Osteo-Promoter Database (OPD) -- promoter analysis in skeletal cells.
BACKGROUND
Increasing our knowledge about the complex expression of genes in skeletal tissue will provide a better understanding of the physiology of skeletal cells. The study summarizes transcriptional regulation factors interacting and cooperating at promoter regions that regulate gene expression. Specifically, we analyzed A/T rich elements along the promoter sequences.


METHODS
The Osteo-Promoter Database (OPD) is a collection of genes and promoters expressed in skeletal cells. We have compiled a new viewer, OPD, as unique database developed and created as an accessible tool for skeletal promoter sequences. OPD can navigate to identify genes specific to skeletal cDNA databases and promoter analysis sites. OPD offers exclusive access to facilitate a dynamic extraction of promoters' gene-specific analyses in skeletal tissue. The data on promoters included in OPD contains cloned promoters or predicted promoters that were analyzed by bioinformatics tools. OPD offers MAR-analysis, which allocates A/T rich elements along these promoter sequences.


CONCLUSIONS
The analysis leads to a better insight of proteins that bind to DNA, regulate DNA, and function in chromatin remodeling. The OPD is a distinctive tool for understanding the complex function of chromatin remodeling and transcriptional regulation of specific gene expression in skeletal tissue.
Grienberg
Inbal
I
Department of Cell and Developmental Biology, Sackler School of Medicine, Tel-Aviv University, Israel. inbal_greenberg@hotmail.com
Benayahu
Dafna
D
D001842:Bone and Bones / Q000166:cytology*; D002843:Chromatin / Q000737:chemistry / Q000378:metabolism; D003001:Cloning, Molecular; D019295:Computational Biology / Q000379:methods; D004247:DNA / Q000378:metabolism; D018076:DNA, Complementary / Q000378:metabolism; D030561:Databases, Nucleic Acid; D020869:Gene Expression Profiling / Q000379:methods; D005786:Gene Expression Regulation; D015723:Gene Library; D006801:Humans; D010006:Osteoblasts / Q000378:metabolism*; D011401:Promoter Regions, Genetic; D012045:Regulatory Sequences, Nucleic Acid; D020218:Response Elements; D014157:Transcription Factors / Q000378:metabolism; D014158:Transcription, Genetic
D002843:Chromatin; D018076:DNA, Complementary; D014157:Transcription Factors; D004247:DNA