Pathbase and the MPATH ontology: Community resources for mouse histopathology

Veterinary Pathology

Volumn 47, Issue 6, 2010, Pages 1016-1020

  Schofield, P N ^a,b   Gruenberger, M ^a   Sundberg, John P ^b  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^b JACKSON LABORATORY   (United States)

Author keywords

database; mouse anatomy; mouse pathology; MPATH; ontology; phenotyping

Indexed keywords

ANIMAL; ARTICLE; FACTUAL DATABASE; HISTOLOGY; MOUSE; MOUSE MUTANT; PATHOLOGY; PHENOTYPE;

ANIMALS; DATABASES, FACTUAL; MICE; MICE, MUTANT STRAINS; PATHOLOGY; PHENOTYPE;

MUS;

EID: 78649926530     PISSN: 03009858     EISSN: 15442217     Source Type: Journal    
DOI: 10.1177/0300985810374845     Document Type: Article

References (31)

1. Bard JB, Rhee SY: Ontologies in biology: design, applications and future challenges. Nat Rev Genet 5:213-222, 2004.
2. Barthold SW, Borowsky AD, Brayton C., Bronson R., Cardiff RD, Griffey SM, Ince TA, Nikitin AY, Sundberg JP, Valli VE, Ward JM: From whence will they come? A perspective on the acute shortage of pathologists in biomedical research. J Vet Diagn Invest 19:455-456, 2007.
3. Bell SM, Kelly SA, Hoyle JA, Lewis FA, Taylor GR, Thompson H., Dixon MF, Quirke P.: c-Kiras gene mutations in dysplasia and carcinomas complicating ulcerative colitis. Br J Cancer 64:174-178, 1991.
4. Bogue MA, Grubb SC, Maddatu TP, Bult CJ: Mouse Phenome Database (MPD). Nucleic Acids Res 35:D643-D649, 2007.
5. Bolon B.: Internet resources for phenotyping engineered rodents. ILAR J 47:163-171, 2006.
6. Cardiff RD: Pathologists needed to cope with mutant mice. Nature 447:528-528, 2007.
7. Cardiff RD, Ward JM, Barthold SW: "One medicine-one pathology": are veterinary and human pathology prepared? Lab Invest 88:18-26, 2008.
8. Collins FS, Rossant J., Wurst W.: A mouse for all reasons. Cell 128:9-13, 2007.
9. Hancock JM, Mallon AM, Beck T., Gkoutos GV, Mungall C., Schofield PN: Mouse, man, and meaning: bridging the semantics of mouse phenotype and human disease. Mamm Genome 20:457-461, 2009.
10. Hayamizu TF, Mangan M., Corradi JP, Kadin JA, Ringwald M.: The adult mouse anatomical dictionary: a tool for annotating and integrating data. Genome Biol 6:R29, 2005.
11. Ince TA, Ward JM, Valli VE, Sgroi D., Nikitin AY, Loda M., Griffey SM, Crum CP, Crawford JM, Bronson RT, Cardiff RD: Do-it-yourself (DIY) pathology. Nat Biotechnol 26:978-979, 2008.
12. Kaufman M., Nikitin A., Sundberg JP: Comparative Embryology of the Endocrine System. CRC Press, Boca Raton, FL, 2010.
13. Krupke DM, Begley DA, Sundberg JP, Bult CJ, Eppig JT: The Mouse Tumor Biology database. Nat Rev Cancer 8:459-465, 2008.
14. Paunesku D., Paunesku T., Wahl A., Kataoka Y., Murley J., Grdina DJ, Woloschak GE: Incidence of tissue toxicities in gamma ray and fission neutron-exposed mice treated with Amifostine. Int J Radiat Biol 84:623-634, 2008.
15. Popesko P., Rajitov V., Hork J.: A Color Atlas of Anatomy of Small Laboratory Animals, vol. 2. Wolfe Publishing Ltd, London, 1992.
16. Rosenthal N., Brown S.: The mouse ascending: perspectives for human-disease models. Nat Cell Biol 9:993-999, 2007.
17. Schofield PN, Bard JB, Booth C., Boniver J., Covelli V., Delvenne P., Ellender M., Engstrom W., Goessner W., Gruenberger M., Hoefler H., Hopewell J., Mancuso M., Mothersill C., Potten CS, Quintanilla-Fend L., Rozell B., Sariola H., Sundberg JP, Ward A.: Pathbase: a database of mutant mouse pathology. Nucleic Acids Res 32:D512-D515, 2004.
18. Schofield PN, Bard JBL, Rozell B., Sundberg JP: Computational pathology: challenges in the informatics of phenotype description in mutant mice. In: Handbook on Genetically Engineered Mice, ed. Sundberg JP and Ichiki T, pp. 61-81. CRC Press, Boca Raton, FL, 2005.
19. Schofield PN, Brown SDM, Sundberg JP, Warren M., Dubus P., Ellender M., Fiette L., Rozell B., Quintanilla-Martinez L., Raspa M., Song J-Y., van der Valk M., Arends M., McKerlie C.: PRIME importance of pathology expertise. Nat Biotechnol 27:24-25, 2009.
20. Smith B., Ashburner M., Rosse C., Bard J., Bug W., Ceusters W., Goldberg LJ, Eilbeck K., Ireland A., Mungall CJ, Leontis N., Rocca-Serra P., Ruttenberg A., Sansone SA, Scheuermann RH, Shah N., Whetzel PL, Lewis S.: The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nat Biotechnol 25:1251-1255, 2007.
21. Stedman: Stedman's Medical Dictionary for the Health Professions and Nursing, 5th ed. Lippincott Williams & Wilkins, London, 2005.
22. Sundberg BA, Schofield PN, Gruenberger M., Sundberg JP: A data capture tool for mouse pathology phenotyping. Vet Pathol 46:1230-1240, 2009.
23. Sundberg JP, Hackman RC, HogenEsch H., Nikitin AY, Ward JM: Training mouse pathologists: five years of Pathology of Mouse Models of Human Disease Workshops. Toxicol Pathol 35:447-448, 2007.
24. Sundberg JP, Haschek WM, Hackman RC, HogenEsch H.: Developing a comprehensive mouse pathology program. Comp Med 54:615-619, 2004.
25. Sundberg JP, Schofield PN: A mouse by any other name. J Invest Dermatol 129:1599-1601, 2009.
26. Sundberg JP, Sundberg BA, Schofield PN: Integrating mouse anatomy and pathology ontologies into a diagnostic/phenotyping database: tools for record keeping and teaching. Mamm Genome 19:413-419, 2008.
27. Sundberg JP, Ward JM, Schofield PN: Where's the mouse info? Vet Pathol 46:1241-1244, 2009.
28. Tapio S., Schofield PN, Adelmann C., Atkinson MJ, Bard JL, Bijwaard H., Birschwilks M., Dubus P., Fiette L., Gerber G., Gruenberger M., Quintanilla-Martinez L., Rozell B., Saigusa S., Warren M., Watson CR, Grosche B.: Progress in updating the European Radiobiology Archives. Int J Radiat Biol 84:930-936, 2008.
29. Vahle J., Bradley A., Harada T., Herbert R., Kaufmann W., Kellner R., Mann P., Pyrah I., Rittinghausen S., Tanaka T.: The international nomenclature project: an update. Toxicol Pathol 37:694-697, 2009.
30. Virchow R.: Cellular Pathology as Based Upon Physiological and Pathological Histology, 2nd ed. p. 554. R M DeWitt, New York, NY, 1860.
31. Yuan R., Tsaih SW, Petkova SB, de Evsikova CM, Xing S., Marion MA, Bogue MA, Mills KD, Peters LL, Bult CJ, Rosen CJ, Sundberg JP, Harrison DE, Churchill GA, Paigen B.: Aging in inbred strains of mice: study design and interim report on median lifespans and circulating IGF1 levels. Aging Cell 8:277-287, 2009.