ArticlePlant molecular biology2005
A pilot study of transcription unit analysis in rice using oligonucleotide tiling-path microarray.
Article in Plant molecular biology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed, 18 citations in OpenAlex.
- Intra-platform comparison of 25-mer and 60-mer oligonucleotide Nimblegen DNA microarrays.BMC research notes · 2013Article
- A 3,000-loci transcription map of chromosome 3B unravels the structural and functional features of gene islands in hexaploid wheat.Plant physiology · 2011Article
- High-resolution mapping of epigenetic modifications of the rice genome uncovers interplay between DNA methylation, histone methylation, and gene expression.The Plant cell · 2008Article
- Transcriptional analysis of highly syntenic regions between Medicago truncatula and Glycine max using tiling microarrays.Genome biology · 2008Article
- Rice molecular breeding laboratories in the genomics era: Current status and future considerations.International journal of plant genomics · 2008Article
- Rice functional genomics research in China.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2007Article
- A large number of novel coding small open reading frames in the intergenic regions of the Arabidopsis thaliana genome are transcribed and/or under purifying selection.Genome research · 2007Article
- Heterosis and polymorphisms of gene expression in an elite rice hybrid as revealed by a microarray analysis of 9198 unique ESTs.Plant molecular biology · 2006Article
Corrections and comments
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Authors and funding
13 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
As the international efforts to sequence the rice genome are completed, an immediate challenge and opportunity is to comprehensively and accurately define all transcription units in the rice genome. Here we describe a strategy of using high-density oligonucleotide tiling-path microarrays to map transcription of the japonica rice genome. In a pilot experiment to test this approach, one array representing the reverse strand of the last 11.2 Mb sequence of chromosome 10 was analyzed in detail based on a mathematical model developed in this study. Analysis of the array data detected 77% of the reference gene models in a mixture of four RNA populations. Moreover, significant transcriptional activities were found in many of the previously annotated intergenic regions. These preliminary results demonstrate the utility of genome tiling microarrays in evaluating annotated rice gene models and in identifying novel transcription units that will facilitate rice genome annotation.
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