Journal
NUCLEIC ACIDS RESEARCH
Volume 34, Issue 1, Pages 185-200Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkj413
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Funding
- EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH &HUMAN DEVELOPMENT [R01HD042572] Funding Source: NIH RePORTER
- NATIONAL CENTER FOR RESEARCH RESOURCES [R43RR019815] Funding Source: NIH RePORTER
- NCRR NIH HHS [R43 RR019815, R43 RR019815-01] Funding Source: Medline
- NICHD NIH HHS [HD42572, R01 HD042572] Funding Source: Medline
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The recent sequencing of a large number of Xenopus tropicalis expressed sequences has allowed development of a high-throughput approach to study Xenopus global RNA gene expression. We examined the global gene expression similarities and differences between the historically significant Xenopus laevis model system and the increasingly used X. tropicalis model system and assessed whether an X. tropicalis microarray platform can be used for X. laevis. These closely related species were also used to investigate a more general question: is there an association between mRNA sequence divergence and differences in gene expression levels? We carried out a comprehensive comparison of global gene expression profiles using microarrays of different tissues and developmental stages of X. laevis and X. tropicalis. We (i) show that the X. tropicalis probes provide an efficacious microarray platform for X. laevis, (ii) describe methods to compare inter-species mRNA profiles that correct differences in hybridization efficiency and (iii) show independently of hybridization bias that as mRNA sequence divergence increases between X. laevis and X. tropicalis differences in mRNA expression levels also increase.
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