OrganellarGenomeDRAW--a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets.
OrganellarGenomeDRAW--a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets.
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DOI：
10.1093/nar/gkt289
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发表时间：
2013-07
影响因子：
14.9
通讯作者：
Bock R
中科院分区：
文献类型：
--
作者：
Lohse M;Drechsel O;Kahlau S;Bock R
线粒体和质体（叶绿体）是具有内共生起源的细胞器，它们拥有自身的遗传信息。大多数细胞器DNA被绘制为环状双链基因组。在整个真核生物界，细胞器基因组的大小差异很大，范围从约15到20kb（大多数动物线粒体基因组的大小）到大于10Mb（某些开花植物谱系中线粒体基因组的大小）。我们开发了细胞器基因组绘图工具（OrganellarGenomeDraw，OGDRAW），这是一套软件工具，使用户能够为作为GenBank文件或登录号提供的环状和线性注释基因组序列创建高质量的可视化表示。尽管所有类型的DNA序列都可作为输入被接受，但该软件已经过专门优化，以恰当地描绘细胞器基因组的特征。最近的一项扩展功能便于将定量基因表达数据，如转录本或蛋白质丰度数据，直接绘制到基因组图谱上。OGDRAW已经被广泛使用，并且可作为一个免费的网络工具（http://ogdraw.mpimp - golm.mpg.de/）获取。其核心处理组件可作为一个Perl模块下载，因此也便于集成到自定义处理流程中。
Mitochondria and plastids (chloroplasts) are cell organelles of endosymbiotic origin that possess their own genetic information. Most organellar DNAs map as circular double-stranded genomes. Across the eukaryotic kingdom, organellar genomes display great size variation, ranging from ∼15 to 20 kb (the size of the mitochondrial genome in most animals) to >10 Mb (the size of the mitochondrial genome in some lineages of flowering plants). We have developed OrganellarGenomeDraw (OGDRAW), a suite of software tools that enable users to create high-quality visual representations of both circular and linear annotated genome sequences provided as GenBank files or accession numbers. Although all types of DNA sequences are accepted as input, the software has been specifically optimized to properly depict features of organellar genomes. A recent extension facilitates the plotting of quantitative gene expression data, such as transcript or protein abundance data, directly onto the genome map. OGDRAW has already become widely used and is available as a free web tool (http://ogdraw.mpimp-golm.mpg.de/). The core processing components can be downloaded as a Perl module, thus also allowing for convenient integration into custom processing pipelines.
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影响因子：
2.5
作者：
Lohse, Marc;Drechsel, Oliver;Bock, Ralph
通讯作者：
Bock, Ralph
影响因子：
4
作者：
GRAY, MW
通讯作者：
GRAY, MW
影响因子：
14.9
作者：
Grant JR;Stothard P
通讯作者：
Stothard P
影响因子：
7.2
作者：
Eberhard, S;Drapier, D;Wollman, FA
通讯作者：
Wollman, FA
影响因子：
7.2
作者：
Khakhlova, O;Bock, R
通讯作者：
Bock, R