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Public databases with primary data are ...
  useful
  a lot of work
  too much work
  not reliable due to lack of validation
Links / Science Watch Links

Mouse strain information and resources (inbred and mutant)  
International Mouse Strain Resources http://www.informatics.jax.org/imsr/index.jsp
JAX Mice http://jaxmice.jax.org/index.html
Federation of International Mouse Resources http://www.fimre.org
Mouse Mutant Resource http://www.jax.org/mmr/index.html
Mouse Mutant Regional Resource Centers http://www.mmrrc.org
Riken Bioresource Center http://www.brc.riken.jp/lab/animal/en
The European Mouse Archive http://www.emmanet.org
Mouse Models of Human Cancer Consortium http://mouse.ncifcrf.gov
Canadian Mouse Mutant Repository http://www.cmmr.ca/index.html
MUGEN Mutant Mice Database http://www.mugen-noe.org/index.php?MODULE=bce/application/pages&Branch=N_N0000000015
Knockout and transgenic mice  
International Gene Trap Consortium http://www.genetrap.org
Mouse Genome Infomatics Deltagen/Lexicon http://www.informatics.jax.org
Induced Mutant Resource,  Jackson Laboratory http://www.jax.org/imr/index.html
Samuel Lunenfeld Research Institute http://www.mshri.on.ca/nagy
Mouse Mutant Regional Resource Centers http://www.mmrrc.org
Micer http://www.sanger.ac.uk/PostGenomics/mousegenomics
Sequence/phenotype databases  
Ensembl http://www.ensembl.org/Mus_musculus/index.html
Map Viewer at NCBI http://www.ncbi.nlm.nih.gov/mapview
Genome Browser,  UCSC http://genome.ucsc.edu/cgi-bin/hgGateway
Mouse Genome Informatics Database http://www.informatics.jax.org
Vertebrate Genome Annotation http://vega.sanger.ac.uk/index.html
Panther http://pantherdb.org
Mouse Phenome Database http://www.jax.org/phenome
Eumorphia http://www.eumorphia.org
Mouse Tumor Biology Database http://tumor.informatics.jax.org
German Mouse Clinic http://www.gsf.de/ieg/gmc
Pathways analysis  
Ingenuity http://www.ingenuity.com
GenMAPP http://www.genmapp.org
KEGG Pathway Database http://www.genome.jp/kegg/pathway.html
SNP databases  
Roche http://mousesnp.roche.com
GNF http://snp.gnf.org
NCBI http://www.ncbi.nlm.nih.gov/SNP
Mouse Phenome Database http://aretha.jax.org/pub-cgi/phenome/mpdcgi?rtn=snps/door
Mouse Genome Informatics Database http://www.informatics.jax.org/menus/strain_menu.shtml
Perlegen http://mouse.perlegen.com/mouse
Wellcome Trust Centre for Human Genetics http://www.well.ox.ac.uk/mouse/INBREDS
Broad Institute http://www.broad.mit.edu/personal/claire/MouseHapMap/Inbred.htm
Expression databases  
GNF SymAtlas http://symatlas.gnf.org
Institute for Genomic Research http://pga.tigr.org
Gene Expression Omnibus http://www.ncbi.nlm.nih.gov/geo
The Jackson Laboratory http://www.informatics.jax.org/menus/expression_menu.shtml
Brain Atlas http://www.brainatlas.org
GenSat http://www.gensat.org/index.html
EMAGE http://genex.hgu.mrc.ac.uk/Emage/database/emageIntro.html
Comparative genomics  
VISTA http://genome.lbl.gov/vista/index.shtml
Mouse Genome Informatics Database http://www.informatics.jax.org/menus/homology_menu.shtml
Rat Genome Database http://www.rgd.mcw.edu/VCMAP/mapview.shtml
Quantitative traits analysis  
The Jackson Laboratory, Churchill Laboratory http://www.jax.org/staff/churchill/labsite
R/qtl http://www.biostat.jhsph.edu/~kbroman/qtl
Web/QTL http://www.genenetwork.org/home.html
The Jackson Laboratory PGA http://pga.jax.org/resources/index.html
The Complex Trait Consortium http://www.complextrait.org
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