TREAT: a bioinformatics tool for variant annotations and visualizations in targeted and exome sequencing data.
TREAT: a bioinformatics tool for variant annotations and visualizations in targeted and exome sequencing data.
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DOI：
10.1093/bioinformatics/btr612
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发表时间：
2012-01-15
期刊：
影响因子：
--
通讯作者：
Kocher JP
中科院分区：
文献类型：
--
作者：
Asmann YW;Middha S;Hossain A;Baheti S;Li Y;Chai HS;Sun Z;Duffy PH;Hadad AA;Nair A;Liu X;Zhang Y;Klee EW;Kalari KR;Kocher JP
摘要：TREAT （Targeted RE-sequencing Annotation Tool）是一种用于从靶向重测序和全外显子组测序中轻松导航和挖掘变体的工具。它提供了一个丰富的集成公开可用以及内部开发的注释和可视化的变体，变异宿主基因和宿主基因途径。可用性和实现：TREAT可以作为独立的注释和可视化工具免费提供给非商业用户，也可以作为集成测序比对和变体调用的综合工作流。TREAT的可执行文件、指令和Amazon Cloud Images可在以下网站下载：http://ndc.mayo.edu/mayo/research/biostat/stand-alone-packages.cfm联系邮箱：Hossain.Asif@mayo.edu；Kocher.JeanPierre@mayo.edu补充信息：补充数据可在Bioinformatics在线提供。
Summary: TREAT (Targeted RE-sequencing Annotation Tool) is a tool for facile navigation and mining of the variants from both targeted resequencing and whole exome sequencing. It provides a rich integration of publicly available as well as in-house developed annotations and visualizations for variants, variant-hosting genes and host-gene pathways. Availability and implementation: TREAT is freely available to non-commercial users as either a stand-alone annotation and visualization tool, or as a comprehensive workflow integrating sequencing alignment and variant calling. The executables, instructions and the Amazon Cloud Images of TREAT can be downloaded at the website: http://ndc.mayo.edu/mayo/research/biostat/stand-alone-packages.cfm Contact: Hossain.Asif@mayo.edu; Kocher.JeanPierre@mayo.edu Supplementary information: Supplementary data are provided at Bioinformatics online.
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DOI：
10.1126/science.1194472
发表时间：
2010-12-03
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Harbour JW;Onken MD;Roberson ED;Duan S;Cao L;Worley LA;Council ML;Matatall KA;Helms C;Bowcock AM
通讯作者：
Bowcock AM
影响因子：
14.8
作者：
Kumar, Prateek;Henikoff, Steven;Ng, Pauline C.
通讯作者：
Ng, Pauline C.
影响因子：
64.8
作者：
通讯作者：
--
影响因子：
3
作者：
Shetty AC;Athri P;Mondal K;Horner VL;Steinberg KM;Patel V;Caspary T;Cutler DJ;Zwick ME
通讯作者：
Zwick ME
影响因子：
12.3
作者：
Langmead B;Trapnell C;Pop M;Salzberg SL
通讯作者：
Salzberg SL