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

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 meth...

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Detalles Bibliográficos
Autores principales: Conde, Lucía, Montaner, David, Burguet-Castell, Jordi, Tárraga, Joaquín, Medina, Ignacio, Al-Shahrour, Fátima, Dopazo, Joaquín
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2007
Materias:
Articles
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1933149/
https://www.ncbi.nlm.nih.gov/pubmed/17468499
http://dx.doi.org/10.1093/nar/gkm257
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author Conde, Lucía
Montaner, David
Burguet-Castell, Jordi
Tárraga, Joaquín
Medina, Ignacio
Al-Shahrour, Fátima
Dopazo, Joaquín
author_facet Conde, Lucía
Montaner, David
Burguet-Castell, Jordi
Tárraga, Joaquín
Medina, Ignacio
Al-Shahrour, Fátima
Dopazo, Joaquín
author_sort Conde, Lucía
collection PubMed
description 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.
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spelling pubmed-19331492007-07-31 ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling Conde, Lucía Montaner, David Burguet-Castell, Jordi Tárraga, Joaquín Medina, Ignacio Al-Shahrour, Fátima Dopazo, Joaquín Nucleic Acids Res Articles 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. Oxford University Press 2007-07 2007-04-27 /pmc/articles/PMC1933149/ /pubmed/17468499 http://dx.doi.org/10.1093/nar/gkm257 Text en © 2007 The Author(s) http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Articles
Conde, Lucía
Montaner, David
Burguet-Castell, Jordi
Tárraga, Joaquín
Medina, Ignacio
Al-Shahrour, Fátima
Dopazo, Joaquín
ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling
title ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling
title_full ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling
title_fullStr ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling
title_full_unstemmed ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling
title_short ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling
title_sort isacgh: a web-based environment for the analysis of array cgh and gene expression which includes functional profiling
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1933149/
https://www.ncbi.nlm.nih.gov/pubmed/17468499
http://dx.doi.org/10.1093/nar/gkm257
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