About transgenic/knockout mice and ES cells in general
Protocols and reagents for mouse ES cell work
(There are many varieties of online and print protocols for mouse ES cell work. It often ends up being that you do you best and find what works for you. Here are a few that I found the most useful)
- From Chemicon, makers of ESGRO (LIF) Has many pictures to help you know if your cells look right.
- From Boris Greber
- Nagy Lab Web site information about ES cells and the definitive Cre mouse database.
- The NCBI CloneRegistry provides information about BAC clones and who is distributing them.
- Roswell Park Cancer Institute (RPCI) If you cannot find an individual BAC in the databases that has your gene of interest (or, if you want to use a BAC from a 129 library and most available BACs are on the C57B6 genome) you can purchase a library from RPCI. - I recommend screening the RPCI-22 Mouse 129 library filters and then order the positive clones to make your targeting vector.
Databases of knockout mice/cells that have already been generated
- The International Mouse Strain Resource (IMSR) is a searchable online database of mouse strains and stocks available worldwide, including inbred, mutant, and genetically engineered mice.
- The Federation of International Mouse Resources (FIMRe) is a collaborating group of Mouse Repository and Resource Centers worldwide whose collective goal is to archive and provide strains of mice as cryopreserved embryos and gametes, ES cell lines, and live breeding stock to the research community.
- The Gene Expression Nervous System Atlas GENSAT database contains a gene expression atlas of the central nervous system of the mouse based on bacterial artificial chromosomes (BACs).
- Knockout mice generated by Gensat (and many other projects) are being transferred to Mutant Mouse Regional Resource Centers (MMRRC) for distribution. The purpose of the MMRRC is to ensure the continued availability of scientifically valuable, genetically engineered mice and to distribute these mice to qualified researchers studying human and animal biology and disease.
- The Trans-NIH Mouse Initiatives have listed the readily-available knockout mice and information on their phenotypes. These include mice in the collections of the Mutant Mouse Regional Resource Center (MMRRC), and Jackson Labs (JAX).
- The International Gene Trap Consortium is a subgroup of the International Mouse Mutagenesis Consortium and provides an international resource of embryonic stem cells with gene trap insertions in every or most genes in the mouse genome.
- The Knockout Mouse Project (KOMP), a trans-NIH initiative to generate a public resource of mouse embryonic stem (ES) cells containing a null mutation in every gene in the mouse genome, accepts nominations for genes to knock out.
Mouse Genomic Databases
- The UCSC Genome Browser (highly recommended)
- Ensemble Mouse Annotated genomic sequence for the C57B6 mouse genome. Easier than the UCSC for initial info, but then but has its limits. I find it the best way to clearly see the intron/exon sequences of a gene.