Resources
SeeDB Resources
- SeeDB Resources SeeDB, SeeDB2 and related information are summarized, including protocols, technical tips, and movies.
Japanese version is here.
SeeDB YouTube: [YouTube(1)] [YouTube(2)] [YouTube(3)]
SeeDB2 YouTube: [YouTube(1)] [YouTube(2)][YouTube(3)]
SeeDB and SeeDB2 are commercialzied from FUJIFILM Wako Pure Chemical: SeeDB Kit and SeeDB2 Kit.
NeuroMorph.org
Neuronal morphology data obtained with cleared brain tissues are deposited to NeuroMorph.Org. You can find our data through Browse > By Archive > Imai. Here is the website (Ke et al., 2013; Ke et al., 2016; Murai et al., 2016).
SSBD (raw microscopy data)
Microscopy data from our lab are deposited to Systems Science of Biological Dynamics (SSBD) database. They are free to see, download, and re-use for research purposes.
Ke et al., Nature Neuroscience (2013)
Ke et al., Cell Reports (2016)
Sakaguchi et al., eLife (2018)
Inagaki et al., Cell Reports (2020)
Addgene (plasmids)
GitHub (source code)
Tetbow codes from Sakaguchi et al., eLife (2018)
Protocols
SeeDB, SeeDB2, Tetbow, …
- SeeDB Resources SeeDB, SeeDB2 protocols and technical TIPs.
- SeeDB protocol in bio-protocol
- SeeDB2 protocol in bio-protocol
- Tetbow protocol in Addgene
Single-cell microarray (Imai et al., 2009)
- overview
- Single cell preparation
- T7 promoter-liked cDNA synthesis from single cells
- Cy Dye Labeling (for Agilent)
- Hybridization (Agilent 4x44k)
- *“>Quartz-Seq is an updated version of single cell transcriptome analysis based on our original protocol.
Single-cell cDNA library (Imai et al., 2006)
Single cell cDNA library (simple version)
Two-color in situ hybridization (Imai et al., 2006; Imai et al., 2009)
- Two-color in situ hybridization (TSA/TSA)
- Two-color in situ hybridization (TSA/FastRed)
- IHC/ISH double staining
Other protocols
Mice
- I7-IRES-gapCFP
- I7-IRES-Cre
- I7(RDY)-IRES-gapYFP
- caGs-IRES-gapYFP
- I7(RDY)-IRES-caGs-IRES-gapCFP
- I7-IRES-dnPKA-IRES-gapYFP
- MOR23(del)-Venus
- MOR23(del)-Cre-gapCFP line 17
- MOR23(del)-Cre-gapCFP line 6 (class II-Cre)
- I7(RDY)-IRES-Nrp1-IRES-gapCFP or here
- Gng8 KO
- OMP-tTA BAC Tg (in prep)
- R26-TRE-GCaMP3 BAC Tg (in prep)
Any questions and feedback are welcome!