SSBD:database

wtPAR-2pkc-3

Dataset Link(s)
v1 37-Arata-MolDynPar2/wtPAR-2pkc-3
Title
BDML file of the PAR-2 trajectories obtained from time-lapse semi-TIRF microscopy images of fluorescent particles of GFP::PAR-2 in a C. elegans pkc-3(RNAi)embryo
Version
3.0
BDML ID
86aeaee8-0e8d-4c22-9739-efa5f285da67
Release
2020-02-03
License
CC BY
Description
The PAR-2 trajectories obtained from time-lapse semi-TIRF microscopy images of fluorescent particles of GFP::PAR-2 in a C. elegans pkc-3(RNAi)embryo
Datatype
single molecule dynamics
ref: 001
cellular protein localization / GO_0034613 / http://purl.obolibrary.org/obo/GO_0034613
Local ID
wtPAR-2pkc-3
Organism(s)
C. elegans
ref: 002
C. elegans / NCBITaxon_6239 / http://purl.obolibrary.org/obo/NCBITaxon_6239
Based On
Experiment
PMID
27524610
Methods summary
See details in Arata et al. (2016) Cell Rep. 16, 1-13. The original move of wtPAR-2/pkc-3 (tiff format) is rotated at 135 degree and processed through Rolling Ball and Kalman filters to obtain wtPAR-2pkc-3_RBKL.avi. The PAR-2 trajectories were obtained from the avi file. Kalman filter slightly reduced the diffusion coefficient.
Methods source
http://ssbd.qbic.riken.jp/data/37-Arata-MolDynPar2/source/wtPAR-2pkc-3.zip
Data Kind
extfile
Ext File
wtPAR-2pkc-3_bd5.h5
Ontology term(s)
001 / cellular protein localization / GO_0034613 / http://purl.obolibrary.org/obo/GO_0034613
002 / C. elegans / NCBITaxon_6239 / http://purl.obolibrary.org/obo/NCBITaxon_6239
Contact
Yukinobu Arata
Affiliation
RIKEN
Wako
Cellular Informatics Laboratory
2-1 Hirosawa, Wako, Saitama 351-0198, Japan
Yasushi Sako (ORCID: 0000-0002-5707-5455)
Affiliation
RIKEN
Wako
Cellular Informatics Laboratory
2-1 Hirosawa, Wako, Saitama 351-0198, Japan
Contributors
Yukinobu Arata
Affiliation
RIKEN
Wako
Cellular Informatics Laboratory
2-1 Hirosawa, Wako, Saitama 351-0198, Japan
Michio Hiroshima
Chan-Gi Pack
Ravikrishna Ramanujam
Fumio Motegi
Kenichi Nakazato
Yuki Shindo
Paul W. Wiseman
Hitoshi Sawa
Tetsuya J. Kobayashi
Hugo B. Brandao
Tatsuo Shibata
Affiliation
RIKEN
Center for Biosystems Dynacmis Research
Laboratory for Physical Biology
2-2-3, Minatojima-minamimachi, Chuo-ku, Kobe 650-0047 Japan
Yasushi Sako (ORCID: 0000-0002-5707-5455)
Affiliation
RIKEN
Wako
Cellular Informatics Laboratory
2-1 Hirosawa, Wako, Saitama 351-0198, Japan