Academic Journal
Intra-platform comparison of 25-mer and 60-mer oligonucleotide Nimblegen DNA microarrays
| العنوان: | Intra-platform comparison of 25-mer and 60-mer oligonucleotide Nimblegen DNA microarrays |
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| المؤلفون: | Fenart, Stephane, Chabi, Malika, Gallina, Sophie, Huis, Rudy, Neutelings, Godfrey, Riviere, Nathalie, Thomasset, Brigitte, Hawkins, Simon, Lucau-Danila, Anca |
| المساهمون: | Stress Abiotiques et Différenciation des Végétaux Cultivés (SADV), Institut National de la Recherche Agronomique (INRA)-Université de Lille, Sciences et Technologies, Laboratoire de Génétique et Evolution des Populations Végétales (GEPV), Université de Lille, Sciences et Technologies-Centre National de la Recherche Scientifique (CNRS), BIOGEMMA, Biogemma Clermont-Ferrand, Génie Enzymatique et Cellulaire (GEC), Université de Technologie de Compiègne (UTC)-Centre National de la Recherche Scientifique (CNRS), Authors gratefully acknowledge financial support of the French Nord-Pas de Calais Region (Plant Teq 4 project), RH gratefully acknowledges the support of the French government (PhD grant) and MC gratefully acknowledges the support of the ANR (Agence National de Recherche) (PhD grant KBBE FIBRAGEN project). This study was also supported by the ANR project GENOLIN., ANR-06-GPLA-0017,GENOLIN,GENOLIN : Développement de puces à oligonucléotides pour la valorisation industrielle du lin(2006) |
| المصدر: | ISSN: 1756-0500 ; BMC Research Notes ; https://hal.science/hal-01110781 ; BMC Research Notes, 2013, 6, pp.43. ⟨10.1186/1471-2229-10-71⟩. |
| بيانات النشر: | HAL CCSD BioMed Central |
| سنة النشر: | 2013 |
| المجموعة: | Institut National de la Recherche Agronomique: ProdINRA |
| مصطلحات موضوعية: | Nimblegen, DNA arrays, Gene expression Background, MESH: DNA/chemistry, MESH: DNA Probes, MESH: Nucleic Acid Hybridization, MESH: Oligonucleotide Array Sequence Analysis, MESH: Reproducibility of Results, [SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE] |
| الوصف: | International audience ; 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. |
| نوع الوثيقة: | article in journal/newspaper |
| اللغة: | English |
| Relation: | info:eu-repo/semantics/altIdentifier/pmid/23375116; hal-01110781; https://hal.science/hal-01110781; https://hal.science/hal-01110781/document; https://hal.science/hal-01110781/file/Fenart%20et%20al.%20-%202013%20-%20Intra-platform%20comparison%20of%2025-mer%20and%2060-mer%20oligonucleotide%20Nimblegen%20DNA%20microarrays.pdf; PUBMED: 23375116; PUBMEDCENTRAL: PMC3608165 |
| DOI: | 10.1186/1471-2229-10-71 |
| الاتاحة: | https://hal.science/hal-01110781 https://hal.science/hal-01110781/document https://hal.science/hal-01110781/file/Fenart%20et%20al.%20-%202013%20-%20Intra-platform%20comparison%20of%2025-mer%20and%2060-mer%20oligonucleotide%20Nimblegen%20DNA%20microarrays.pdf https://doi.org/10.1186/1471-2229-10-71 |
| Rights: | http://creativecommons.org/licenses/by/ ; info:eu-repo/semantics/OpenAccess |
| رقم الانضمام: | edsbas.FCE606 |
| قاعدة البيانات: | BASE |
| DOI: | 10.1186/1471-2229-10-71 |
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