Due to system maintenance on SSBD:OMERO, image viewing, preview, and related services are currently unavailable.
We apologize for the inconvenience and are working to restore the service as soon as possible.
The SSBD and related databases will be unavailable from 8:00 a.m. to 8:00 p.m. (JST) on February 23rd, 2026, due to urgent power system maintenance. We apologize for any inconvenience this may cause to your research activities and appreciate your understanding and continued support.
We have released a new metadata database for SSBD:database that supports SSBD metadata version 3. You can access it from **Menu → Resources**.
Happy holidays and happy new year!
We are pleased to announce SSBD:database 2025 update.
We released 33 projects in 2025, which include 1640 image datasets (5.9TiB).
The added projects/datasets have already been announced on https://x.com/ssbd_en .
Again, we thank the contributors for their valuable data.
The released projects are:
https://ssbd.riken.jp/database/232-Tany-SignalingDyn
Live-cell imaging of G-protein-coupled receptors (GPCRs) downstream signaling dynamics in HeLa cells. (9.8 GiB)
https://ssbd.riken.jp/database/284-Mashiko-EmbryoDyn
Live-cell imaging and BDML file for quantitative information about nucleus dynamics in mouse embryo development. (2.2 TiB)
https://ssbd.riken.jp/database/292-Katsuta-StressFiber
Time-lapse images showing the pivotal role of alpha-actinin which generates mechanical force in stress fibers (20.9 GiB)
https://ssbd.riken.jp/database/310-Sato-HemocyteMigrate
Aquaporin overexpression promotes endothelial-to-hematopoietic transition. (22.5 GiB)
https://ssbd.riken.jp/database/320-Spratt-dMetRaman
Stimulated Raman images of deuterated methionine incorporated into adult and larval Drosophila (31.4 MiB)
https://ssbd.riken.jp/database/327-Okuzumi-synuclein
TEM images of alpha-synuclein released in serum (462.2 MiB)
https://ssbd.riken.jp/database/329-Nelson-Chemotaxis
Ammonium chemotaxis
of Chlamydomonas reinhardtii (463.9 MiB)
https://ssbd.riken.jp/database/333-Tsugawa-gravitropism
Shoot gravitropism of wild type and myosin xif xik mutant Arabidopsis (1.1 GiB)
https://ssbd.riken.jp/database/367-Tsuboi-DrosophilaWing
The folding dynamics of Drosophila wing during pupal development (353.0 GiB)
https://ssbd.riken.jp/database/368-Yabushita-Decitabine
Time-lapse images of MDS-derived AML cell lines treated with decitabine (26.6 GiB)
https://ssbd.riken.jp/database/369-Moriyama-deuterateRaman
Multiple deuteration of triphenylphosphine and live-cell Raman imaging
of deuterium-incorporated Mito-Q (152.3 KiB)
https://ssbd.riken.jp/database/371-Liao-RamanSpectra
Raman spectra data of cell spheroids on a multi-well plate treated with various concentrations of reagents (1.3 MiB)
https://ssbd.riken.jp/database/373-Tomioka-CaImage
Calcium imaging of ASEL gustatory neuron of C. elagans in response to glucose after conditioning (4.7 GiB)
https://ssbd.riken.jp/database/377-Ichinose-RedAlgae
Beta-tubulin dynamics during cell cycles of red algae (930.3 MiB)
https://ssbd.riken.jp/database/379-Okubo-bilaminoid
3D images of bilaminar organoid generated from co-culture of human pluripotent stem cells (hPSC) and hPSC-derived hypoblast-like cells (1.9 GiB)
https://ssbd.riken.jp/database/383-Hiromoto-PoralizeDiv
Time-lapse images of intracellular structure in elongating Arabidopsis zygotes (8.4 GiB)
https://ssbd.riken.jp/database/385-Yamakoshi-thiaMichael
Raman images showing thia-Michael reaction in HeLa cells (1.0 MiB)
https://ssbd.riken.jp/database/386-Takahashi-EarIL31RA
Immunofluorescence images of nerve fiber and IL-31 receptors in the mouse ear skin (3.5 GiB)
https://ssbd.riken.jp/database/387-Ando-StayGold
Super resolution cellular images using fluorescent-tags of StayGold variants (153.6 GiB)
https://ssbd.riken.jp/database/388-Okuno-CFinput
Climbing fiber inputs to Purkinje cells in wild type mice and PTPdelta knockout mice (7.0 GiB)
https://ssbd.riken.jp/database/393-Fujimoto-CoV2Infect
SARS-CoV-2 infection to the co-culture of bronchial organoids and vascular beds in a microfluidic device (2.0 GiB)
https://ssbd.riken.jp/database/394-Fukute-DNAunderwind
Mechanical regulation of DNA underwinding in the nucleus (8.2 GiB)
https://ssbd.riken.jp/database/398-Hirashima-LungMorpho
Spatio-temporal activation of ERK during branching morphogenesis in lung (14.5 GiB)
https://ssbd.riken.jp/database/408-Sarper-TentacleArrange
Z-series and time-lapse images showing phyllotaxis-like periodic and symmetric tentacle arrangements (263.0 GiB)
https://ssbd.riken.jp/database/409-Ichimura-AMATERAS
Ultra-large FOV imaging by AMATERAS-2 (633.7 GiB)
https://ssbd.riken.jp/database/411-Yoshinari-BorateTransporter
3D-time-lapse images of vacuolar sorting of BOR1 (397.1 MiB)
https://ssbd.riken.jp/database/412-Katoh-BMP4Cilia
BMP4 regulates asymmetric Pkd2 distribution in mouse nodal immotile cilia and ciliary mechanosensing required for left–right determination (48.9 GiB)
https://ssbd.riken.jp/database/416-Otomo-descSPIM
Images of brain and xenograft obtained by descSPIM, the desktop- equipped SPIM (348.6 GiB)
https://ssbd.riken.jp/database/419-Hagiwara-CollectiveMigrate
Time-lapse images of collective cell migration regulated by extracellular matrix (8.3 GiB)
https://ssbd.riken.jp/database/421-Takenouchi-AgedYoungOocyte
Live chromosome identifying and tracking in mouse oocytes (624.7 GiB)
https://ssbd.riken.jp/database/422-Asai-KinetochoreBeads
Dynamics of chromosomes and artificial kinetochore beads in mouse oocytes and embryos (1.2 TiB)
https://ssbd.riken.jp/database/439-Takayama-dynamicsEGFR
EGFR dynamics on CHO–K1 cells with depletion and supplementation of cholesterol (506.3 MiB)
https://ssbd.riken.jp/database/451-Hitora-Neopetromin
The shape of vacuole and F-actin in tobacco BY-2 cells treated with neopetromin, a newly found peptide (619.2 MiB)
Happy holidays and happy new year!
We are pleased to announce SSBD:repository 2025 update.
We released 59 projects (9.3 TiB) in 2025.
The added projects have already been announced on https://x.com/ssbd_en .
Again, we thank the contributors for their valuable data.
The released projects are:
https://ssbd.riken.jp/repository/ssbd-repos-000308
Photometry traces showing the activities of oxytocin neurons in lactating mice (17.1 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000370
Mechanical control of the insect extracellular matrix nanostructure (23.1 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000374
Dietary Availability Acutely Influences Puberty Onset via Hypothalamic Neural Circuit (22.5 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000389
Visual quantification of prostaglandin E2 discharge from a single cell (82.0 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000393
SARS-CoV-2 infection to the co-culture of bronchial organoids and vascular beds in a microfluidic device (7.0 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000399
Fate specification triggers a positive feedback loop of TEAD–YAP and NANOG to promote epiblast formation in preimplantation embryos (6.4 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000402
Orbitofrontal Cortex Influences Dopamine Dynamics Associated with Alloparental Behavioral Acquisition in Female Mice (438.5 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000404
in vivo imaging of spinal cord (437.8 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000406
Time lapse images of HT1080 cells expressing Fucci cell cycle reporter (2.4 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000409
A set of image data used for demonstration of a newly developed optical imaging system "AMATERAS-2" (633.7 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000410
Animal Brain Collection (3.4 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000411
3D-time-lapse images of vacuolar sorting of BOR1 (416.2 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000412
BMP4 regulates asymmetric Pkd2 distribution in mouse nodal immotile cilia and ciliary mechanosensing required for left–right determination (48.9 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000413
Histolgical sections of the mouse embryos (head) (68.4 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000416
descSPIM: an affordable and easy-to-build light-sheet microscope optimized for tissue clearing techniques (348.6 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000417
KIAA0513 protein in esophageal cancer tissue (1.2 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000418
Development of DGLa expression in mouse visual cortex (272.3 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000419
Time-lapse images of collective cell migration regulated by extracellular matrix (8.4 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000421
Live chromosome identifying and tracking in mouse oocytes (781.9 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000422
Artificial kinetochore beads establish a biorientation-like state in the spindle (1.2 TiB)
https://ssbd.riken.jp/repository/ssbd-repos-000423
c-Fos positive neurons in the anterior cingulate cortex after social interaction. (39.3 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000424
Immunostaining and electron microscopy images of tissues and cells (118.1 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000425
Xenium data for a comparison of spatial transcriptomics technologies for medulloblastoma cryosections (40.9 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000426
Imaging data on supersulphides airway protection (53.4 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000427
Histological analysis using human abdominal skin tissue including hair follicles (184.7 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000428
Locomotion of mig-17/ ADAMTS and chondroitin related mutants (2.3 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000431
Immunofluorescence staining data showing histone modification enrichment in medaka embryos. (361.1 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000432
Chondrocyte hypertrophy and stress anisotropy in long bone development (574.5 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000434
Cre-mediated recombination site of Nes-Cre; Rosa26LSL-L10-GFP/+ mice and tamoxifen-injected (at P14, 17, and 21) Syn1CreERT2; Rosa26LSL-L10-GFP/+ mice (44.7 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000435
Images of coronary vessels and Wnt/βcatenin signaling-activated cardiomyocytes in zebrafish. (123.9 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000436
In vivo imaging of micronuclei incorporation by microglia (18.7 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000437
Amphiregulin-producing TH2 cells facilitate esophageal fibrosis of eosinophilic esophagitis (221.7 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000439
EGFR dynamics on CHO–K1 cells with depletion and supplementation of cholesterol (518.1 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000440
Immunostaining of phosphorylated ATM in normal human fibroblasts (14.8 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000441
Designing protein-based artificial kinetochores as decoys to prevent meiotic errors in oocytes (3.5 TiB)
https://ssbd.riken.jp/repository/ssbd-repos-000442
Semaphorin 6D tunes amygdalar circuits for emotional, metabolic, and inflammatory outputs (37.2 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000443
Deep Learning Pipeline for Segmentation and Quantification of Overlapping Membranes in 2D Image (10.5 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000444
Inhibitory effects of topically applied novel bovine lactoferrin (bLF)- peptides (bLF-p2 and bLF-p3) (6.6 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000445
Repository of HE-stained sections from iPS cell teratoma formation assays (321.2 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000446
Lysosomal activity observed by confocal microscopy (1.6 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000447
Reductively convertible nickel phthalocyanine precursor as a biological thiol-responsive turn-on photoacoustic contrast agent (956.3 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000448
Selective-plane-activation structured illumination microscopy (10.7 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000449
Vasopressin-to-Oxytocin Receptor Crosstalk in the Preoptic Area Underlying Parental Behaviors in Male Mice (1.1 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000453
microtubule-dependent nuclear transport in neurons driven by Nesprin-2 and microtubule motors (283.5 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000455
Quantification of Cyclin-CDK dissociation constants using FCCS with green and near-infrared fluorescent proteins. (640.0 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000456
Images of proliferating cells in Arabidopsis leaf primordia (7.5 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000457
Xenium In Situ Gene Expression and Multiplex Fluorescence Immunostaining data of Lung adenocarcinoma (24.5 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000458
Xenium In Situ Gene Expression and Multiplex Fluorescence Immunostaining data of non-small cell lung cancers (146.4 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000459
TIRF imaging of EGFR and PIP2 on Hela cells (1.2 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000460
Dynamixs of radial axis formation in Arabidopsis thaliana zygote (7.6 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000467
Reduction of endocytosis and EGFR signaling is associated with the switch from isolated to clustered apoptosis during epithelial tissue remodeling in Drosophila. (90.3 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000468
Exposed Hsp70-binding site impacts yeast Sup35 prion disaggregation and propagation (8.1 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000470
Microscopy images of Yamadazyma thunbergiae sp. nov. cultured on diverse media (333.0 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000471
Export of type II collagen in Tango1L-KO medaka and Tango1S-KO medaka (1.2 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000472
Raman imaging showing the impact of repeated temperature cycling on cryopreserved human iPSC viability (2.2 MiB)
https://ssbd.riken.jp/repository/ssbd-repos-000474
Near-infrared imaging of phytochrome-derived autofluorescence in plant nuclei (3.6 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000475
HAPLN2 forms aggregates and promotes microglial inflammation during brain aging in mice (6.5 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000479
The morphology of some kinds of Escherichia coli resistant to various antibiotics (99.9 GiB)
https://ssbd.riken.jp/repository/ssbd-repos-000486
Visualization of computational RNA droplets performing AND logic gate upon an input of multiple microRNAs (205.9 MiB)
https://www.youtube.com/watch?v=935KmjA1s9E
Our latest video introduces the key points of the new SSBD paper published in Nucleic Acids Research.
Watch it.
Due to urgent system maintenance on SSBD:OMERO, the service was temporarily unavailable. Most datasets are now accessible, but some remain unavailable. We apologize for the inconvenience.
The SSBD and related databases will be unavailable from 5:00 p.m. on January 17th to 6:00 p.m. on January 18th, 2025, due to power system maintenance required by a legal inspection. We apologize for any inconvenience caused.
Happy Holidays and Happy New Year!
We are pleased to announce SSBD:repository 2024 update.
We released 24 projects (2.5TB) in 2024.
The added projects have already been announced on https://x.com/ssbd_en .
Again, we thank the contributors for their valuable data.
The released projects are:
https://ssbd.riken.jp/repository/ssbd-repos-000256
Expression patterns of Osiris family genes in the pupal head of Drosophila
https://ssbd.riken.jp/repository/ssbd-repos-000266
Neuropeptide gene expression atlas in the adult zebrafish brain
https://ssbd.riken.jp/repository/ssbd-repos-000270
Image-based parameter inference for epithelial mechanics
https://ssbd.riken.jp/repository/ssbd-repos-000325
Dataset for "Live-cell imaging provides direct evidence for a threshold in CDK activity at the G2/M transition."
https://ssbd.riken.jp/repository/ssbd-repos-000330
Dataset of actin nanocluster dynamics during Drosophila tracheal tubulogenesis
https://ssbd.riken.jp/repository/ssbd-repos-000335
Raw data of an article “Repeated neural activations induce long-term structural plasticity of the nucleus” (Murano et al., unpublished)
https://ssbd.riken.jp/repository/ssbd-repos-000341
Dataset for "Live-cell fluorescence imaging and optogenetic control of PKA kinase activity in fission yeast Schizosaccharomyces pombe."
https://ssbd.riken.jp/repository/ssbd-repos-000342
Diversity in the epidermal growth factor receptor ligands
https://ssbd.riken.jp/repository/ssbd-repos-000343
SEM imege of cancer cells adhered on the track etched membrane
https://ssbd.riken.jp/repository/ssbd-repos-000346
Imaging data in the paper, "Automated neuronal reconstruction with super-multicolour Tetbow labelling and threshold-based clustering of colour hues" (Leiwe et al., 2024).
https://ssbd.riken.jp/repository/ssbd-repos-000348
Rac1/Rac3-double knockout cochlear hair cells
https://ssbd.riken.jp/repository/ssbd-repos-000349
High-dimensional and large-scale phenotyping of yeast mutants
https://ssbd.riken.jp/repository/ssbd-repos-000357
High-dimensional single-cell phenotyping of yeast heterozygous diploid strains
https://ssbd.riken.jp/repository/ssbd-repos-000361
Visualization of actin-rich cellular protrusions in medaka embryos
https://ssbd.riken.jp/repository/ssbd-repos-000372
Integrative analysis reveals early epigenetic alterations in high-grade serous ovarian carcinomas
https://ssbd.riken.jp/repository/ssbd-repos-000381
The transcription factor NRF1 (NFE2L1) activates aggrephagy by inducing p62 and GABARAPL1 after proteasome inhibition to maintain proteostasis
https://ssbd.riken.jp/repository/ssbd-repos-000384
Images and trajectories of diffusing objects
https://ssbd.riken.jp/repository/ssbd-repos-000388
Confocal images of the immunostained cerebellum in PTPdelta/Ptprd KO mice
https://ssbd.riken.jp/repository/ssbd-repos-000390
Cells sorted off hiPSC-derived kidney organoids coupled with immortalized cells reliably model the proximal tubule
https://ssbd.riken.jp/repository/ssbd-repos-000395
Lung inflammation and fibrosis images of CD45-deficient mice
https://ssbd.riken.jp/repository/ssbd-repos-000397
Flexible Adjustment of Oxytocin Neuron Activity in Mother Mice Revealed by Microendoscopy
https://ssbd.riken.jp/repository/ssbd-repos-000400
PROX1+ and CDX2+ cells form distinct cell populations in colorectal cancer.
https://ssbd.riken.jp/repository/ssbd-repos-000405
Digital staining of the cell nucleus
https://ssbd.riken.jp/repository/ssbd-repos-000407
Autonomous multicolor bioluminescence imaging
Happy Holidays and Happy New Year!
We are pleased to announce SSBD:database 2024 update.
We released 30 projects in 2024, which include 906 image datasets (5.23TB).
The added projects/datasets have already been announced on https://x.com/ssbd_en .
Again, we thank the contributors for their valuable data.
The released projects are:
https://ssbd.riken.jp/database/139-Kishimoto-TracheaDev
Image data of trachea and esophagus formation in the mouse embryo
https://ssbd.riken.jp/database/191-Shima-KIF5Cmove
KIF5C running on various states of microtubules
https://ssbd.riken.jp/database/255-Koganezawa-CellDyn
Time-lapse images of cell dynamics in different E. coli strain cells after gene deletion by blue-light illumination.
https://ssbd.riken.jp/database/273-Kaise-NeuralStemCell
Bioluminescent time-lapse imaging of Ascl1-Luciferse reporter mice's brain slices after iPaD virus injection
https://ssbd.riken.jp/database/276-Murai-CellularDyn
Time-course images of cellular dynamics of SMART mice stimulated responds to necroptosis.
https://ssbd.riken.jp/database/280-Uyama-RetinaGraft
Images of OCT and FAG after transplantation of monkey iPSC-retina
https://ssbd.riken.jp/database/282-Ohgushi-StemCell
Embryonic stem cell differentiation
https://ssbd.riken.jp/database/285-Tanaka-Covid19Infection
Immunofluorescence images or transmission electron images of SARS-CoV-2 infected human induced salivary glands (hiSGs).
https://ssbd.riken.jp/database/293-Kimata-PlantInhibit
Novel inhibitors of microtubule organization and phragmoplast formation in diverse plant species
https://ssbd.riken.jp/database/299-Satoh-Endosome
Endosome maturation promoted by interorganelle association between mitochondria and endosomes
https://ssbd.riken.jp/database/300-Nishiyama-Rdot
MCF-7 cells stained by 12 different colors of Rdots
https://ssbd.riken.jp/database/305-Mochizuki-multilineRaman
Raman spectral data of mouse fixed tissues and live HeLa cells using multiline illumination.
https://ssbd.riken.jp/database/306-Kamei-microglia
In vivo imaging of the phagocytic dynamics underlying efficient clearance of adult-born hippocampal granule cells by ramified microglia
https://ssbd.riken.jp/database/309-Fujioka-RamanProbe
Detection of multiple enzyme activities simultaneously in live cells by using activatable Raman probes
https://ssbd.riken.jp/database/313-Kawano-WormSleep
Time-lapse images of C. elegans lethargus dynamics by rapid C. elegans motion imaging (Remi) system
https://ssbd.riken.jp/database/316-Ando-CellCycle
Sharp visualization of cell-cycle progression using Fucci(SA)5 and Fucci(CA)5 fluorescent proteins
https://ssbd.riken.jp/database/317-Narita-Argonaute2Aggrigate
Aggregates formation of Drosophila melanogaster Argonaute2 N-terminal region
https://ssbd.riken.jp/database/318-Yamamoto-StemCell
Human adipose mesenchymal stem cells
https://ssbd.riken.jp/database/319-Shou-RESORT
Super-resolution vibrational imaging based on photoswitchable Raman probe
https://ssbd.riken.jp/database/322-Ikari-membraneRas
Intracellular distribution of exogenous H-Ras in HeLa cells.
https://ssbd.riken.jp/database/323-Kang-ZygoteElongate
Coordinate normalization of Arabidopsis zygote growth.
https://ssbd.riken.jp/database/324-Kimata-ZygoticMito
Mitochondrial dynamics and segregation during the asymmetric division of Arabidopsis zygotes
https://ssbd.riken.jp/database/332-Miyabara-tumor
In vivo optical imaging of tumor stromal cells with hypoxia-inducible factor activity
https://ssbd.riken.jp/database/334-Hashimoto-SARSorganoid
Inhibition of SARS-CoV-2 virus infection to human airway organoids by autophagy-related compounds.
https://ssbd.riken.jp/database/337-Isoe-BrainRegion
3D medaka brain visualized clonally related units in the pallium
https://ssbd.riken.jp/database/339-Tsukita-Cobl
Time lapse images of cytoskeleton and cordon bleu, a microtubule-associated protein
https://ssbd.riken.jp/database/344-Murata-InfectHeart
Influence of persistent SARS-CoV-2 infection on a three-dimensional cardiac model
https://ssbd.riken.jp/database/366-Ebata-TERTlocalize
Time-lapse images showing the role of mitochondrial TERT during apoptosis
https://ssbd.riken.jp/database/378-Minegishi-MetastaticNiche
Fluorescent labeling of cell-cell interaction using sGRAPHIC
https://ssbd.riken.jp/database/380-Wang-ActininTensionSensor
Changes of tension in smooth muscle cell after treatment with water, calyculin A, or Y27632
A new paper on SSBD has been published. It describes the two-tier ecosystem of SSBD:repository and database and the Global Image Data Ecosystem (GIDE), based on a global collaboration.
Koji Kyoda, Hiroya Itoga, Yuki Yamagata, Emi Fujisawa, Fangfang Wang, Miguel Miranda-Miranda, Haruna Yamamoto, Yasue Nakano, Yukako Tohsato, Shuichi Onami, "SSBD: an ecosystem for enhanced sharing and reuse of bioimaging data," Nucleic Acids Research, 10.1093/nar/gkae860
DOI: https://doi.org/10.1093/nar/gkae860
PubMed: https://pubmed.ncbi.nlm.nih.gov/39479781/
Paper: https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae860/7824603
News release from RIKEN (in Japanese): https://www.riken.jp/press/2024/20241031_1/index.html
News release from JST (in Japanese): https://www.jst.go.jp/pr/announce/20241031-3/index.html
SSBD has revised its data storage policy as follows to ensure proper data collection, metadata annotation, publication, and reuse.
- From SSBD:repository, all original data will be stored and published, and the download and API service will be unified via SSBD:repository
- From SSBD:database, we promote data publication in highly reusable data formats (OME-Zarr, BDML/BD5, etc.), and store original data file in SSBD:repository
Due to urgent system maintenance, SSBD might be unavailable from 10:00 to 12:00, Friday 20 October 2023. Sorry for the inconvenience.
We are pleased to announce the SSBD:database 2023 update,
We released 29 projects, which include 2030 image datasets (1.7TB) and 168 quantitative datasets (100GB).
The added datasets have already been released and announced on http://x.com/ssbd_en
The projects are
214-Arata-BehavioralActivity, 219-Konishi-CalciumIonDyn, 220-Imanishi-ROCKActivity,
231-Asakura-ERKactivation, 237-Jin-CellDynamics, 244-Tokuoka-Embryogenesis,
245-Hirasawa-OR-PAM, 246-Hung-CircadianRhythm, 247-Adhitama-Embryogenesis,
253-Shimauchi-CalciumIonDyn, 254-Seita-GrowthDyn, 257-Kubota-ERKActivity,
258-Oginuma-EmbryoDev, 259-Lu-TemperatureDyn, 267-Sugiura-CellDyn,
268-Oishi-VesselClassification, 269-Wang-CellPhysicalDyn, 271-Tanaka-FilamentDev,
272-Yoshida-EGFRSignalingDyn, 274-Aini-MitochondrialDyn, 275-Sasaki-HistonDyn,
277-Matsuura-Suzuki-CryoEM, 279-Suzuki-CaspaseActivity, 281-Kogure-EmbryoDev,
283-Kanadome-CellAdhesion, 291-Deguchi-SARS-CoV2, 294-Asamitsu-DNAPTP6Dyn,
295-Katoh-CiliumDyn, 296-Kawabata-MouseBrainShape
We present an upgrade of the QtBD5Viewer software. This new version offers:
- Visualize track paths described in the BD5 format.
- Show objects and label names as a hierarchical tree. With this tree, the user can turn on/off individual objects. It also lets to define individual colors for labels. The software interface assigns an individual color to every biological entity marked with a label for its easy differentiation.
- Support for Xbox-compatible controllers. By default, the interaction is performed with the mouse and keyboard. Now, the user has the option of more friendly interaction with the support of an Xbox-compatible controller.
- Improve mouse interaction and fix bugs when reading BD5 files.
Try QtBD5Viewer at https://github.com/openssbd/QTBD5Viewer
Due to urgent maintenance of SSBD OMERO, there are problems viewing images. We are working to resolve the problem.
QTBD5Viewer https://github.com/openssbd/QTBD5Viewer - a visualizer for BD5-format files - is now available. It runs on Windows, macOS, and Ubuntu Linux. BD5-format is a unified file format for quantitative biodynamics data and SSBD:database provides various types of such data in BD5-format.
Due to system maintenance, the SSBD database, SSBD repository, and related databases will be unavailable from January 20, 17:00, to January 21, 17:00. Sorry for the inconvenience.
Due to system maintenance, SSBD might be unavailable between 9:00 am and 5:00 pm on Wednesday, December 7, 2022. Sorry for the inconvenience.
We are pleased to announce the SSBD:database 2022.11 update, which includes 1123 image datasets (6.5TB).
Added datasets are 163-Wang-MitochondrialDyn, 186-Tsuboi-TumorDyn, 187-Tsuboi-TumorDyn, 197-Bannai-CalciumIonSignaling, 199-Ichimura-MulticellularDyn, 209-Kimura-SkinMorphology, 210-Takeo-HFregeneration, 218-Tanaka-CellSignallingDyn, 222-Dodo-RamanImaging, 224-Kamada-MitosisDyn, 225-Seiriki-WholeBrainDev, 226-Matsumura-WholeBrainDev, 227-Egoshi-RamanImaging, 228-Kanadome-CellInteration, 229-Yamada-GeneExpression, 233-Nishiyama-CellDyn, 234-Kobayashi-ChemotaxisDyn, 235-Hattori-SmartphoneBioImaging, 239-Miyamoto-MitochondrialDyn, 240-Yoshizawa-MitosisDyn, 241-Vu-TemperatureDyn, 242-Wazawa-CellDyn.