title: Semi-automatic organelle detection on transmission electron microscopic images.
abstract: Recent advances in the acquisition of large-scale datasets of transmission electron microscope images have allowed researchers to determine the number and the distribution of subcellular ultrastructures at both the cellular level and the tissue level. For this purpose, it would be very useful to have a computer-assisted system to detect the structures of interest, such as organelles. Using our original image recognition framework CARTA (Clustering-Aided Rapid Training Agent), combined with procedures to highlight and enlarge regions of interest on the image, we have developed a successful method for the semi-automatic detection of plant organelles including mitochondria, amyloplasts, chloroplasts, etioplasts, and Golgi stacks in transmission electron microscope images. Our proposed semi-automatic detection system will be helpful for labelling organelles in the interpretation and/or quantitative analysis of large-scale electron microscope imaging data.
authors.affiliation: Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha, Kashiwa 277-8562, Japan.
authors.forename: Takumi
authors.initials: T
authors.lastname: Higaki
authors.affiliation: 1] Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha, Kashiwa 277-8562, Japan [2] Research and Development Division, LPixel Inc., Bunkyo-ku, Tokyo 150-0002, Japan.
authors.forename: Natsumaro
authors.initials: N
authors.lastname: Kutsuna
authors.affiliation: Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha, Kashiwa 277-8562, Japan.
authors.forename: Kae
authors.initials: K
authors.lastname: Akita
authors.affiliation: RIKEN Center for Sustainable Resource Science, Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.
authors.forename: Mayuko
authors.initials: M
authors.lastname: Sato
authors.affiliation: Faculty of Science, Japan Women's University, Bunkyo-ku, Tokyo 112-8681, Japan.
authors.forename: Fumie
authors.initials: F
authors.lastname: Sawaki
authors.affiliation: Faculty of Science, Japan Women's University, Bunkyo-ku, Tokyo 112-8681, Japan.
authors.forename: Megumi
authors.initials: M
authors.lastname: Kobayashi
authors.affiliation: Faculty of Science, Japan Women's University, Bunkyo-ku, Tokyo 112-8681, Japan.
authors.forename: Noriko
authors.initials: N
authors.lastname: Nagata
authors.affiliation: RIKEN Center for Sustainable Resource Science, Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan.
authors.forename: Kiminori
authors.initials: K
authors.lastname: Toyooka
authors.affiliation: Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha, Kashiwa 277-8562, Japan.
authors.forename: Seiichiro
authors.initials: S
authors.lastname: Hasezawa
mesh_terms: D017360:Arabidopsis / Q000166:cytology / Q000196:embryology / Q000648:ultrastructure; D001331:Automation; D002478:Cells, Cultured; D018548:Cotyledon / Q000648:ultrastructure; D006056:Golgi Apparatus / Q000648:ultrastructure; D007091:Image Processing, Computer-Assisted; D046529:Microscopy, Electron, Transmission; D008928:Mitochondria / Q000648:ultrastructure; D015388:Organelles / Q000648:ultrastructure*; D018087:Plastids / Q000648:ultrastructure; D014026:Nicotiana / Q000166:cytology