Phenotyping
PHENOTYPING
GENERAL
Centre for Modelling Human Diseases
http://www.cmhd.ca/enu_mutagenesis/physiology_assays.html
A portal for many techniques for functional phenotyping of induced mouse mutants.
Eumorphia European Mouse Phenotyping Resource of Standardised Screens (EMPReSS)
http://www.eumorphia.org/EMPReSS/servlet/EMPReSS.Frameset
A systematic series of standard operating procedures (for both functional and structural assays) suitable for primary phenotypic screening of novel mutant mice.
Institute for Laboratory Animal Research
http://dels.nas.edu/ilar_n/ilarhome/index.shtml
A general resource for scientific and policy discussions regarding laboratory animals in biomedical research. The free online archive of the ILAR Journal house several issues devoted to mouse models.
Phenome Database (Jackson Laboratory)
The home page for an extensive collection of mouse physiologic data that can be searched by strain, organ system, or measured parameter. Links to protocols for acquiring such data are also provided.
Protocol Online
http://www.protocol-online.org/
A core site with links to many procedures for animal-based investigation of human diseases, including histology, pathology, and surgical methods.
SHIRPA Protocol for Phenotypic Assessment
http://www.mgu.har.mrc.ac.uk/facilities/mutagenesis/mutabase/shirpa_summary.html
A text and tabular description of a comprehensive functional and structural phenotyping protocol for mice.
PATHOLOGY – EXPERTISE
ACADEMIA
German Mouse Clinic
http://www0.gsf.de/ieg/gmc/index.html
Institut Clinique de la Souris (University of Strasbourg, France)
http://www-mci.u-strasbg.fr/ao.html
Johns Hopkins University Rodent Phenotyping Center
http://www.hopkinsmedicine.org/comparativemedicine/phenocenter/
Ohio State University Mouse Phenotyping Shared Resource
http://www.vet.ohio-state.edu/255.htm
University of California – Davis Mutant Mouse Pathology Laboratory
http://tgmouse.compmed.ucdavis.edu/HistoLab/
University of Michigan Unit for Laboratory Animal Medicine
http://www.ulam.umich.edu/services/pathcons.htm
University of Missouri – Columbia Research Animal Diagnostic Laboratory (RADIL)
http://www.radil.missouri.edu/info/diagtesting/services/pathology.asp
Yale University Mouse Research Pathology
http://mrp.yale.edu/index.html
INDUSTRY
Charles River Laboratories
http://criver.com/research_models_and_services/transgenic_services/tgsphenotyping.html
Frimorfo
Jackson Laboratory Phenotyping Services
http://jaxmice.jax.org/services/phenotyping.html
A comprehensive portal to resources for mouse anatomical phenotyping.
Taconic
http://www.taconic.com/RAS/phenotyping.htm
GOVERNMENT
NCI Pathology & Histotechnology Laboratory
http://web.ncifcrf.gov/rtp/lasp/phl/
PATHOLOGY – METHODS
GENERAL
Pathmax
http://www.pathmax.com/main.html
A comprehensive compilation of links to thousands of sites for medical and veterinary pathology.
Pathology and Biology of Genetically-Engineered Mice
http://www.niaid.nih.gov/dir/services/animalcare/VetPathology/Genetically-Engineered%20Mice.html
A series of links to mouse phenotyping resources on the Web.
Pathology Useful Links (Institute for Cancer Genetics, University of Columbia)
http://icg.cpmc.columbia.edu/cattoretti/Protocol/Links.html
A clearing house for rodent pathology resources on the Web.
NECROPSY
Guide to Necropsy of the Mouse (EUropean Late Effects Project [EULEP])
http://www.eulep.org/Necropsy_of_the_Mouse/index_2004.php
A good necropsy protocol for evaluating adult mice. The large photographs make this an excellent resource for self-study.
Virtual Mouse Necropsy
http://www.niaid.nih.gov/dir/services/animalcare/Mousenecropsy/necropsy.html
http://www3.niaid.nih.gov/labs/aboutlabs/cmb/InfectiousDiseasePathogenesisSection/mouseNecropsy/
Another detailed necropsy protocol for evaluating adult mice. The schematic figures are well labeled.
TISSUE PROCESSING
Registry Nomenclature Information System (RENI)
http://www.item.fraunhofer.de/reni/trimming/TR_F.htm
A well-written and -illustrated guide for sampling organs and tissues of adult rats. The home page (http://www.item.fraunhofer.de/reni/index.htm) gives many links to additional pages describing mouse organs.
HISTOLOGIC STAINING TECHNIQUES
Histological Staining techniques (University of Bristol)
http://www.bris.ac.uk/Depts/PathAndMicro/CPL/histmeth.htm
An alphabetized and searchable compilation of detailed recipes for many traditional histological stains.
Histology Procedure Manuals (University of Utah)
http://www-medlib.med.utah.edu/WebPath/HISTHTML/MANUALS/ MANUALS.html
A list of recipes for many fixatives, stock solutions, and conventional histological stains, along with standard safety procedures for histology laboratory.
IMMUNOHISTOCHEMISTRY
Antibodies Applied to Mouse Tissue
http://tumor.informatics.jax.org/html/antibodies.html
An alphabetical listing of antibodies (available in both Excel and HTML formats) describing staining conditions, results, and suggested control tissues for dozens of antibodies.
Anti-mouse Primary Antibodies (Columbia University)
http://icg.cpmc.columbia.edu/cattoretti/Protocol/Mouse_IHC/Antibodies_for_mouse_IHC.html
A list of antibodies to detect several dozen epitopes on hematopoietic, immune, or neoplastic cells in mice.
Immunohistochemistry (Laboratory of Experimental Pathology, U.S. National Institute of Environmental Health Sciences [NIEHS])
http://dir.niehs.nih.gov/dirlep/immuno
A searchable database containing detailed protocols and numerous images for detecting dozens of antigens in rodent and human tissues.
Immunoportal
A clearing house for online protocols for immunohistochemistry (IHC) and in situ hybridization (ISH). Features include large image galleries of successful staining runs, searchable databases of reagent vendors, and forums for trouble shooting with like-minded investigators.
Murine Immunohistochemistry Database (U.S. National Cancer Institute [NCI])
http://web.ncifcrf.gov/rtp/lasp/phl/immuno
A searchable database giving optimized technical details for detecting several hundred antigens in mouse tissues.
Rodent Immunochemistry
IN SITU HYBRIDIZATION
Immunoportal
PATHOLOGY – FINDINGS
Mammalian Phenotype Browser (Jackson Laboratory)
http://www.informatics.jax.org/searches/MP_form.shtml
A searchable, hierarchical, alphabetical listing of phenotypes in numerous tissues cross-referenced to relevant genetic details and published descriptions.
Mouse Models with Immunological Phenotypes (Harvard University)
http://immunology.tch.harvard.edu/Knockouts
A searchable database for published descriptions of mouse mutants bearing gene-related defects in immune function. Genes may be explored by name, organ, phenotype, or key words.
Mouse Tumor Biology Database
http://tumor.informatics.jax.org/mtbwi/index.do
A searchable database containing details regarding the biology of induced and inherited neoplasms in many mouse strains. An allied database of tumor images can be explored by organ system, diagnosis, or antigen expression. Links are provided to many other websites regarding cancer biology.
Neurogenetics Online (University of Texas Health Science Center)
A growing high-resolution brain atlas of histologic and magnetic resonance images as well as genomic databases in dozens of mouse lines. The homepage has a link to the Mouse Brain Library (http://www.mbl.org/).
Pathbase
A searchable archive showing gross and histopathologic images derived from mutant mice. Photographs can be retrieved using many different parameters, including accession numbers that are linked to other mutant mouse databases.
Standardized System of Nomenclature and Diagnostic Criteria Guidelines
https://www3.afip.org/cgi-bin/bookstore.cgi#TOXIC
A site from the U.S. Armed Forces Institute of Pathology for purchasing monographs detailing anatomic descriptions of common lesions in humans, rats and mice. (The rodent SSNDC offerings are accessed via the “Guides of Toxicologic Pathology” link.)
