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The Rat Genome Database 2013--data, tools and users.

Laulederkind SJ, Hayman GT, Wang SJ, Smith JR, Lowry TF, Nigam R, Petri V, de Pons J, Dwinell MR, Shimoyama M, Munzenmaier DH, Worthey EA, Jacob HJ - Brief. Bioinformatics (2013)

Bottom Line: The impact of RGD also goes beyond the traditional biomedical researcher, as the influence of RGD reaches bioinformaticians, tool developers and curators.Import of RGD data into other publicly available databases expands the influence of RGD to a larger set of end users than those who avail themselves of the RGD website.The value of RGD continues to grow as more types of data and more tools are added, while reaching more types of end users.

View Article: PubMed Central - PubMed

Affiliation: Human and Molecular Genetics Center, Medical College of Wisconsin, 8701 Watertown Plank Rd, Milwaukee, WI 53226-3548, USA. slaulederkind@mcw.edu

ABSTRACT
The Rat Genome Database (RGD) was started >10 years ago to provide a core genomic resource for rat researchers. Currently, RGD combines genetic, genomic, pathway, phenotype and strain information with a focus on disease. RGD users are provided with access to structured and curated data from the molecular level through the organismal level. Those users access RGD from all over the world. End users are not only rat researchers but also researchers working with mouse and human data. Translational research is supported by RGD's comparative genetics/genomics data in disease portals, in GBrowse, in VCMap and on gene report pages. The impact of RGD also goes beyond the traditional biomedical researcher, as the influence of RGD reaches bioinformaticians, tool developers and curators. Import of RGD data into other publicly available databases expands the influence of RGD to a larger set of end users than those who avail themselves of the RGD website. The value of RGD continues to grow as more types of data and more tools are added, while reaching more types of end users.

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Related in: MedlinePlus

VCMap tool. A view of homologous regions of rat, mouse and human chromosomes containing the Ptgs1/PTGS1 gene and its syntenic neighbors. VCMap also contains genetic/genomic maps of other vertebrates (cow, chicken, horse and pig).
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bbt007-F3: VCMap tool. A view of homologous regions of rat, mouse and human chromosomes containing the Ptgs1/PTGS1 gene and its syntenic neighbors. VCMap also contains genetic/genomic maps of other vertebrates (cow, chicken, horse and pig).

Mentions: A third comparative genomics feature at RGD is VCMap (Figure 3) [14], which is a tool that compares genomic positions of genes simultaneously between different species, including rat, mouse and human. It gives a finer view than GBrowse of syntenic regions between species. The relative locations of numerous genes can be viewed in one window and compared across species.Figure 3:


The Rat Genome Database 2013--data, tools and users.

Laulederkind SJ, Hayman GT, Wang SJ, Smith JR, Lowry TF, Nigam R, Petri V, de Pons J, Dwinell MR, Shimoyama M, Munzenmaier DH, Worthey EA, Jacob HJ - Brief. Bioinformatics (2013)

VCMap tool. A view of homologous regions of rat, mouse and human chromosomes containing the Ptgs1/PTGS1 gene and its syntenic neighbors. VCMap also contains genetic/genomic maps of other vertebrates (cow, chicken, horse and pig).
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3713714&req=5

bbt007-F3: VCMap tool. A view of homologous regions of rat, mouse and human chromosomes containing the Ptgs1/PTGS1 gene and its syntenic neighbors. VCMap also contains genetic/genomic maps of other vertebrates (cow, chicken, horse and pig).
Mentions: A third comparative genomics feature at RGD is VCMap (Figure 3) [14], which is a tool that compares genomic positions of genes simultaneously between different species, including rat, mouse and human. It gives a finer view than GBrowse of syntenic regions between species. The relative locations of numerous genes can be viewed in one window and compared across species.Figure 3:

Bottom Line: The impact of RGD also goes beyond the traditional biomedical researcher, as the influence of RGD reaches bioinformaticians, tool developers and curators.Import of RGD data into other publicly available databases expands the influence of RGD to a larger set of end users than those who avail themselves of the RGD website.The value of RGD continues to grow as more types of data and more tools are added, while reaching more types of end users.

View Article: PubMed Central - PubMed

Affiliation: Human and Molecular Genetics Center, Medical College of Wisconsin, 8701 Watertown Plank Rd, Milwaukee, WI 53226-3548, USA. slaulederkind@mcw.edu

ABSTRACT
The Rat Genome Database (RGD) was started >10 years ago to provide a core genomic resource for rat researchers. Currently, RGD combines genetic, genomic, pathway, phenotype and strain information with a focus on disease. RGD users are provided with access to structured and curated data from the molecular level through the organismal level. Those users access RGD from all over the world. End users are not only rat researchers but also researchers working with mouse and human data. Translational research is supported by RGD's comparative genetics/genomics data in disease portals, in GBrowse, in VCMap and on gene report pages. The impact of RGD also goes beyond the traditional biomedical researcher, as the influence of RGD reaches bioinformaticians, tool developers and curators. Import of RGD data into other publicly available databases expands the influence of RGD to a larger set of end users than those who avail themselves of the RGD website. The value of RGD continues to grow as more types of data and more tools are added, while reaching more types of end users.

Show MeSH
Related in: MedlinePlus