Intra-platform comparison of 25-mer and ...
Document type :
Article dans une revue scientifique
DOI :
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Title :
Intra-platform comparison of 25-mer and 60-mer oligonucleotide Nimblegen DNA microarrays
Author(s) :
Fénart, Stéphane [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
CHABI, MALIKA [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Gallina, Sophie [Auteur]
Génétique et évolution des populations végétales [GEPV]
Huis, Rudy [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Neutelings, Godfrey [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Riviere, Nathalie [Auteur]
Biogemma
Thomasset, Brigitte [Auteur]
Génie Enzymatique et Cellulaire [GEC]
Hawkins, Simon [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Lucau, Anca [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Institut Charles Viollette (ICV) - EA 7394 [ICV]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
CHABI, MALIKA [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Gallina, Sophie [Auteur]
Génétique et évolution des populations végétales [GEPV]
Huis, Rudy [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Neutelings, Godfrey [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Riviere, Nathalie [Auteur]
Biogemma
Thomasset, Brigitte [Auteur]
Génie Enzymatique et Cellulaire [GEC]
Hawkins, Simon [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Lucau, Anca [Auteur]
Stress Abiotiques et Différenciation des Végétaux Cultivés [SADV]
Institut Charles Viollette (ICV) - EA 7394 [ICV]
Journal title :
BMC research notes
Volume number :
6
Pages :
43
Publication date :
2013
ISSN :
1756-0500
English keyword(s) :
Nimblegen
DNA arrays
Gene expression
DNA arrays
Gene expression
HAL domain(s) :
Chimie/Chimie théorique et/ou physique
English abstract : [en]
Background: We performed a Nimblegen intra-platform microarray comparison by assessing two categories of flax target probes (short 25-mers oligonucleotides and long 60-mers oligonucleotides) in identical conditions of ...
Show more >Background: We performed a Nimblegen intra-platform microarray comparison by assessing two categories of flax target probes (short 25-mers oligonucleotides and long 60-mers oligonucleotides) in identical conditions of target production, design, labelling, hybridization, image analyses, and data filtering. We compared technical parameters of array hybridizations, precision and accuracy as well as specific gene expression profiles. Results: Comparison of the hybridization quality, precision and accuracy of expression measurements, as well as an interpretation of differential gene expression in flax tissues were performed. Both array types yielded reproducible, accurate and comparable data that are coherent for expression measurements and identification of differentially expressed genes. 60-mers arrays gave higher hybridization efficiencies and therefore were more sensitive allowing the detection of a higher number of unigenes involved in the same biological process and/or belonging to the same multigene family. Conclusion: The two flax arrays provide a good resolution of expressed functions; however the 60-mers arrays are more sensitive and provide a more in-depth coverage of candidate genes potentially involved in different biological processes.Show less >
Show more >Background: We performed a Nimblegen intra-platform microarray comparison by assessing two categories of flax target probes (short 25-mers oligonucleotides and long 60-mers oligonucleotides) in identical conditions of target production, design, labelling, hybridization, image analyses, and data filtering. We compared technical parameters of array hybridizations, precision and accuracy as well as specific gene expression profiles. Results: Comparison of the hybridization quality, precision and accuracy of expression measurements, as well as an interpretation of differential gene expression in flax tissues were performed. Both array types yielded reproducible, accurate and comparable data that are coherent for expression measurements and identification of differentially expressed genes. 60-mers arrays gave higher hybridization efficiencies and therefore were more sensitive allowing the detection of a higher number of unigenes involved in the same biological process and/or belonging to the same multigene family. Conclusion: The two flax arrays provide a good resolution of expressed functions; however the 60-mers arrays are more sensitive and provide a more in-depth coverage of candidate genes potentially involved in different biological processes.Show less >
Language :
Anglais
Audience :
Non spécifiée
Administrative institution(s) :
CNRS
Université de Lille
Université de Lille
Collections :
Research team(s) :
Fibres végétales
Submission date :
2020-02-12T15:45:17Z
2021-03-17T08:32:21Z
2021-06-08T13:15:35Z
2021-03-17T08:32:21Z
2021-06-08T13:15:35Z
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