Methods And Systems For 3D Structure Estimation Using Non-Uniform Refinement - EP3692360

EP3692360

THE GOVERNING COUNCIL OF THE UNIVERSITY OF TORONTO
Application Number
EP18864247A
Filing Date
Oct 5, 2018
Status
Granted And Under Opposition
Aug 4, 2023
Grant Date
Sep 6, 2023
External Links
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The patent EP3692360B1 was granted to The Governing Council OF The University OF Toronto on Sep 6, 2023 following the initial filing on Oct 5, 2018 under the application number EP18864247A . The current legal status of the patent is Granted And Under Opposition.

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UNITED KINGDOM RESEARCH AND INNOVATIONJun 5, 2024ADMISSIBLE

Patent Citations New

Patent citations refer to prior patents cited during different phases such as opposition or international search.

Citation PhasePatent NumberPatent Link
INTERNATIONAL-SEARCH-REPORTCA2919271
INTERNATIONAL-SEARCH-REPORTEP2400982
INTERNATIONAL-SEARCH-REPORTUS2017103161
OPPOSITIONUS2017103161
SEARCHUS2017103161

Non-Patent Literature (NPL) Citations New

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Citation PhaseReference TextLink
EXAMINATION- SINDELAR CHARLES V ET AL, "Optimal noise reduction in 3D reconstructions of single particles using a volume-normalized filter", JOURNAL OF STRUCTURAL BIOLOGY, (20121001), vol. 180, no. 1, doi:10.1016/J.JSB.2012.05.005, ISSN 1047-8477, pages 26 - 38, XP028944037
EXAMINATION- BELL JAMES M ET AL, "High resolution single particle refinement in EMAN2.1", METHODS, ACADEMIC PRESS, NL, (20160227), vol. 100, doi:10.1016/J.YMETH.2016.02.018, ISSN 1046-2023, pages 25 - 34, XP029520586
OPPOSITION- "Chapter 4 - The BFGS Method", Kelley C T, Iterative Methods for Optimization (Frontiers in applied mathematics), (19990101), pages 71 - 85, XP093194162-
OPPOSITION- Nocedal Jorge, Wright Stephen J., Numerical Optimization (Springer Series in Operations Research), 2nd ed., (20060101), pages 135 - 180, XP093194161-
OPPOSITION- S.H.W. SCHERES null, "Processing of Structurally Heterogeneous Cryo-EM Data in RELION", Methods in Enzymology, (2016), vol. 579, doi:10.1016/bs.mie.2016.04.012, XP093039511
OPPOSITION- Cheng Yifan, Grigorieff Nikolaus, Penczek Pawel a., Walz Thomas, "A Primer to Single-Particle Cryo-Electron Microscopy (supplemental information included)", Cell, Elsevier, Amsterdam NL, Amsterdam NL , (20150401), vol. 161, no. 3, doi:10.1016/j.cell.2015.03.050, ISSN 0092-8674, pages 438 - 449 (1-14), XP093194135
OPPOSITION- Sindelar Charles V., Grigorieff Nikolaus, "Optimal noise reduction in 3D reconstructions of single particles using a volume-normalized filter (including supplemental data)", Journal of Structural Biology, Academic Press, United States, United States , (20121001), vol. 180, no. 1, doi:10.1016/j.jsb.2012.05.005, ISSN 1047-8477, pages 26 - 38, (1-17), XP093194164
OPPOSITION- Giovanni CARDONE et al., "One number does not fit all: Mapping local variations in resolution in Cryo-EM reconstructions", Journal of Structural Biology, (2013), vol. 184, doi:10.1016/j.jsb.2013.08.002, XP028768071
OPPOSITION- James M. BELL et al., "High resolution single particle refinement in EMAN2.1", Methods, (2016), vol. 100, doi:10.1016/j.ymeth.2016.02.018, XP029520586
OPPOSITION- Scheres Sjors H, Chen Shaoxia, "Prevention of overfitting in cryo-EM structure determination (supporting information included)", Nature Methods, Nature Publishing Group US, New York, New York, (20120901), vol. 9, no. 9, doi:10.1038/nmeth.2115, ISSN 1548-7091, pages 853 - 854, XP093194134
OPPOSITION- Kucukelbir Alp, Sigworth Fred J, Tagare Hemant D, "Quantifying the local resolution of cryo-EM density maps", Nature Methods, Nature Publishing Group US, New York, New York, (20140101), vol. 11, no. 1, doi:10.1038/nmeth.2727, ISSN 1548-7091, pages 63 - 65, XP093194137
OPPOSITION- Ali Punjani, John L Rubinstein, David J Fleet, Marcus A Brubaker, "cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination", Nature Methods, Nature Publishing Group US, New York, New York, (20170301), vol. 14, no. 3, doi:10.1038/nmeth.4169, ISSN 1548-7091, pages 290 - 296, XP055631965
SEARCH- YIFAN CHENG ET AL, "A Primer to Single-Particle Cryo-Electron Microscopy", CELL, Amsterdam NL, (20150401), vol. 161, no. 3, doi:10.1016/j.cell.2015.03.050, ISSN 0092-8674, pages 438 - 449, XP055441235 [Y] 14 * page 14, paragraph 2 * [A] 1,15
SEARCH[XIYA] - CARDONE GIOVANNI ET AL, "One number does not fit all: Mapping local variations in resolution in cryo-EM reconstructions", JOURNAL OF STRUCTURAL BIOLOGY, ACADEMIC PRESS, UNITED STATES, (20130814), vol. 184, no. 2, doi:10.1016/J.JSB.2013.08.002, ISSN 1047-8477, pages 226 - 236, XP028768071 [X] 1-4,7,10-11,13,15 * paragraph [02.3] * * paragraph [02.5] * * paragraph [03.1] * * paragraph [03.3] * [I] 8-9 [Y] 14 [A] 5-6,12
SEARCH- ALI PUNJANI ET AL, "cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination", NATURE METHODS, New York, (20170301), vol. 14, no. 3, doi:10.1038/nmeth.4169, ISSN 1548-7091, pages 290 - 296, XP055631965 [A] 1-15 * the whole document *

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