Heel (1981)
10.1006/jsbi.1996.0004 / J. Struct. Biol. / A new generation of the IMAGIC image processing system by van Heel (1996)
10.1016/S0304-3991(02)00377-7 / Ultramicroscopy / A method for estimating the CTF in electron microscopy based on ARMA models and parameter adjusting by Velázquez-Muriel (2003)
10.1016/0304-3991(92)90011-8 / Ultramicroscopy / A brief look at imaging and contrast transfer by Wade (1992)
10.1006/jsbi.1996.0033 / J. Struct. Biol. / CTF determination of images of ice-embedded single particles using a graphics interface by Zhou (1996)
10.1074/jbc.M302713200 / J. Biol. Chem. / Functional implications from an unexpected position of the 49-kDa subunit of NADH:ubiquinone oxidoreductase by Zickermann (2003)
10.1088/0266-5611/19/4/310 / Inverse Probl. / Three-dimensional reconstruction by Chahine’s method from electron microscopic projections corrupted by instrumental aberrations by Zubelli (2003)

Dates

Type	When
Created	21 years ago (Aug. 17, 2004, 9:09 a.m.)
Deposited	8 months, 1 week ago (Dec. 18, 2024, 3:44 a.m.)
Indexed	1 week, 2 days ago (Aug. 19, 2025, 6:31 a.m.)
Issued	20 years, 9 months ago (Nov. 1, 2004)
Published	20 years, 9 months ago (Nov. 1, 2004)
Published Print	20 years, 9 months ago (Nov. 1, 2004)

Funders 0

None

BibTeX

@article{Sorzano_2004, title={XMIPP: a new generation of an open-source image processing package for electron microscopy}, volume={148}, ISSN={1047-8477}, url={http://dx.doi.org/10.1016/j.jsb.2004.06.006}, DOI={10.1016/j.jsb.2004.06.006}, number={2}, journal={Journal of Structural Biology}, publisher={Elsevier BV}, author={Sorzano, C.O.S. and Marabini, R. and Velázquez-Muriel, J. and Bilbao-Castro, J.R. and Scheres, S.H.W. and Carazo, J.M. and Pascual-Montano, A.}, year={2004}, month=nov, pages={194–204} }

JSON

{
  "indexed": {
    "date-parts": [
      [
        2025,
        8,
        19
      ]
    ],
    "date-time": "2025-08-19T10:31:47Z",
    "timestamp": 1755599507185,
    "version": "3.30.2"
  },
  "reference-count": 87,
  "publisher": "Elsevier BV",
  "issue": "2",
  "license": [
    {
      "start": {
        "date-parts": [
          [
            2004,
            11,
            1
          ]
        ],
        "date-time": "2004-11-01T00:00:00Z",
        "timestamp": 1099267200000
      },
      "content-version": "tdm",
      "delay-in-days": 0,
      "URL": "https://www.elsevier.com/tdm/userlicense/1.0/"
    }
  ],
  "content-domain": {
    "domain": [],
    "crossmark-restriction": false
  },
  "published-print": {
    "date-parts": [
      [
        2004,
        11
      ]
    ]
  },
  "DOI": "10.1016/j.jsb.2004.06.006",
  "type": "journal-article",
  "created": {
    "date-parts": [
      [
        2004,
        8,
        17
      ]
    ],
    "date-time": "2004-08-17T13:09:01Z",
    "timestamp": 1092748141000
  },
  "page": "194-204",
  "source": "Crossref",
  "is-referenced-by-count": 420,
  "title": "XMIPP: a new generation of an open-source image processing package for electron microscopy",
  "prefix": "10.1016",
  "volume": "148",
  "author": [
    {
      "given": "C.O.S.",
      "family": "Sorzano",
      "sequence": "first",
      "affiliation": []
    },
    {
      "given": "R.",
      "family": "Marabini",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "J.",
      "family": "Vel\u00e1zquez-Muriel",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "J.R.",
      "family": "Bilbao-Castro",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "S.H.W.",
      "family": "Scheres",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "J.M.",
      "family": "Carazo",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "A.",
      "family": "Pascual-Montano",
      "sequence": "additional",
      "affiliation": []
    }
  ],
  "member": "78",
  "reference": [
    {
      "key": "10.1016/j.jsb.2004.06.006_bib1",
      "doi-asserted-by": "crossref",
      "first-page": "81",
      "DOI": "10.1177/016173468400600107",
      "article-title": "Simultaneous algebraic reconstruction technique (SART): a superior implementation of the ART algorithm",
      "volume": "6",
      "author": "Andersen",
      "year": "1984",
      "journal-title": "Ultrasonic Imag."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib2",
      "doi-asserted-by": "crossref",
      "first-page": "308",
      "DOI": "10.1073/pnas.0307127101",
      "article-title": "3D structure of the influenza virus polymerase complex: localization of subunit domains",
      "volume": "101",
      "author": "Area",
      "year": "2004",
      "journal-title": "Proc. Natl. Acad. Sci. USA"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib3",
      "doi-asserted-by": "crossref",
      "first-page": "1462",
      "DOI": "10.1093/emboj/20.6.1462",
      "article-title": "The DnaB\u2013DnaC complex: a structure based on interactions among assymetric dimers",
      "volume": "20",
      "author": "B\u00e1rcena",
      "year": "2001",
      "journal-title": "EMBO J."
    },
    {
      "year": "1981",
      "series-title": "Pattern Recognition with Fuzzy Objective Function Algorithms",
      "author": "Bezdek",
      "key": "10.1016/j.jsb.2004.06.006_bib4"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib5",
      "doi-asserted-by": "crossref",
      "unstructured": "Bilbao-Castro, J.R., Carazo, J.M., Garc\u00eda, I., Fern\u00e1ndez, J.J., 2003. Parallel iterative reconstruction methods for structure determination of biological specimens by electron microscopy. In: Proc. of IEEE Intl. Congress on Image Processing. vol. 1. pp. 565\u2013568",
      "DOI": "10.1109/ICIP.2003.1247024"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib6",
      "doi-asserted-by": "crossref",
      "first-page": "5875",
      "DOI": "10.1093/emboj/cdg555",
      "article-title": "Visualization of DNA-induced conformational changes in the DNA repair kinase DNA-PKcs",
      "volume": "22",
      "author": "Boskovic",
      "year": "2003",
      "journal-title": "EMBO J."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib7",
      "doi-asserted-by": "crossref",
      "first-page": "187",
      "DOI": "10.1111/j.1365-2818.1990.tb02958.x",
      "article-title": "Fuzzy sets-based classification of electron microscopy images of biological macromolecules with an application to ribosomal particles",
      "volume": "157",
      "author": "Carazo",
      "year": "1990",
      "journal-title": "J. Microsc."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib8",
      "series-title": "Inherently Parallel Algorithms in Feasibility and Optimization and Their Applications",
      "first-page": "101",
      "article-title": "Averaging strings of sequential iterations for convex feasibility problems",
      "author": "Censor",
      "year": "2000"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib9",
      "doi-asserted-by": "crossref",
      "first-page": "1050",
      "DOI": "10.1109/42.959302",
      "article-title": "BICAV: A block-iterative parallel algorithm for sparse systems with pixel-related weighting",
      "volume": "20",
      "author": "Censor",
      "year": "2001",
      "journal-title": "IEEE Trans. Med. Imag."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib10",
      "doi-asserted-by": "crossref",
      "first-page": "777",
      "DOI": "10.1016/S0167-8191(00)00100-9",
      "article-title": "Component averaging: an efficient iterative parallel algorithm for large and sparse unstructured problems",
      "volume": "27",
      "author": "Censor",
      "year": "2001",
      "journal-title": "Parallel computing"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib11",
      "doi-asserted-by": "crossref",
      "first-page": "123",
      "DOI": "10.1016/0022-2836(71)90452-9",
      "article-title": "Harmonic analysis of electron microscope images with rotational symmetry",
      "volume": "60",
      "author": "Crowther",
      "year": "1971",
      "journal-title": "J. Mol. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib12",
      "doi-asserted-by": "crossref",
      "first-page": "9",
      "DOI": "10.1006/jsbi.1996.0003",
      "article-title": "MRC image processing programs",
      "volume": "116",
      "author": "Crowther",
      "year": "1996",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib13",
      "doi-asserted-by": "crossref",
      "first-page": "619",
      "DOI": "10.1016/S0006-3495(02)75196-5",
      "article-title": "Modeling shape and topology of low-resolution density maps of biological macromolecules",
      "volume": "83",
      "author": "de Alarc\u00f3n",
      "year": "2002",
      "journal-title": "Biophys. J."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib14",
      "doi-asserted-by": "crossref",
      "first-page": "20",
      "DOI": "10.1006/jsbi.2001.4422",
      "article-title": "Correlation of topographic surface and volume data from 3D electron microscopy",
      "volume": "136",
      "author": "Dimmeler",
      "year": "2001",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib15",
      "doi-asserted-by": "crossref",
      "first-page": "715",
      "DOI": "10.1038/78929",
      "article-title": "Observing single biomolecules at work with the atomic force microscope",
      "volume": "7",
      "author": "Engel",
      "year": "2000",
      "journal-title": "Nat. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib16",
      "doi-asserted-by": "crossref",
      "first-page": "6",
      "DOI": "10.1016/S1047-8477(02)00017-5",
      "article-title": "High performance electron tomography of complex biological specimens",
      "volume": "138",
      "author": "Fern\u00e1ndez",
      "year": "2002",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib17",
      "doi-asserted-by": "crossref",
      "first-page": "11995",
      "DOI": "10.1074/jbc.M212198200",
      "article-title": "Three-dimensional reconstruction of the Saccharomyces cerevisiae multidrug resistance protein Pdr5p",
      "volume": "278",
      "author": "Ferreira-Pereira",
      "year": "2003",
      "journal-title": "J. Biological Chemistry"
    },
    {
      "year": "1996",
      "series-title": "Three Dimensional Electron Microscopy of Macromolecular Assemblies",
      "author": "Frank",
      "key": "10.1016/j.jsb.2004.06.006_bib18"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib19",
      "doi-asserted-by": "crossref",
      "first-page": "303",
      "DOI": "10.1146/annurev.biophys.31.082901.134202",
      "article-title": "Single-particle imaging of macromolecules by cryo-electron microscopy",
      "author": "Frank",
      "year": "2002",
      "journal-title": "Ann. Rev. Biophy. Biomol. Struct."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib20",
      "doi-asserted-by": "crossref",
      "first-page": "190",
      "DOI": "10.1006/jsbi.1996.0030",
      "article-title": "SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields",
      "volume": "116",
      "author": "Frank",
      "year": "1996",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib21",
      "doi-asserted-by": "crossref",
      "first-page": "12",
      "DOI": "10.1002/1361-6374(199503)3:1<12::AID-BIO2>3.3.CO;2-U",
      "article-title": "Reconstruction and representation of surface data from two-dimensional crystalline biological macromolecules",
      "volume": "3",
      "author": "Fuchs",
      "year": "1995",
      "journal-title": "Bioimaging"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib22",
      "doi-asserted-by": "crossref",
      "first-page": "537",
      "DOI": "10.1016/S0092-8674(00)80690-X",
      "article-title": "Solution structure of the E. coli 70S ribosome at 11.5\u00c5 resolution",
      "volume": "100",
      "author": "Gabashvili",
      "year": "2000",
      "journal-title": "Cell"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib23",
      "doi-asserted-by": "crossref",
      "first-page": "169",
      "DOI": "10.1016/S0304-3991(02)00157-2",
      "article-title": "An assay for local quality in cryo-electro micrographs of single particles",
      "volume": "93",
      "author": "Gao",
      "year": "2002",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib24",
      "article-title": "Optimization of basis functions for both reconstruction and visualization",
      "volume": "vol. 46",
      "author": "Gardu\u00f1o",
      "year": "2001"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib25",
      "doi-asserted-by": "crossref",
      "first-page": "105",
      "DOI": "10.1016/0022-5193(72)90180-4",
      "article-title": "Iterative methods for the three-dimensional reconstruction of an object from projections",
      "volume": "36",
      "author": "Gilbert",
      "year": "1972",
      "journal-title": "J. Theor. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib26",
      "unstructured": "G\u00f3mez-Lorenzo, M.G., Valle, M., Donate, L.E., Gruss, C., B\u00e1rcena, M., Sorzano, C.O.S., Frank, J., Carazo, J.M., 2002. Structural studies of SV40 large T-antigen on the origin of replication. In: Proc. of the 15th International Conference on Electron Microscopy (ICEM). Durban, South Africa"
    },
    {
      "year": "1999",
      "series-title": "Using MPI: Portable Parallel Programming with the Message Passing Interface",
      "author": "Gropp",
      "key": "10.1016/j.jsb.2004.06.006_bib27"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib28",
      "doi-asserted-by": "crossref",
      "first-page": "6205",
      "DOI": "10.1093/emboj/cdg612",
      "article-title": "Large T antigen on the simian virus 40 origin of replication: a 3D snapshot prior to DNA replication",
      "volume": "22",
      "author": "G\u00f3mez-Lorenzo",
      "year": "2003",
      "journal-title": "EMBO J."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib29",
      "doi-asserted-by": "crossref",
      "first-page": "52881",
      "DOI": "10.1074/jbc.M309743200",
      "article-title": "Three-dimensional rearrangements within inositol 1,4,5-trisphosphate receptor by calcium",
      "volume": "278",
      "author": "Hamada",
      "year": "2003",
      "journal-title": "J. Biol. Chem."
    },
    {
      "year": "1980",
      "series-title": "Image Reconstruction from Projections: The Fundamentals of Computerized Tomography",
      "author": "Herman",
      "key": "10.1016/j.jsb.2004.06.006_bib30"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib31",
      "doi-asserted-by": "crossref",
      "first-page": "79",
      "DOI": "10.1016/j.jsb.2003.10.011",
      "article-title": "Automated determination of parameters describing power spectra of micrograph images in electron microscopy",
      "volume": "144",
      "author": "Huang",
      "year": "2003",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib32",
      "doi-asserted-by": "crossref",
      "unstructured": "Joni\u0107, S., Th\u00e9venaz, P., Unser, M., 2003. Multiresolution-based registration of a volume to a set of its projections. In: Proc. of the SPIE Symposium on Medical Imaging. vol. 5032. San Diego, pp. 1049\u20131052",
      "DOI": "10.1117/12.480241"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib33",
      "doi-asserted-by": "crossref",
      "first-page": "33",
      "DOI": "10.1016/S1047-8477(03)00115-1",
      "article-title": "Revisiting the structure of Alvinella pompejana hemoglobin at 20\u00c5 resolution by cryoelectron microscopy",
      "volume": "143",
      "author": "Jouan",
      "year": "2003",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib34",
      "doi-asserted-by": "crossref",
      "first-page": "59",
      "DOI": "10.1007/BF00337288",
      "article-title": "Self-organized formation of topologically correct feature maps",
      "volume": "43",
      "author": "Kohonen",
      "year": "1982",
      "journal-title": "Biol. Cybernet."
    },
    {
      "year": "1997",
      "series-title": "Self-organizing Maps",
      "author": "Kohonen",
      "key": "10.1016/j.jsb.2004.06.006_bib35"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib36",
      "doi-asserted-by": "crossref",
      "first-page": "1",
      "DOI": "10.1016/S0925-2312(98)00030-7",
      "article-title": "The self-organizing maps",
      "volume": "21",
      "author": "Kohonen",
      "year": "1998",
      "journal-title": "Neurocomputing"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib37",
      "doi-asserted-by": "crossref",
      "first-page": "1834",
      "DOI": "10.1364/JOSAA.7.001834",
      "article-title": "Multidimensional digital image representations using generalized Kaiser-Bessel window functions",
      "volume": "7",
      "author": "Lewitt",
      "year": "1990",
      "journal-title": "J. Opt. Soc. Am. A"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib38",
      "doi-asserted-by": "crossref",
      "first-page": "705",
      "DOI": "10.1088/0031-9155/37/3/015",
      "article-title": "Alternatives to voxels for image representation in iterative reconstruction algorithms",
      "volume": "37",
      "author": "Lewitt",
      "year": "1992",
      "journal-title": "Phys. Med. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib39",
      "doi-asserted-by": "crossref",
      "first-page": "3867",
      "DOI": "10.1038/sj.onc.1206649",
      "article-title": "Electron microscopy and 3D reconstructions reveal that human ATM kinase uses an arm-like domain to clamp around double-stranded DNA",
      "volume": "22",
      "author": "Llorca",
      "year": "2003",
      "journal-title": "Oncogene"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib40",
      "first-page": "639",
      "article-title": "3D reconstruction of the ATP-bound form of CCT reveals assymetric folding conformation of a type II chaperonin",
      "volume": "7",
      "author": "Llorca",
      "year": "1999",
      "journal-title": "Nat. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib41",
      "doi-asserted-by": "crossref",
      "first-page": "82",
      "DOI": "10.1006/jsbi.1999.4174",
      "article-title": "EMAN: semiautomated software for high-resolution single-particle reconstructions",
      "volume": "128",
      "author": "Ludtke",
      "year": "1999",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib42",
      "doi-asserted-by": "crossref",
      "first-page": "253",
      "DOI": "10.1006/jmbi.2001.5133",
      "article-title": "A 11.5 single particle reconstruction of GroEL using EMAN",
      "volume": "314",
      "author": "Ludtke",
      "year": "2001",
      "journal-title": "J. Mol. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib43",
      "doi-asserted-by": "crossref",
      "first-page": "255",
      "DOI": "10.1016/S1097-2765(00)80421-9",
      "article-title": "Cryo-electron microscopy reveals the functional organization of an enveloped virus, Semliki Forest virus",
      "volume": "5",
      "author": "Mancini",
      "year": "2000",
      "journal-title": "Mol. Cell"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib44",
      "doi-asserted-by": "crossref",
      "first-page": "741",
      "DOI": "10.1016/S0969-2126(97)00229-3",
      "article-title": "High-resolution icosahedral reconstruction: fulfilling the promise of cryo-electron microscopy",
      "volume": "5",
      "author": "Mancini",
      "year": "1997",
      "journal-title": "Structure"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib45",
      "doi-asserted-by": "crossref",
      "first-page": "1804",
      "DOI": "10.1016/S0006-3495(94)80974-9",
      "article-title": "Pattern recognition and classification of images of biological macromolecules using artificial neural networks",
      "volume": "66",
      "author": "Marabini",
      "year": "1994",
      "journal-title": "Biophys. J."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib46",
      "doi-asserted-by": "crossref",
      "first-page": "53",
      "DOI": "10.1016/S0304-3991(97)00127-7",
      "article-title": "3D reconstruction in electron microscopy using ART with smooth spherically symmetric volume elements (blobs)",
      "volume": "72",
      "author": "Marabini",
      "year": "1998",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib47",
      "doi-asserted-by": "crossref",
      "first-page": "237",
      "DOI": "10.1006/jsbi.1996.0036",
      "article-title": "Xmipp: An image processing package for electron microscopy",
      "volume": "116",
      "author": "Marabini",
      "year": "1996",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib48",
      "doi-asserted-by": "crossref",
      "first-page": "363",
      "DOI": "10.1006/jsbi.1997.3923",
      "article-title": "Three-dimensional reconstruction from reduced sets of very noisy images acquired following a single-axis tilt schema: application of a new three-dimensional reconstruction algorithm and objective comparison with weighted backprojection",
      "volume": "120",
      "author": "Marabini",
      "year": "1997",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib49",
      "doi-asserted-by": "crossref",
      "unstructured": "Marabini, R., Sorzano, C.O.S., Fern\u00e1ndez, J.J., Matej, S., Carazo, J.M., Herman, G.T., 2002. 3D reconstruction of 2D crystals from projections in real space. In: Proc. of the 1st International Symposium on Biomedical Imaging. Washington, pp. 689\u2013692",
      "DOI": "10.1109/ISBI.2002.1029351"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib50",
      "doi-asserted-by": "crossref",
      "first-page": "549",
      "DOI": "10.1109/TIP.2003.822620",
      "article-title": "3D reconstruction of 2D crystals",
      "volume": "13",
      "author": "Marabini",
      "year": "2004",
      "journal-title": "IEEE Trans. Image Process."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib51",
      "doi-asserted-by": "crossref",
      "first-page": "1083",
      "DOI": "10.1002/cpe.592",
      "article-title": "Space-time tradeoffs for parallel 3D reconstruction algorithms for virus-structure determination",
      "volume": "13",
      "author": "Marinescu",
      "year": "2001",
      "journal-title": "Concurr. Comput.: Practice Experience"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib52",
      "doi-asserted-by": "crossref",
      "first-page": "1361",
      "DOI": "10.1109/23.467854",
      "article-title": "Efficient 3D grids for image reconstruction using spherically symmetric volume elements",
      "volume": "42",
      "author": "Matej",
      "year": "1995",
      "journal-title": "IEEE Trans. Nuclear Sci."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib53",
      "doi-asserted-by": "crossref",
      "first-page": "393",
      "DOI": "10.1016/S0248-4900(03)00086-8",
      "article-title": "Use of cryo-negative staining in tomographic reconstruction of biological objects: application to T4 bacteriophage",
      "volume": "95",
      "author": "Messaoudi",
      "year": "2003",
      "journal-title": "Biol. Cell"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib54",
      "doi-asserted-by": "crossref",
      "first-page": "334",
      "DOI": "10.1016/S1047-8477(03)00069-8",
      "article-title": "Accurate determination of local defocus and specimen tilt in electron microscopy",
      "volume": "142",
      "author": "Mindell",
      "year": "2003",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib55",
      "doi-asserted-by": "crossref",
      "first-page": "35",
      "DOI": "10.1006/jmbi.2000.3635",
      "article-title": "The 3D arrangement of the 23S and 5S rRNA in the Escherichia coli 50S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5\u00c5 resolution",
      "volume": "298",
      "author": "Mueller",
      "year": "2000",
      "journal-title": "J. Molecular Biology"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib56",
      "doi-asserted-by": "crossref",
      "first-page": "33562",
      "DOI": "10.1074/jbc.M303798200",
      "article-title": "Assembly of archaeal cell division protein FtsZ and a GTPase-inactive mutant into double-stranded filaments",
      "volume": "278",
      "author": "Oliva",
      "year": "2003",
      "journal-title": "J. Biol. Chem."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib57",
      "doi-asserted-by": "crossref",
      "first-page": "85",
      "DOI": "10.1016/S0304-3991(00)00022-X",
      "article-title": "Mapping and fuzzy classification of macromolecular images using self organizing neural networks",
      "volume": "84",
      "author": "Pascual",
      "year": "2000",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib58",
      "doi-asserted-by": "crossref",
      "first-page": "2395",
      "DOI": "10.1016/S0031-3203(00)00167-9",
      "article-title": "Smoothly distributed fuzzy c-means: a new self-organizing map",
      "volume": "34",
      "author": "Pascual-Marqui",
      "year": "2001",
      "journal-title": "Pattern Recognit."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib59",
      "doi-asserted-by": "crossref",
      "first-page": "233",
      "DOI": "10.1006/jsbi.2001.4369",
      "article-title": "A novel neural network technique for analysis and classification of EM single-particle images",
      "volume": "133",
      "author": "Pascual-Montano",
      "year": "2001",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib60",
      "doi-asserted-by": "crossref",
      "first-page": "114",
      "DOI": "10.1016/S1047-8477(02)00008-4",
      "article-title": "Quantitative self-organizing maps for clustering electron tomograms",
      "volume": "138",
      "author": "Pascual-Montano",
      "year": "2002",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib61",
      "doi-asserted-by": "crossref",
      "first-page": "539",
      "DOI": "10.1016/S0743-7315(03)00061-3",
      "article-title": "The telescience portal for tomography applications",
      "volume": "63",
      "author": "Peltier",
      "year": "2003",
      "journal-title": "J. Par. Distr. Comp."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib62",
      "doi-asserted-by": "crossref",
      "first-page": "251",
      "DOI": "10.1016/0304-3991(94)90038-8",
      "article-title": "The ribosome at improved resolution: new techniques for merging and orientation refinement in 3D cryo-electron microscopy of biological particles",
      "volume": "53",
      "author": "Penczek",
      "year": "1994",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib63",
      "doi-asserted-by": "crossref",
      "first-page": "3032",
      "DOI": "10.1021/bi026876v",
      "article-title": "Isolation, characterization and electron microscopic single particle analysis of the NADH:ubiquinone oxidoreductase (complex I) from the hyperthermophilic eubacterium Aquifex aeolicus",
      "volume": "42",
      "author": "Peng",
      "year": "2003",
      "journal-title": "Biochemistry"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib64",
      "doi-asserted-by": "crossref",
      "first-page": "121",
      "DOI": "10.1016/0304-3991(94)90003-5",
      "article-title": "Three-dimensional reconstruction from random projections-orientational alignment via radon transforms",
      "volume": "53",
      "author": "Radermacher",
      "year": "1994",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib65",
      "doi-asserted-by": "crossref",
      "first-page": "270",
      "DOI": "10.1074/jbc.M208623200",
      "article-title": "Resolution of the VI ATPase from Manduca sexta into subcomplexes and visualization of an ATPase-active A3B3EG complex by electron microscopy",
      "volume": "278",
      "author": "Rizzo",
      "year": "2003",
      "journal-title": "J. Biol. Chem."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib66",
      "doi-asserted-by": "crossref",
      "first-page": "121",
      "DOI": "10.1016/S0079-6107(01)00004-9",
      "article-title": "Determining the structure of biological macromolecules by transmission electron microscopy, single particle analysis and 3D reconstruction",
      "volume": "75",
      "author": "Ruprecht",
      "year": "2001",
      "journal-title": "Progr. Biophys. Mol. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib67",
      "doi-asserted-by": "crossref",
      "first-page": "32",
      "DOI": "10.1006/jsbi.2001.4330",
      "article-title": "Fourier amplitude decay of electron cryomicroscopic images of single particles and effects on structure determination",
      "volume": "133",
      "author": "Saad",
      "year": "2001",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib68",
      "doi-asserted-by": "crossref",
      "first-page": "401",
      "DOI": "10.1109/T-C.1969.222678",
      "article-title": "A nonlinear mapping for data structure analysis",
      "volume": "18",
      "author": "Sammon",
      "year": "1969",
      "journal-title": "IEEE Trans. Comput."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib69",
      "doi-asserted-by": "crossref",
      "first-page": "501",
      "DOI": "10.1016/S0969-2126(98)00051-3",
      "article-title": "Three-dimensional reconstructions from cryoelectron microscopy images reveal an intimate complex between helicase DnaB and its loading partner DnaC",
      "volume": "6",
      "author": "San Mart\u00edn",
      "year": "1998",
      "journal-title": "Struct. Fold. Design"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib70",
      "doi-asserted-by": "crossref",
      "first-page": "1690",
      "DOI": "10.1073/pnas.0437992100",
      "article-title": "Nanodissection and high-resolution imaging of the Rhodopseudomonas viridis photosynthetic core complex in native membranes by AFM. Atomic force microscopy",
      "volume": "100",
      "author": "Scheuring",
      "year": "2003",
      "journal-title": "Proc. Natl. Acad. Sci. USA"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib71",
      "doi-asserted-by": "crossref",
      "first-page": "541",
      "DOI": "10.1083/jcb.200210060",
      "article-title": "Characterization of the translocon of the outer envelope of chloroplasts",
      "volume": "160",
      "author": "Schleiff",
      "year": "2003",
      "journal-title": "J. Cell Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib72",
      "doi-asserted-by": "crossref",
      "first-page": "381",
      "DOI": "10.1016/j.jsb.2004.01.006",
      "article-title": "A multiresolution approach to pose assignment in 3-D electron microscopy of single particles",
      "volume": "146",
      "author": "Sorzano",
      "year": "2004",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib73",
      "doi-asserted-by": "crossref",
      "first-page": "108",
      "DOI": "10.1006/jsbi.2001.4338",
      "article-title": "The effect of overabundant projection directions on 3D reconstruction algorithms",
      "volume": "133",
      "author": "Sorzano",
      "year": "2001",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib74",
      "unstructured": "Sorzano, C.O.S., Marabini, R., Fern\u00e1ndez, J.J., Vel\u00e1zquez-Muriel, J.A., Herman, G.T., Carazo, J.M., 2002a. New reconstruction conditions greatly improve the reconstruction quality. In: Proc. of the 15th International Conference on Electron Microscopy (ICEM). Durban, South Africa, pp. 431\u2013432"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib75",
      "doi-asserted-by": "crossref",
      "unstructured": "Sorzano, C.O.S., Marabini, R., Herman, G.T., Carazo, J.M., 2002b. Volumetric constraints in 3D tomography applied to electron microscopy. In: Proc. of the 1st International Symposium on Biomedical Imaging. Washington, USA, pp. 641\u2013644",
      "DOI": "10.1109/ISBI.2002.1029339"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib76",
      "doi-asserted-by": "crossref",
      "first-page": "509",
      "DOI": "10.1088/0031-9155/49/4/003",
      "article-title": "Transfer function restoration in 3D electron microscopy via iterative data refinement",
      "volume": "49",
      "author": "Sorzano",
      "year": "2004",
      "journal-title": "Phys. Med. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib77",
      "doi-asserted-by": "crossref",
      "first-page": "476",
      "DOI": "10.1515/zna-1966-0417",
      "article-title": "Zur defokussierungsabh\u00e4ngigkeit des phasenkontrastes bei der elektronen-mikroskopischen abbildung",
      "volume": "21a",
      "author": "Thon",
      "year": "1966",
      "journal-title": "Z. Naturforsch"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib78",
      "doi-asserted-by": "crossref",
      "first-page": "165",
      "DOI": "10.1016/0304-3991(93)90179-2",
      "article-title": "Contrast transfer for frozen-hydrated specimens II: amplitude contrast at very low frequencies",
      "volume": "48",
      "author": "Toyoshima",
      "year": "1993",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib79",
      "doi-asserted-by": "crossref",
      "first-page": "277",
      "DOI": "10.1109/34.75515",
      "article-title": "Fast B-spline transforms for continuous image representation and interpolation",
      "volume": "13",
      "author": "Unser",
      "year": "1991",
      "journal-title": "IEEE Trans. Pattern Anal. Mach. Intell."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib80",
      "doi-asserted-by": "crossref",
      "first-page": "299",
      "DOI": "10.1111/j.1365-2818.1973.tb03834.x",
      "article-title": "Phase contrast electron microscopy of biological materials",
      "volume": "98",
      "author": "Unwin",
      "year": "1973",
      "journal-title": "J. Microsc."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib81",
      "first-page": "187",
      "article-title": "Use of multivariate statistical statistics in analysing the images of biological macromolecules",
      "volume": "6",
      "author": "van Heel",
      "year": "1981",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib82",
      "doi-asserted-by": "crossref",
      "first-page": "17",
      "DOI": "10.1006/jsbi.1996.0004",
      "article-title": "A new generation of the IMAGIC image processing system",
      "volume": "116",
      "author": "van Heel",
      "year": "1996",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib83",
      "doi-asserted-by": "crossref",
      "first-page": "17",
      "DOI": "10.1016/S0304-3991(02)00377-7",
      "article-title": "A method for estimating the CTF in electron microscopy based on ARMA models and parameter adjusting",
      "volume": "96",
      "author": "Vel\u00e1zquez-Muriel",
      "year": "2003",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib84",
      "doi-asserted-by": "crossref",
      "first-page": "145",
      "DOI": "10.1016/0304-3991(92)90011-8",
      "article-title": "A brief look at imaging and contrast transfer",
      "volume": "46",
      "author": "Wade",
      "year": "1992",
      "journal-title": "Ultramicroscopy"
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib85",
      "doi-asserted-by": "crossref",
      "first-page": "216",
      "DOI": "10.1006/jsbi.1996.0033",
      "article-title": "CTF determination of images of ice-embedded single particles using a graphics interface",
      "volume": "116",
      "author": "Zhou",
      "year": "1996",
      "journal-title": "J. Struct. Biol."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib86",
      "doi-asserted-by": "crossref",
      "first-page": "29072",
      "DOI": "10.1074/jbc.M302713200",
      "article-title": "Functional implications from an unexpected position of the 49-kDa subunit of NADH:ubiquinone oxidoreductase",
      "volume": "278",
      "author": "Zickermann",
      "year": "2003",
      "journal-title": "J. Biol. Chem."
    },
    {
      "key": "10.1016/j.jsb.2004.06.006_bib87",
      "doi-asserted-by": "crossref",
      "first-page": "933",
      "DOI": "10.1088/0266-5611/19/4/310",
      "article-title": "Three-dimensional reconstruction by Chahine\u2019s method from electron microscopic projections corrupted by instrumental aberrations",
      "volume": "19",
      "author": "Zubelli",
      "year": "2003",
      "journal-title": "Inverse Probl."
    }
  ],
  "container-title": "Journal of Structural Biology",
  "original-title": [],
  "language": "en",
  "link": [
    {
      "URL": "https://api.elsevier.com/content/article/PII:S1047847704001261?httpAccept=text/xml",
      "content-type": "text/xml",
      "content-version": "vor",
      "intended-application": "text-mining"
    },
    {
      "URL": "https://api.elsevier.com/content/article/PII:S1047847704001261?httpAccept=text/plain",
      "content-type": "text/plain",
      "content-version": "vor",
      "intended-application": "text-mining"
    }
  ],
  "deposited": {
    "date-parts": [
      [
        2024,
        12,
        18
      ]
    ],
    "date-time": "2024-12-18T08:44:18Z",
    "timestamp": 1734511458000
  },
  "score": 1,
  "resource": {
    "primary": {
      "URL": "https://linkinghub.elsevier.com/retrieve/pii/S1047847704001261"
    }
  },
  "subtitle": [],
  "short-title": [],
  "issued": {
    "date-parts": [
      [
        2004,
        11
      ]
    ]
  },
  "references-count": 87,
  "journal-issue": {
    "issue": "2",
    "published-print": {
      "date-parts": [
        [
          2004,
          11
        ]
      ]
    }
  },
  "alternative-id": [
    "S1047847704001261"
  ],
  "URL": "http://dx.doi.org/10.1016/j.jsb.2004.06.006",
  "relation": {},
  "ISSN": [
    "1047-8477"
  ],
  "subject": [],
  "container-title-short": "Journal of Structural Biology",
  "published": {
    "date-parts": [
      [
        2004,
        11
      ]
    ]
  }
}