In silico evaluation of the Eucalyptus transcriptome

Detalhes bibliográficos
Autor(a) principal: Vicentini,Renato
Data de Publicação: 2005
Outros Autores: Sassaki,Flávio T., Gimenes,Marcos A., Maia,Ivan G., Menossi,Marcelo
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Genetics and Molecular Biology
Texto Completo: http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572005000400002
Resumo: The expressed sequence tags (ESTs) produced in the Forests project provide an invaluable opportunity to assess the Eucalyptus transcriptome. Besides providing information on the different proteins produced by this plant, it is possible to infer gene expression profiles because non-normalized cDNA libraries were used. The EST frequency from any gene is correlated to the transcript levels in the tissues from which the cDNA libraries were constructed. The goal of this work was to identify Eucalyptus genes that showed either differential expression pattern or were ubiquitously expressed in the tissues sampled in the Forests project. Six robust statistical tests and very restrictive rules were applied to gain confidence in the in silico data aiming to avoid false positives. Several genes with interesting expression profiles were identified and some of them were validated by RT-PCR.
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spelling In silico evaluation of the Eucalyptus transcriptometranscriptomeEucalyptustissue-specificstatisticsdifferential expressionThe expressed sequence tags (ESTs) produced in the Forests project provide an invaluable opportunity to assess the Eucalyptus transcriptome. Besides providing information on the different proteins produced by this plant, it is possible to infer gene expression profiles because non-normalized cDNA libraries were used. The EST frequency from any gene is correlated to the transcript levels in the tissues from which the cDNA libraries were constructed. The goal of this work was to identify Eucalyptus genes that showed either differential expression pattern or were ubiquitously expressed in the tissues sampled in the Forests project. Six robust statistical tests and very restrictive rules were applied to gain confidence in the in silico data aiming to avoid false positives. Several genes with interesting expression profiles were identified and some of them were validated by RT-PCR.Sociedade Brasileira de Genética2005-01-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersiontext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572005000400002Genetics and Molecular Biology v.28 n.3 suppl.0 2005reponame:Genetics and Molecular Biologyinstname:Sociedade Brasileira de Genética (SBG)instacron:SBG10.1590/S1415-47572005000400002info:eu-repo/semantics/openAccessVicentini,RenatoSassaki,Flávio T.Gimenes,Marcos A.Maia,Ivan G.Menossi,Marceloeng2006-01-04T00:00:00Zoai:scielo:S1415-47572005000400002Revistahttp://www.gmb.org.br/ONGhttps://old.scielo.br/oai/scielo-oai.php||editor@gmb.org.br1678-46851415-4757opendoar:2006-01-04T00:00Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG)false
dc.title.none.fl_str_mv In silico evaluation of the Eucalyptus transcriptome
title In silico evaluation of the Eucalyptus transcriptome
spellingShingle In silico evaluation of the Eucalyptus transcriptome
Vicentini,Renato
transcriptome
Eucalyptus
tissue-specific
statistics
differential expression
title_short In silico evaluation of the Eucalyptus transcriptome
title_full In silico evaluation of the Eucalyptus transcriptome
title_fullStr In silico evaluation of the Eucalyptus transcriptome
title_full_unstemmed In silico evaluation of the Eucalyptus transcriptome
title_sort In silico evaluation of the Eucalyptus transcriptome
author Vicentini,Renato
author_facet Vicentini,Renato
Sassaki,Flávio T.
Gimenes,Marcos A.
Maia,Ivan G.
Menossi,Marcelo
author_role author
author2 Sassaki,Flávio T.
Gimenes,Marcos A.
Maia,Ivan G.
Menossi,Marcelo
author2_role author
author
author
author
dc.contributor.author.fl_str_mv Vicentini,Renato
Sassaki,Flávio T.
Gimenes,Marcos A.
Maia,Ivan G.
Menossi,Marcelo
dc.subject.por.fl_str_mv transcriptome
Eucalyptus
tissue-specific
statistics
differential expression
topic transcriptome
Eucalyptus
tissue-specific
statistics
differential expression
description The expressed sequence tags (ESTs) produced in the Forests project provide an invaluable opportunity to assess the Eucalyptus transcriptome. Besides providing information on the different proteins produced by this plant, it is possible to infer gene expression profiles because non-normalized cDNA libraries were used. The EST frequency from any gene is correlated to the transcript levels in the tissues from which the cDNA libraries were constructed. The goal of this work was to identify Eucalyptus genes that showed either differential expression pattern or were ubiquitously expressed in the tissues sampled in the Forests project. Six robust statistical tests and very restrictive rules were applied to gain confidence in the in silico data aiming to avoid false positives. Several genes with interesting expression profiles were identified and some of them were validated by RT-PCR.
publishDate 2005
dc.date.none.fl_str_mv 2005-01-01
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572005000400002
url http://old.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572005000400002
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 10.1590/S1415-47572005000400002
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv text/html
dc.publisher.none.fl_str_mv Sociedade Brasileira de Genética
publisher.none.fl_str_mv Sociedade Brasileira de Genética
dc.source.none.fl_str_mv Genetics and Molecular Biology v.28 n.3 suppl.0 2005
reponame:Genetics and Molecular Biology
instname:Sociedade Brasileira de Genética (SBG)
instacron:SBG
instname_str Sociedade Brasileira de Genética (SBG)
instacron_str SBG
institution SBG
reponame_str Genetics and Molecular Biology
collection Genetics and Molecular Biology
repository.name.fl_str_mv Genetics and Molecular Biology - Sociedade Brasileira de Genética (SBG)
repository.mail.fl_str_mv ||editor@gmb.org.br
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