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ISACGH：一个基于网络的用于分析阵列比较基因组杂交和基因表达（包括功能分析）的环境。

ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.

作者信息

Conde Lucía, Montaner David, Burguet-Castell Jordi, Tárraga Joaquín, Medina Ignacio, Al-Shahrour Fátima, Dopazo Joaquín

机构信息

Bioinformatics Department, Centro de Investigación Príncipe Felipe, INB, CIPF, Valencia 46013, Spain.

出版信息

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W81-5. doi: 10.1093/nar/gkm257. Epub 2007 Apr 27.

DOI:10.1093/nar/gkm257
PMID:17468499
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC1933149/
Abstract

We present the ISACGH, a web-based system that allows for the combination of genomic data with gene expression values and provides different options for functional profiling of the regions found. Several visualization options offer a convenient representation of the results. Different efficient methods for accurate estimation of genomic copy number from array-CGH hybridization data have been included in the program. Moreover, the connection to the gene expression analysis package GEPAS allows the use of different facilities for data pre-processing and analysis. A DAS server allows exporting the results to the Ensembl viewer where contextual genomic information can be obtained. The program is freely available at: http://isacgh.bioinfo.cipf.es or within http://www.gepas.org.

摘要

我们展示了ISACGH，这是一个基于网络的系统，它允许将基因组数据与基因表达值相结合，并为所发现区域的功能分析提供不同选项。多种可视化选项能方便地呈现结果。该程序包含了几种从阵列比较基因组杂交（array-CGH）杂交数据准确估计基因组拷贝数的有效方法。此外，与基因表达分析软件包GEPAS的连接允许使用不同的数据预处理和分析工具。一个DAS服务器允许将结果导出到Ensembl浏览器，在那里可以获取上下文基因组信息。该程序可在以下网址免费获取：http://isacgh.bioinfo.cipf.es 或在http://www.gepas.org内获取。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/99d9/1933149/dd2b94b8bc01/gkm257f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/99d9/1933149/48033379ce49/gkm257f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/99d9/1933149/dd2b94b8bc01/gkm257f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/99d9/1933149/48033379ce49/gkm257f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/99d9/1933149/dd2b94b8bc01/gkm257f2.jpg

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本文引用的文献

[1]
Regional copy number-independent deregulation of transcription in cancer.

Nat Genet. 2006-12

[2]
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OMICS. 2006

[3]
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Nucleic Acids Res. 2006-7-1

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Eur J Hum Genet. 2006-2

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Bioinformatics. 2005-10-1

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Nucleic Acids Res. 2005-7-1

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Nat Genet. 2005-6

[10]
ArrayCyGHt: a web application for analysis and visualization of array-CGH data.

Bioinformatics. 2005-5-15

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