Mayday SeaSight: combined analysis of deep sequencing and microarray data.

Recently emerged deep sequencing technologies offer new high-throughput methods to quantify gene expression, epigenetic modifications and DNA-protein binding. From a computational point of view, the data is very different from that produced by the already established microarray technology, providing...

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Autores principales:	Florian Battke, Kay Nieselt
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/5db881ae5a6e4b44b8851e4556215bb1
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spelling	oai:doaj.org-article:5db881ae5a6e4b44b8851e4556215bb12021-11-18T06:59:24ZMayday SeaSight: combined analysis of deep sequencing and microarray data.1932-620310.1371/journal.pone.0016345https://doaj.org/article/5db881ae5a6e4b44b8851e4556215bb12011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21305015/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Recently emerged deep sequencing technologies offer new high-throughput methods to quantify gene expression, epigenetic modifications and DNA-protein binding. From a computational point of view, the data is very different from that produced by the already established microarray technology, providing a new perspective on the samples under study and complementing microarray gene expression data. Software offering the integrated analysis of data from different technologies is of growing importance as new data emerge in systems biology studies. Mayday is an extensible platform for visual data exploration and interactive analysis and provides many methods for dissecting complex transcriptome datasets. We present Mayday SeaSight, an extension that allows to integrate data from different platforms such as deep sequencing and microarrays. It offers methods for computing expression values from mapped reads and raw microarray data, background correction and normalization and linking microarray probes to genomic coordinates. It is now possible to use Mayday's wealth of methods to analyze sequencing data and to combine data from different technologies in one analysis.Florian BattkeKay NieseltPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 1, p e16345 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Florian Battke Kay Nieselt Mayday SeaSight: combined analysis of deep sequencing and microarray data.
description	Recently emerged deep sequencing technologies offer new high-throughput methods to quantify gene expression, epigenetic modifications and DNA-protein binding. From a computational point of view, the data is very different from that produced by the already established microarray technology, providing a new perspective on the samples under study and complementing microarray gene expression data. Software offering the integrated analysis of data from different technologies is of growing importance as new data emerge in systems biology studies. Mayday is an extensible platform for visual data exploration and interactive analysis and provides many methods for dissecting complex transcriptome datasets. We present Mayday SeaSight, an extension that allows to integrate data from different platforms such as deep sequencing and microarrays. It offers methods for computing expression values from mapped reads and raw microarray data, background correction and normalization and linking microarray probes to genomic coordinates. It is now possible to use Mayday's wealth of methods to analyze sequencing data and to combine data from different technologies in one analysis.
format	article
author	Florian Battke Kay Nieselt
author_facet	Florian Battke Kay Nieselt
author_sort	Florian Battke
title	Mayday SeaSight: combined analysis of deep sequencing and microarray data.
title_short	Mayday SeaSight: combined analysis of deep sequencing and microarray data.
title_full	Mayday SeaSight: combined analysis of deep sequencing and microarray data.
title_fullStr	Mayday SeaSight: combined analysis of deep sequencing and microarray data.
title_full_unstemmed	Mayday SeaSight: combined analysis of deep sequencing and microarray data.
title_sort	mayday seasight: combined analysis of deep sequencing and microarray data.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/5db881ae5a6e4b44b8851e4556215bb1
work_keys_str_mv	AT florianbattke maydayseasightcombinedanalysisofdeepsequencingandmicroarraydata AT kaynieselt maydayseasightcombinedanalysisofdeepsequencingandmicroarraydata
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Mayday SeaSight: combined analysis of deep sequencing and microarray data.

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