CARPET：一个用于分析芯片结合位点分析（ChIP-chip）和表达谱芯片数据的基于网络的软件包。
CARPET: a web-based package for the analysis of ChIP-chip and expression tiling data.
作者信息
Cesaroni Matteo, Cittaro Davide, Brozzi Alessandro, Pelicci Pier Giuseppe, Luzi Lucilla
机构信息
Department of Experimental Oncology, European Institute of Oncology, Via Ripamonti 435, 20141 Milano, Italy.
出版信息
Bioinformatics. 2008 Dec 15;24(24):2918-20. doi: 10.1093/bioinformatics/btn542. Epub 2008 Oct 21.
SUMMARY
CARPET (collection of automated routine programs for easy tiling) is a set of Perl, Python and R scripts, integrated on the Galaxy2 web-based platform, for the analysis of ChIP-chip and expression tiling data, both for standard and custom chip designs. CARPET allows rapid experimental data entry, simple quality control, normalization, easy identification and annotation of enriched ChIP-chip regions, detection of the absolute or relative transcriptional status of genes assessed by expression tiling experiments and, more importantly, it allows the integration of ChIP-chip and expression data. Results can be visualized instantly in a genomic context within the UCSC genome browser as graph-based custom tracks through Galaxy2. All generated and uploaded data can be stored within sessions and are easily shared with other users.
AVAILABILITY
摘要
CARPET（用于轻松拼接的自动化常规程序集合）是一组Perl、Python和R脚本，集成在基于Galaxy2的网络平台上，用于分析ChIP芯片和表达拼接数据，适用于标准芯片设计和定制芯片设计。CARPET允许快速输入实验数据、进行简单的质量控制、标准化、轻松识别和注释富集的ChIP芯片区域、检测通过表达拼接实验评估的基因的绝对或相对转录状态，更重要的是，它允许整合ChIP芯片和表达数据。结果可以通过Galaxy2在UCSC基因组浏览器的基因组背景下即时可视化为基于图形的自定义轨迹。所有生成和上传的数据都可以存储在会话中，并很容易与其他用户共享。
Zotero 插件