Name
Title | ||
|---|---|---|
Phenosite: a web database integrating the mouse phenotyping platform and the experimental procedures in mice. |
Abstract | ||
|---|---|---|
Recently, a number of collaborative large-scale mouse mutagenesis programs have been launched. These programs aim for a better understanding of the roles of all individual coding genes and the biological systems in which these genes participate. In international efforts to share phenotypic data among facilities/institutes, it is desirable to integrate information obtained from different phenotypic platforms reliably. Since the definitions of specific phenotypes often depend on a tacit understanding of concepts that tends to vary among different facilities, it is necessary to define phenotypes based on the explicit evidence of assay results. We have developed a website termed PhenoSITE (Phenome Semantics Information with Terminology of Experiments: http://www.gsc.riken.jp/Mouse/), in which we are trying to integrate phenotype-related information using an experimental-evidence-based approach. The site's features include (1) a baseline database for our phenotyping platform; (2) an ontology associating international phenotypic definitions with experimental terminologies used in our phenotyping platform; (3) a database for standardized operation procedures of the phenotyping platform; and (4) a database for mouse mutants using data produced from the large-scale mutagenesis program at RIKEN GSC. We have developed two types of integrated viewers to enhance the accessibility to mutant resource information. One viewer depicts a matrix view of the ontology-based classification and chromosomal location of each gene; the other depicts ontology-mediated integration of experimental protocols, baseline data, and mutant information. These approaches rely entirely upon experiment-based evidence, ensuring the reliability of the integrated data from different phenotyping platforms. |
Year | DOI | Venue |
|---|---|---|
2007 | 10.1142/S0219720007003168 | J. Bioinformatics and Computational Biology |
Keywords | Field | DocType |
phenotype,terminology,protocol,ontology,database | Ontology,Terminology,Computer science,Coding (social sciences),Phenome,Bioinformatics,Database,Semantics,The Internet | Journal |
Volume | Issue | ISSN |
5 | 6 | 0219-7200 |
Citations | PageRank | References |
5 | 0.60 | 4 |
Authors | ||
6 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Hiroshi Masuya | 1 | 70 | 12.08 |
| Sumi Yoshikawa | 2 | 48 | 4.11 |
| Naohiko Heida | 3 | 19 | 3.10 |
| Tetsuro Toyoda | 4 | 94 | 17.08 |
| Shigeharu Wakana | 5 | 32 | 3.72 |
| Toshihiko Shiroishi | 6 | 32 | 4.33 |