Messina: a novel analysis tool to identify biologically relevant molecules in disease.

<h4>Background</h4>Morphologically similar cancers display heterogeneous patterns of molecular aberrations and follow substantially different clinical courses. This diversity has become the basis for the definition of molecular phenotypes, with significant implications for therapy. Micro...

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Autores principales:	Mark Pinese, Christopher J Scarlett, James G Kench, Emily K Colvin, Davendra Segara, Susan M Henshall, Robert L Sutherland, Andrew V Biankin
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2009
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/01e2c7a2eb7b4b7889d9efa18d1276d6
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spelling	oai:doaj.org-article:01e2c7a2eb7b4b7889d9efa18d1276d62021-11-25T06:22:59ZMessina: a novel analysis tool to identify biologically relevant molecules in disease.1932-620310.1371/journal.pone.0005337https://doaj.org/article/01e2c7a2eb7b4b7889d9efa18d1276d62009-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/19399185/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Morphologically similar cancers display heterogeneous patterns of molecular aberrations and follow substantially different clinical courses. This diversity has become the basis for the definition of molecular phenotypes, with significant implications for therapy. Microarray or proteomic expression profiling is conventionally employed to identify disease-associated genes, however, traditional approaches for the analysis of profiling experiments may miss molecular aberrations which define biologically relevant subtypes.<h4>Methodology/principal findings</h4>Here we present Messina, a method that can identify those genes that only sometimes show aberrant expression in cancer. We demonstrate with simulated data that Messina is highly sensitive and specific when used to identify genes which are aberrantly expressed in only a proportion of cancers, and compare Messina to contemporary analysis techniques. We illustrate Messina by using it to detect the aberrant expression of a gene that may play an important role in pancreatic cancer.<h4>Conclusions/significance</h4>Messina allows the detection of genes with profiles typical of markers of molecular subtype, and complements existing methods to assist the identification of such markers. Messina is applicable to any global expression profiling data, and to allow its easy application has been packaged into a freely-available stand-alone software package.Mark PineseChristopher J ScarlettJames G KenchEmily K ColvinDavendra SegaraSusan M HenshallRobert L SutherlandAndrew V BiankinPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 4, Iss 4, p e5337 (2009)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Mark Pinese Christopher J Scarlett James G Kench Emily K Colvin Davendra Segara Susan M Henshall Robert L Sutherland Andrew V Biankin Messina: a novel analysis tool to identify biologically relevant molecules in disease.
description	<h4>Background</h4>Morphologically similar cancers display heterogeneous patterns of molecular aberrations and follow substantially different clinical courses. This diversity has become the basis for the definition of molecular phenotypes, with significant implications for therapy. Microarray or proteomic expression profiling is conventionally employed to identify disease-associated genes, however, traditional approaches for the analysis of profiling experiments may miss molecular aberrations which define biologically relevant subtypes.<h4>Methodology/principal findings</h4>Here we present Messina, a method that can identify those genes that only sometimes show aberrant expression in cancer. We demonstrate with simulated data that Messina is highly sensitive and specific when used to identify genes which are aberrantly expressed in only a proportion of cancers, and compare Messina to contemporary analysis techniques. We illustrate Messina by using it to detect the aberrant expression of a gene that may play an important role in pancreatic cancer.<h4>Conclusions/significance</h4>Messina allows the detection of genes with profiles typical of markers of molecular subtype, and complements existing methods to assist the identification of such markers. Messina is applicable to any global expression profiling data, and to allow its easy application has been packaged into a freely-available stand-alone software package.
format	article
author	Mark Pinese Christopher J Scarlett James G Kench Emily K Colvin Davendra Segara Susan M Henshall Robert L Sutherland Andrew V Biankin
author_facet	Mark Pinese Christopher J Scarlett James G Kench Emily K Colvin Davendra Segara Susan M Henshall Robert L Sutherland Andrew V Biankin
author_sort	Mark Pinese
title	Messina: a novel analysis tool to identify biologically relevant molecules in disease.
title_short	Messina: a novel analysis tool to identify biologically relevant molecules in disease.
title_full	Messina: a novel analysis tool to identify biologically relevant molecules in disease.
title_fullStr	Messina: a novel analysis tool to identify biologically relevant molecules in disease.
title_full_unstemmed	Messina: a novel analysis tool to identify biologically relevant molecules in disease.
title_sort	messina: a novel analysis tool to identify biologically relevant molecules in disease.
publisher	Public Library of Science (PLoS)
publishDate	2009
url	https://doaj.org/article/01e2c7a2eb7b4b7889d9efa18d1276d6
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Messina: a novel analysis tool to identify biologically relevant molecules in disease.

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