Other
> Links
<Image databases>
GENSAT
RI ISH images and GFP expression of BAC transgenic mouse lines（linked to Entrez)
ref) Nature. (2003) 425:917-25.
Allen Brain Atlas
ISH database of adult mouse brain by Allen institute
ref) Nature. (2007) 445:168-76.
genepaint.org
ISH database of embryo to early postnatal mouse
ref) J Physiol. (2006) 575:347-52.
BRAIBMAPS.ORG
Zoomable high resolution image databases of brain sections from various model animals including those from primates. There are several (although not many yet) good antibody-stained images. Good links to various related sites.
ref) Neuroimage. (2007) 35:9-15
Comparative Mammalian Brain Collections
You can find photos of brains of various mammalian species, as well as stained sections of select animals. Splendid place for educational purposes. It's quite a fun just to browse.
<Gene databases＞
Entrez Gene
A section of NCBI（National Center for Biotechnology Information) homepage. In this section, the sequence information is classified by genes. There are usually several files for a particular gene submitted by different labs. Quite often, each lab uses different names to designate the same gene. There are also alternative transcripts and the same gene of different species. In this database, these informations are neatly currated. Linked to Pubmed (literature database), GENSAT (see above), BLAST (homology search).
NEDO database
HUGE database
Rouge database
These are databases derived from the cDNA cloning projects performed by Kazusa DNA research institute and others. You can obtain full-length cDNAs for long transcripts, which are difficult to clone by PCR. There are also many useful information associated with each clone, including expression data.
＜Others＞
CoCoMac Database for neural connectivity of macaque monkey brain.
Van Essen lab homepage
You can obtain "Caret" and other softwares, used for surface-based analyses of cerebral cortex. There are also surfaced-based atlases of human, macaque etc...
Neuroscience database gateway
Gateway to various neuroscience databases. This site was organized by Society for Neuroscience with the initiative to integrate useful information scattered on the Web.
Translating Time
A homepage for translating developmental time between different mammalian species.
National Institute for Basic Biology
Yamamori Lab
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> Contact
Send you questions and comments about this homepage to
Akiya Watakabe
brish @nibb.ac.jp (delete the space before @)
We welcome your feedback to make this website better and more useful.
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> Copyright
Many of the photos presented in this website was used in our past publications. The copyright of each photo belongs to the publisher of the journal cited. We also borrowed some brain photos from Comparative mammalian brain collection (their copyright policy is presented in their top page).Other photos with no citations are unpublished data of Yamamori lab and we hold their copyright. We (National Insitute for Basic Biology) also hold the copyright of other contents, including figures and explanations. The basic design of this website was obtained from FreeCSSTemplates.org, which provides copyright-free materials.
> Origins of the protocols etc
>> Origins of the protocols* Floating ISH
We collaborated with Drs. FL and TH, who taught us their method (ref1). Dr. ST was the first in our laboratory to use their technique for the analysis of area-specific genes. With the effort of Dr. YK, we are now routinely using the technique for our study. The protocol introduced in this homepage is based on the accumulation of experiences that our lab has gone through.
* Slideglass ISH
This method was first published by Dr. Schaeren-Wiemers et al (ref2), and was introduced into our laboratory by Dr. TK.
* Fluorescent double ISH
The signal amplification procedure for TSA kit was first optimized by AW. Its application for double ISH was carried out by AW and YK. There are several other groups that independently succeeded in the use of TSA kit for double ISH.
* Protocol for homemade TSA-biotin
This protocol was obtained from Cepco lab homepage (here). Other reference that we looked is this.
>> Origins of the ISH probes.
The template plasmids for the ISH probes registered in the "Probe list" section was constructed by Yamamori lab. The search engine in that section was programmed by Ms. HN in NIBB computer lab.
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