Literature DB >> 12051902

An automatic particle pickup method using a neural network applicable to low-contrast electron micrographs.

T Ogura1, C Sato.   

Abstract

Three-dimensional reconstruction from electron micrographs requires the selection of many single-particle projection images; more than 10 000 are generally required to obtain 5- to 10-A structural resolution. Consequently, various automatic detection algorithms have been developed and successfully applied to large symmetric protein complexes. This paper presents a new automated particle recognition and pickup procedure based on the three-layer neural network that has a large application range than other automated procedures. Its use for both faint and noisy electron micrographs is demonstrated. The method requires only 200 selected particles as learning data and is able to detect images of proteins as small as 200 kDa. (c)2002 Elsevier Science (USA).

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Year:  2001        PMID: 12051902     DOI: 10.1006/jsbi.2002.4442

Source DB:  PubMed          Journal:  J Struct Biol        ISSN: 1047-8477            Impact factor:   2.867


  8 in total

1.  Tetrameric Orai1 is a teardrop-shaped molecule with a long, tapered cytoplasmic domain.

Authors:  Yuusuke Maruyama; Toshihiko Ogura; Kazuhiro Mio; Kenta Kato; Takeshi Kaneko; Shigeki Kiyonaka; Yasuo Mori; Chikara Sato
Journal:  J Biol Chem       Date:  2009-03-16       Impact factor: 5.157

2.  Keap1 is a forked-stem dimer structure with two large spheres enclosing the intervening, double glycine repeat, and C-terminal domains.

Authors:  Toshihiko Ogura; Kit I Tong; Kazuhiro Mio; Yuusuke Maruyama; Hirofumi Kurokawa; Chikara Sato; Masayuki Yamamoto
Journal:  Proc Natl Acad Sci U S A       Date:  2010-01-27       Impact factor: 11.205

3.  Molecular architecture and subunit organization of TRPA1 ion channel revealed by electron microscopy.

Authors:  Teresa L Cvetkov; Kevin W Huynh; Matthew R Cohen; Vera Y Moiseenkova-Bell
Journal:  J Biol Chem       Date:  2011-09-09       Impact factor: 5.157

4.  Three-dimensional reconstruction of human cystic fibrosis transmembrane conductance regulator chloride channel revealed an ellipsoidal structure with orifices beneath the putative transmembrane domain.

Authors:  Kazuhiro Mio; Toshihiko Ogura; Muneyo Mio; Hiroyasu Shimizu; Tzyh-Chang Hwang; Chikara Sato; Yoshiro Sohma
Journal:  J Biol Chem       Date:  2008-08-22       Impact factor: 5.157

5.  New software tools in EMAN2 inspired by EMDatabank map challenge.

Authors:  James M Bell; Muyuan Chen; Tunay Durmaz; Adam C Fluty; Steven J Ludtke
Journal:  J Struct Biol       Date:  2018-09-04       Impact factor: 2.867

6.  A deep convolutional neural network approach to single-particle recognition in cryo-electron microscopy.

Authors:  Yanan Zhu; Qi Ouyang; Youdong Mao
Journal:  BMC Bioinformatics       Date:  2017-07-21       Impact factor: 3.169

7.  SPHIRE-crYOLO is a fast and accurate fully automated particle picker for cryo-EM.

Authors:  Thorsten Wagner; Felipe Merino; Markus Stabrin; Toshio Moriya; Claudia Antoni; Amir Apelbaum; Philine Hagel; Oleg Sitsel; Tobias Raisch; Daniel Prumbaum; Dennis Quentin; Daniel Roderer; Sebastian Tacke; Birte Siebolds; Evelyn Schubert; Tanvir R Shaikh; Pascal Lill; Christos Gatsogiannis; Stefan Raunser
Journal:  Commun Biol       Date:  2019-06-19

8.  Osteoblastic lysosome plays a central role in mineralization.

Authors:  Tomoaki Iwayama; Tomoko Okada; Tsugumi Ueda; Kiwako Tomita; Shuji Matsumoto; Masahide Takedachi; Satoshi Wakisaka; Takeshi Noda; Taku Ogura; Tomomichi Okano; Peter Fratzl; Toshihiko Ogura; Shinya Murakami
Journal:  Sci Adv       Date:  2019-07-03       Impact factor: 14.136

  8 in total

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