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2.
Bioinformatics ; 24(3): 422-3, 2008 Feb 01.
Artigo em Inglês | MEDLINE | ID: mdl-18202028

RESUMO

MOTIVATION: With the rapid accumulation of genetic data for a multitude of different species, the availability of intuitive comparative genomic tools becomes an important requirement for the research community. Here we describe a web-based comparative viewer for mapping data, including genetic, physical and cytological maps, that is part of the SGN website (http://sgn.cornell.edu/) but that can also be installed and adapted for other websites. In addition to viewing and comparing different maps stored in the SGN database, the viewer allows users to upload their own maps and compare them to other maps in the system. The viewer is implemented in object oriented Perl, with a simple extensible interface to write data adapters for other relational database schemas and flat file formats.


Assuntos
Mapeamento Cromossômico/métodos , Gráficos por Computador , Locos de Características Quantitativas/genética , Alinhamento de Sequência/métodos , Análise de Sequência de DNA/métodos , Software , Interface Usuário-Computador , Algoritmos , Evolução Molecular
3.
Plant Physiol ; 138(3): 1310-7, 2005 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-16010005

RESUMO

The SOL Genomics Network (SGN; http://sgn.cornell.edu) is a rapidly evolving comparative resource for the plants of the Solanaceae family, which includes important crop and model plants such as potato (Solanum tuberosum), eggplant (Solanum melongena), pepper (Capsicum annuum), and tomato (Solanum lycopersicum). The aim of SGN is to relate these species to one another using a comparative genomics approach and to tie them to the other dicots through the fully sequenced genome of Arabidopsis (Arabidopsis thaliana). SGN currently houses map and marker data for Solanaceae species, a large expressed sequence tag collection with computationally derived unigene sets, an extensive database of phenotypic information for a mutagenized tomato population, and associated tools such as real-time quantitative trait loci. Recently, the International Solanaceae Project (SOL) was formed as an umbrella organization for Solanaceae research in over 30 countries to address important questions in plant biology. The first cornerstone of the SOL project is the sequencing of the entire euchromatic portion of the tomato genome. SGN is collaborating with other bioinformatics centers in building the bioinformatics infrastructure for the tomato sequencing project and implementing the bioinformatics strategy of the larger SOL project. The overarching goal of SGN is to make information available in an intuitive comparative format, thereby facilitating a systems approach to investigations into the basis of adaptation and phenotypic diversity in the Solanaceae family, other species in the Asterid clade such as coffee (Coffea arabica), Rubiaciae, and beyond.


Assuntos
Bases de Dados de Ácidos Nucleicos , Genoma de Planta , Solanaceae/genética , Arabidopsis/genética , Capsicum/genética , Biologia Computacional/métodos , DNA de Plantas/genética , Armazenamento e Recuperação da Informação , Solanum lycopersicum/genética , Solanum melongena/genética , Solanum tuberosum/genética
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