Summary of 2-Kyoda-WormEmbryoRNAi

Title
-
Description
-
Relase date
2013-09-02
Updated date
2020-02-03
License
CC BY-SA
Kind
Quantitative data, Image data based on Experiment
Number of Datasets
373 ( Image datasets: 187, Quantitative data datasets: 186 )

Organism(s)
C. elegans

Datatype
nuclear division dynamics
Molecular Function (MF)
Biological Process (BP)
embryo development
Cellular Component (CC)
nucleus
Biological Imaging Method
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Image Acquisition
DifferentInterferenceContrastMicroscope ( Leica DMRE ) , TimeLapse , DIC , Hamamatsu Photonics ORCA C4742-95 , Hamamatsu Photonics ORCA C4742-95 , Leica HCX PL Apo 100x/1.40 O
XYZ Scale
XY: 0.105 micrometer/pixel, Z: 0.5 micrometer/slice
T scale
40 second for each time interval

Related paper(s)

Koji Kyoda, Eru Adachi, Eriko Masuda, Yoko Nagai, Yoko Suzuki, Taeko Oguro, Mitsuru Urai, Ryoko Arai, Mari Furukawa, Kumiko Shimada, Junko Kuramochi, Eriko Nagai, Shuichi Onami (2013) WDDD: Worm Developmental Dynamics Database., Nucleic acids research, Volume 41, Number Database issue, pp. D732-7

Published in 2013 Jan (Electronic publication in Nov. 20, 2012, midnight )

(Abstract) During animal development, cells undergo dynamic changes in position and gene expression. A collection of quantitative information about morphological dynamics under a wide variety of gene perturbations would provide a rich resource for understanding the molecular mechanisms of development. Here, we created a database, the Worm Developmental Dynamics Database (http://so.qbic.riken.jp/wddd/), which stores a collection of quantitative information about cell division dynamics in early Caenorhabditis elegans embryos with single genes silenced by RNA-mediated interference. The information contains the three-dimensional coordinate values of the outlines of nuclear regions and the dynamics of the outlines over time. The database provides free access to 50 sets of quantitative data for wild-type embryos and 136 sets of quantitative data for RNA-mediated interference embryos corresponding to 72 of the 97 essential embryonic genes on chromosome III. The database also provides sets of four-dimensional differential interference contrast microscopy images on which the quantitative data were based. The database will provide a novel opportunity for the development of computational methods to obtain fresh insights into the mechanisms of development. The quantitative information and microscopy images can be synchronously viewed through a web browser, which is designed for easy access by experimental biologists.
(MeSH Terms)

Contact
Shuichi Onami , RIKEN , Quantitative Biology Center , Laboratory for Developmental Dynamics
Contributors
Eru Adachi, Eriko Masuda, Yoko Nagai, Yoko Suzuki, Taeko Oguro, Koji Kyoda, Shuichi Onami


Dataset List of 2-Kyoda-WormEmbryoRNAi

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Dataset ID
Dataset Kind
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# 227
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# 228
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# 229
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# 235
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# 237
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# 248
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# 250
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# 251
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# 253
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# 254
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# 255
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# 256
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# 261
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# 264
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# 273
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# 274
Datast ID wt_N2_030116_02
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# 275
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# 276
Datast ID wt_N2_030124_02
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# 277
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# 278
Datast ID wt_N2_030127_01
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# 279
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# 280
Datast ID wt_N2_030131_01
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# 281
Datast ID wt_N2_030131_01
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# 282
Datast ID wt_N2_030131_02
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# 283
Datast ID wt_N2_030131_02
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# 284
Datast ID wt_N2_030131_03
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# 285
Datast ID wt_N2_030131_03
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# 286
Datast ID wt_N2_030203_01
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# 287
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# 288
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# 289
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# 290
Datast ID wt_N2_030204_03
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# 291
Datast ID wt_N2_030204_03
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# 292
Datast ID wt_N2_030206_01
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# 293
Datast ID wt_N2_030206_01
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# 294
Datast ID wt_N2_030207_01
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# 295
Datast ID wt_N2_030207_01
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# 296
Datast ID wt_N2_030207_02
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# 297
Datast ID wt_N2_030207_02
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# 298
Datast ID wt_N2_030210_01
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# 299
Datast ID wt_N2_030210_01
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# 300
Datast ID wt_N2_030210_02
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# 301
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# 302
Datast ID wt_N2_030210_03
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# 303
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# 304
Datast ID wt_N2_030212_01
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# 305
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# 306
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# 307
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# 308
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# 309
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# 310
Datast ID wt_N2_030213_02
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# 311
Datast ID wt_N2_030213_02
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# 312
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# 313
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# 314
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# 315
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# 316
Datast ID wt_N2_030214_01
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# 317
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# 318
Datast ID wt_N2_030214_03
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# 319
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# 320
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# 321
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# 322
Datast ID wt_N2_030217_02
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# 323
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# 324
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# 325
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# 326
Datast ID wt_N2_030218_01
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# 327
Datast ID wt_N2_030218_01
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# 328
Datast ID wt_N2_030218_02
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# 329
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# 330
Datast ID wt_N2_030218_04
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# 331
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# 332
Datast ID wt_N2_030218_05
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# 333
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# 334
Datast ID wt_N2_030221_01
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# 335
Datast ID wt_N2_030221_01
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# 336
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# 337
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# 338
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# 340
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# 341
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# 342
Datast ID wt_N2_030224_01
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# 343
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Datast ID wt_N2_030228_02
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Datast ID wt_N2_030303_01
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Datast ID wt_N2_030304_01
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# 355
Datast ID wt_N2_030304_01
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# 361
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# 364
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Datast ID wt_N2_030306_01
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# 368
Datast ID wt_N2_070111_02
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Datast ID wt_N2_070111_03
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Datast ID wt_N2_071220_01
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