Quantification of global transcription patterns in prokaryotes using spotted microarrays

We describe an analysis, applicable to any spotted microarray dataset produced using genomic DNA as a reference, that quantifies prokaryotic levels of mRNA on a genome-wide scale. Applying this to Mycobacterium tuberculosis, we validate the technique, show a correlation between level of expression a...

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Autores principales: Sidders, Ben, Withers, Mike, Kendall, Sharon L, Bacon, Joanna, Waddell, Simon J, Hinds, Jason, Golby, Paul, Movahedzadeh, Farahnaz, Cox, Robert A, Frita, Rosangela, ten Bokum, Annemieke MC, Wernisch, Lorenz, Stoker, Neil G
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2007
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2246267/
https://www.ncbi.nlm.nih.gov/pubmed/18078514
http://dx.doi.org/10.1186/gb-2007-8-12-r265
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author Sidders, Ben
Withers, Mike
Kendall, Sharon L
Bacon, Joanna
Waddell, Simon J
Hinds, Jason
Golby, Paul
Movahedzadeh, Farahnaz
Cox, Robert A
Frita, Rosangela
ten Bokum, Annemieke MC
Wernisch, Lorenz
Stoker, Neil G
author_facet Sidders, Ben
Withers, Mike
Kendall, Sharon L
Bacon, Joanna
Waddell, Simon J
Hinds, Jason
Golby, Paul
Movahedzadeh, Farahnaz
Cox, Robert A
Frita, Rosangela
ten Bokum, Annemieke MC
Wernisch, Lorenz
Stoker, Neil G
author_sort Sidders, Ben
collection PubMed
description We describe an analysis, applicable to any spotted microarray dataset produced using genomic DNA as a reference, that quantifies prokaryotic levels of mRNA on a genome-wide scale. Applying this to Mycobacterium tuberculosis, we validate the technique, show a correlation between level of expression and biological importance, define the complement of invariant genes and analyze absolute levels of expression by functional class to develop ways of understanding an organism's biology without comparison to another growth condition.
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spelling pubmed-22462672008-02-20 Quantification of global transcription patterns in prokaryotes using spotted microarrays Sidders, Ben Withers, Mike Kendall, Sharon L Bacon, Joanna Waddell, Simon J Hinds, Jason Golby, Paul Movahedzadeh, Farahnaz Cox, Robert A Frita, Rosangela ten Bokum, Annemieke MC Wernisch, Lorenz Stoker, Neil G Genome Biol Method We describe an analysis, applicable to any spotted microarray dataset produced using genomic DNA as a reference, that quantifies prokaryotic levels of mRNA on a genome-wide scale. Applying this to Mycobacterium tuberculosis, we validate the technique, show a correlation between level of expression and biological importance, define the complement of invariant genes and analyze absolute levels of expression by functional class to develop ways of understanding an organism's biology without comparison to another growth condition. BioMed Central 2007 2007-12-13 /pmc/articles/PMC2246267/ /pubmed/18078514 http://dx.doi.org/10.1186/gb-2007-8-12-r265 Text en Copyright © 2007 Sidders et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Method
Sidders, Ben
Withers, Mike
Kendall, Sharon L
Bacon, Joanna
Waddell, Simon J
Hinds, Jason
Golby, Paul
Movahedzadeh, Farahnaz
Cox, Robert A
Frita, Rosangela
ten Bokum, Annemieke MC
Wernisch, Lorenz
Stoker, Neil G
Quantification of global transcription patterns in prokaryotes using spotted microarrays
title Quantification of global transcription patterns in prokaryotes using spotted microarrays
title_full Quantification of global transcription patterns in prokaryotes using spotted microarrays
title_fullStr Quantification of global transcription patterns in prokaryotes using spotted microarrays
title_full_unstemmed Quantification of global transcription patterns in prokaryotes using spotted microarrays
title_short Quantification of global transcription patterns in prokaryotes using spotted microarrays
title_sort quantification of global transcription patterns in prokaryotes using spotted microarrays
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2246267/
https://www.ncbi.nlm.nih.gov/pubmed/18078514
http://dx.doi.org/10.1186/gb-2007-8-12-r265
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