When mentioning this database in publications, please use the following
1. Hsueh A, Rauch R. Ovarian Kaleidoscope Database: 10 Years and Beyond. Biol Reprod. 2012 Mar 21;. [Epub ahead of print] PMID: 22441797
Ovarian Kaleidoscope database (OKdb) is an online searchable public database containing text-based and DNA microarray data to facilitate research by ovarian researchers. Using key words and pre-determined categories, users can search ovarian gene information based on gene function, cell type of expression, cellular localization, hormonal regulation, mutant phenotypes, chromosomal location, ligand-receptor relationship, and other criteria, alone or in combination. For individual genes, users can access more than ten extensive DNA microarray datasets to interrogate gene expression patterns in a development- and cell type-specific manner. All ligand and receptors genes expressed in the ovary are matched to facilitate investigation of paracrine/autocrine signaling. More than 3,500 ovarian genes in the database are matched to 185 gene pathways in the KEGG (Kyoto Encyclopedia of Genes and Genomes) to allow elucidation of gene interactions and relationships. In addition to >400 genes with infertility or sub-fertility phenotypes when mutated in mice or man, the OKdb also lists ~50 and 40 genes associated with polycystic ovarian syndrome (PCO) and primary ovarian insufficiency (POI), respectively. The expanding OKdb is updated weekly and allows submission of new genes by ovarian researchers to allow instant access to DNA microarray datasets. The present database is a virtual community for ovarian researchers and allows users to instantaneously provide their comments to individual gene pages. In the coming years, we will continue to add new features to serve the ovarian research community.
2. Ben-Shlomo I, Vitt UA and Hsueh AJW. Perspective: The Ovarian Kaleidoscope Database-II.
Functional Genomic Analysis of an Organ-Specific Database. Endocrinology, 2002, 143:2041-2044.
In the postgenomic er, it is now possible to
investigate the function of all human genes to provide an integrated view of physiology and pathophysiology.
An organ-based approach has been used to set up a database integrating existing textbased literature on
individual ovarian genes and their sequence-based data in the GenBank. The Ovarian
Kaleidoscope database (OKdb) has accumulated nearly one thousand individual gene pages
that are searchable based on gene function, cellular localization, chromosomal position,
ovarian cell type, ovarian function, mutant phenotypes, and other criteria. The present
review exemplifies the use of this organbased database in setting up gene pathway maps for DNA
array analysis, identifying key gene networks essential for infertility phenotypes, comparing
chromosomal synteny regions for finding candidate fertility genes, categorizing cell-specific and hormonally
coregulated genes for promoter analysis, and documenting potential ligands and receptors in the paracrine
regulation of follicular development. The present global analysis of gene function and relationships in an
organ-specific manner provides a functional genomic paradigm for the future understanding of the physiology
and pathophysiology of diverse organs.
3. Leo PC, Vitt UA and Hsueh AJW. The Ovarian Kaleidoscope database (OKdb)
– an online resource for the ovarian research community. Endocrinology, 2000, 141:3052-3054.
The Ovarian Kaleidoscope database
(OKdb) is a collaborative online resource for scientists investigating
the ovary. It provides information regarding the biological function, expression
pattern, and regulation of genes expressed in the ovary, as well as for
the phenotypes associated with their mutation. In addition, the records
in the OKdb are linked to other sites offering online information about
biomedical publications, nucleotide and amino acid sequences, and human
genes and genetic disorders. A powerful search tool allows the retrieval
of records for specific genes and gene products based on their properties
at the molecular, cellular, ovarian, or organism level. Researchers working
on particular aspects of ovarian physiology can submit information into
the database through a simple web-based form and instantly update their
records as additional data become available. Because of this approach,
the OKdb website could serve as a tool with which to navigate through the
rapidly expanding amount of information about the expression and function
of individual genes in the ovary, and could also enhance communication
within the ovarian research community. Moreover, the design of the OKdb
could serve as a model for the development of other online databases of
tissue-specific gene expression and function. The Ovarian Kaleidoscope
database can be accessed at http://ovary.stanford.edu/.