SSBD:database

Dataset 37-Arata-MolDynPar2/pmPAR-2

Author reviewed
SSBD:OMERO.gallery (Project) SSBD:OMERO (Project) BDML BDML 4D Viewer
SSBD:downloads
Project name
37-Arata-MolDynPar2
Release date
2017-10-03
Update date
2020-02-03
Pre-release URL
None
Project title
None
Contact name
Yukinobu Arata, Yasushi Sako
Organization
RIKEN
Department
Wako
Laboratory
Cellular Informatics Laboratory
License
CC BY
Contributors
Yukinobu Arata, Michio Hiroshima, Chan-Gi Pack, Ravikrishna Ramanujam, Fumio Motegi, Kenichi Nakazato, Yuki Shindo, Paul W. Wiseman, Hitoshi Sawa, Tetsuya J. Kobayashi, Hugo B. Brandão, Tatsuo Shibata, Yasushi Sako
Method summary
The original move of pmPAR-2 (tiff format) is rotated at 135 degree and processed through Rolling Ball and Kalman filters to obtain pmPAR-2_RBKL.avi (Movie S3). The PAR-2 trajectories (xlsx file) were obtained from the avi file. Kalman filter slightly reduced the diffusion coefficient.
PubMed URL
https://www.ncbi.nlm.nih.gov/pubmed/27524610
File or Folder
pmPAR-2
Kind
Image data
Title
BDML file of the PAR-2 trajectories obtained from time-lapse semi-TIRF microscopy images of fluorescent particles of GFP::phospho-mimicPAR-2 in a C. elegans wild-type embryo
Description
-
Organism
Caenorhabditis elegans ( NCBITaxon:6239 )
Strain
None
Datatype
single molecule dynamics
Basedon
Experiment
LocalID
pmPAR-2
XYZ-scale
XY: 0.0667 micrometer/pixel, Z: NA
T-scale
0.05 second for each time interval
dblink
None
External links
http://www.cell.com/cell-reports/abstract/S2211-1247(16)30978-0
Source
None
BDML
None
PDPML
None
Experiment type
TimeLapse
Microscope type
ConfocalMicroscope
Acquisition mode
TIRF
Contrast method
Fluorescence
Microscope model
Nikon TE2000
Detector model
Hamamatsu Photonics ImagEM
Objective model
Nikon Apo TIRF 60X/1.49
Filter set
Dichroic mirror: DM495 Nikon, Emission filter: BA500-545 Nikon
Sample
-
Dye
-
Clearing
-
Biological Process
cellular protein localization ( GO:0034613 )
Cellular Component
-
Project gallery
https://ssbd.riken.jp/omero/gallery/show_project/67/
Project
https://ssbd.riken.jp/omero/webclient/?show=project-67
Documents
BDML file of the PAR-2 trajectories obtained from time-lapse semi-TIRF microscopy images of fluorescent particles of GFP::phospho-mimicPAR-2 in a C. elegans wild-type embryo
BDML file of the PAR-2 trajectories obtained from time-lapse semi-TIRF microscopy images of fluorescent particles of GFP::phospho-mimicPAR-2 in a C. elegans wild-type embryo
4D Viewer
https://ssbd.riken.jp/webbd5viewer/viewerBD5.html?project=37-Arata-MolDynPar2&file=pmPAR-2_bd5

Sibling records

Image data
pmPAR-2
Time-lapse semi-TIRF microscopy images of fluorescent particles of GFP::phospho-mimicPAR-2 in a C. elegans wild-type embryo
downloads
https://ssbd.riken.jp/data/37-Arata-MolDynPar2/