Ranked lists of rare and genetic diseases are produced for medical professionals.
You can automatically extract signs and symptoms from medical records by doc2hpo and obtain a ranked list of diseases based on these inputs.
PubCaseFinder will support the Phenopackets format, which is ideal for sharing phenotypic data.
In the future, we plan to provide the capability to save more individual's medically relevant data in Phenopackets format.
We provide APIs to query PubCaseFinder.
The PubCaseFinder API has been adopted by several patient repositories in the Matchmaker Exchange project.
Use in Education
PubCaseFinder can be used as an educational tool for clinical genetics.
In a class at Erasmus Medical Center, one of the largest medical facilities in Europe, PubCaseFinder has been introduced and used for exercises.
Finding Case Reports
You can search for case reports for each disease.
300,000 published case reports included in PubMed are searchable for each disease.
Finding Open-Sharing Cases
You can search about 19,000 open-sharing cases available on the Internet.
By specifying phenotypes and genes, you can search for open-sharing cases and access their websites.
You can prioritize candidate disease-causing genes according to the phenotypic similarity.
By specifying candidate disease-causing genes in Filter, you can get ranked lists of diseases, genes, and open-sharing case related to the input.
PubCaseFinder supports English and Japanese. More languages will be supported in the future.
Please let us know if you have a language you would like support for.
Managing Patient Records
We plan to provide a secure feature for easy management of case records.
In the future, we plan to provide a secure feature to manage a set of case records. Individual records can be managed locally by the user.
When you use PubCaseFinder in your publications, please cite:
Fujiwara, T., Yamamoto, Y., Kim, J. D., Buske, O., & Takagi, T. (2018). PubCaseFinder: A case-report-based, phenotype-driven differential-diagnosis system for rare diseases. The American Journal of Human Genetics, 103(3), 389-399.
Yamaguchi, A., Shin, J. M., & Fujiwara, T. (2021, December). Gene Ranking based on Paths from Phenotypes to Genes on Knowledge Graph. IJCKG'21: The 10th International Joint Conference on Knowledge Graphs, 131–134, https://doi.org/10.1145/3502223.3502240
Fujiwara, T., Shin, J. M., & Yamaguchi, A. (2022). Advances in the development of PubCaseFinder, including the new application programming interface and matching algorithm. Human mutation, 43(6), 734–742. https://doi.org/10.1002/humu.24341