SSBD:database

Summary of 73-Fujii-NeuronalMolDynCa2

SSBD:database
73-Fujii-NeuronalMolDynCa2
SSBD:database URL
https://ssbd.riken.jp/database/73-Fujii-NeuronalMolDynCa2/
Title
The simple stochastic model of Ca2+ increasing in the spine volume and cell volume
Description
-
Relase date
2018-11-15
Updated date
-
License
NA
Kind
Quantitative data based on Simulation
Number of Datasets
100 ( Image datasets: 0, Quantitative data datasets: 100 )
Size of Datasets
1.1 GB ( Image datasets: 0 bytes, Quantitative data datasets: 1.1 GB )
Organism(s)
Datatype
molecular dynamics
Molecular Function (MF)
Biological Process (BP)
-
Cellular Component (CC)
neuron spine
Biological Imaging Method
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XYZ Scale
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T scale
1 millisecond for each time interval
Image Acquisition
Experiment type
-
Microscope type
-
Acquisition mode
-
Contrast method
-
Microscope model
-
Detector model
-
Objective model
-
Filter set
-
Related paper(s)

Masashi Fujii, Kaoru Ohashi, Yasuaki Karasawa, Minori Hikichi, Shinya Kuroda (2017) Small-Volume Effect Enables Robust, Sensitive, and Efficient Information Transfer in the Spine., Biophysical journal, Volume 112, Number 4, pp. 813-826

Published in 2017 Feb 28

(Abstract) Why is the spine of a neuron so small that it can contain only small numbers of molecules and reactions inevitably become stochastic? We previously showed that, despite such noisy conditions, the spine exhibits robust, sensitive, and efficient features of information transfer using the probability of Ca(2+) increase; however, the mechanisms are unknown. In this study, we show that the small volume effect enables robust, sensitive, and efficient information transfer in the spine volume, but not in the cell volume. In the spine volume, the intrinsic noise in reactions becomes larger than the extrinsic noise of input, resulting in robust information transfer despite input fluctuation. In the spine volume, stochasticity makes the Ca(2+) increase occur with a lower intensity of input, causing higher sensitivity to lower intensity of input. The volume-dependency of information transfer increases its efficiency in the spine volume. Thus, we propose that the small-volume effect is the functional reason why the spine has to be so small.
(MeSH Terms)
Contact
Shinya Kuroda, Masashi Fujii , Graduate School of Sciences, University of Tokyo , Department of Biological Sciences , Systems Biology (Kuroda Lab)
Contributors
Masashi Fujii, Kaoru Ohashi, Yasuaki Karasawa, Minori Hikichi, Shinya Kuroda

Dataset List of 73-Fujii-NeuronalMolDynCa2

#
Dataset ID
Kind
Size
4D View
SSBD:OMERO
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# 3849
Datast ID 0seed.0
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3850
Datast ID 0seed.15
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3851
Datast ID 0seed.18
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3852
Datast ID 0seed.19
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3853
Datast ID 0seed.1
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3854
Datast ID 0seed.21
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3855
Datast ID 0seed.22
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3856
Datast ID 0seed.24
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3857
Datast ID 0seed.27
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3858
Datast ID 0seed.28
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3859
Datast ID 0seed.34
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3860
Datast ID 0seed.36
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3861
Datast ID 0seed.37
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3862
Datast ID 0seed.38
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3863
Datast ID 0seed.39
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3864
Datast ID 0seed.42
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3865
Datast ID 0seed.43
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3866
Datast ID 0seed.44
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3867
Datast ID 0seed.45
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3868
Datast ID 0seed.4
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3869
Datast ID 1seed.10
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3870
Datast ID 1seed.11
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3871
Datast ID 1seed.12
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3872
Datast ID 1seed.13
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3873
Datast ID 1seed.14
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3874
Datast ID 1seed.16
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3875
Datast ID 1seed.17
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3876
Datast ID 1seed.20
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3877
Datast ID 1seed.23
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3878
Datast ID 1seed.25
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3879
Datast ID 1seed.26
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3880
Datast ID 1seed.29
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3881
Datast ID 1seed.2
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3882
Datast ID 1seed.30
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3883
Datast ID 1seed.31
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3884
Datast ID 1seed.32
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3885
Datast ID 1seed.33
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3886
Datast ID 1seed.35
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3887
Datast ID 1seed.3
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3888
Datast ID 1seed.40
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3889
Datast ID 1seed.41
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3890
Datast ID 1seed.46
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3891
Datast ID 1seed.47
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3892
Datast ID 1seed.48
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3893
Datast ID 1seed.49
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3894
Datast ID 1seed.5
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3895
Datast ID 1seed.6
Dataset Kind Quantitative data
Dataset Size 11.3 MB
4D view
SSBD:OMERO
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# 3896
Datast ID 1seed.7
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3897
Datast ID 1seed.8
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3898
Datast ID 1seed.9
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3899
Datast ID seed.0
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3900
Datast ID seed.1
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3901
Datast ID seed.2
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3902
Datast ID seed.3
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3903
Datast ID seed.4
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3904
Datast ID seed.5
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3905
Datast ID seed.6
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3906
Datast ID seed.7
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3907
Datast ID seed.8
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3908
Datast ID seed.9
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3909
Datast ID seed.10
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3910
Datast ID seed.11
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3911
Datast ID seed.12
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3912
Datast ID seed.13
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3913
Datast ID seed.14
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3914
Datast ID seed.15
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3915
Datast ID seed.16
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3916
Datast ID seed.17
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3917
Datast ID seed.18
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3918
Datast ID seed.19
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3919
Datast ID seed.20
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3920
Datast ID seed.21
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3921
Datast ID seed.22
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3922
Datast ID seed.23
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3923
Datast ID seed.24
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3924
Datast ID seed.25
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3925
Datast ID seed.26
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3926
Datast ID seed.27
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3927
Datast ID seed.28
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3928
Datast ID seed.29
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3929
Datast ID seed.30
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3930
Datast ID seed.31
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3931
Datast ID seed.32
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3932
Datast ID seed.33
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3933
Datast ID seed.34
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3934
Datast ID seed.35
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3935
Datast ID seed.36
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3936
Datast ID seed.37
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3937
Datast ID seed.38
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3938
Datast ID seed.39
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3939
Datast ID seed.40
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3940
Datast ID seed.41
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3941
Datast ID seed.42
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3942
Datast ID seed.43
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3943
Datast ID seed.44
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3944
Datast ID seed.45
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3945
Datast ID seed.46
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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# 3946
Datast ID seed.47
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3947
Datast ID seed.48
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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# 3948
Datast ID seed.49
Dataset Kind Quantitative data
Dataset Size 11.3 MB
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SSBD:OMERO
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