ArticleGenome research2005
A microarray analysis of the rice transcriptome and its comparison to Arabidopsis.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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Who cites it
50 citing papers in PubMed.
- Transcriptomic responses of oil palm (Frontiers in plant science · 2023Article
- Rice RS2-9, which is bound by transcription factor OSH1, blocks enhancer-promoter interactions in plants.The Plant journal : for cell and molecular biology · 2022Article
- Functional Omics Identifies Serine Hydrolases That Mobilize Storage Lipids during Rice Seed Germination.Plant physiology · 2020Article
- Mechanisms of Cryptochrome-Mediated Photoresponses in Plants.Annual review of plant biology · 2020Article
- Integrated Genome-Scale Analysis Identifies Novel Genes and Networks Underlying Senescence in Maize.The Plant cell · 2019Article
- Analysis of Genes with Alternatively Spliced Transcripts in the Leaf, Root, Panicle and Seed of Rice Using a Long Oligomer Microarray and RNA-Seq.Molecules and cells · 2017Article
- RiceMetaSys for salt and drought stress responsive genes in rice: a web interface for crop improvement.BMC bioinformatics · 2017Article
- Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome.Genome biology · 2015Article
- Comparative transcriptional profiling of three super-hybrid rice combinations.International journal of molecular sciences · 2014Article
- Evaluation of alternative RNA labeling protocols for transcript profiling with Arabidopsis AGRONOMICS1 tiling arrays.Plant methods · 2012Article
- Expression dynamics of metabolic and regulatory components across stages of panicle and seed development in indica rice.Functional & integrative genomics · 2012Article
- Identification of potential antisense transcripts in rice using conventional microarray.Molecular biotechnology · 2012Article
- Comparative network analysis reveals that tissue specificity and gene function are important factors influencing the mode of expression evolution in Arabidopsis and rice.Plant physiology · 2011Article
- Identification of rhizome-specific genes by genome-wide differential expression analysis in Oryza longistaminata.BMC plant biology · 2011Article
- RiceXPro: a platform for monitoring gene expression in japonica rice grown under natural field conditions.Nucleic acids research · 2011Article
- Evolutionary transients in the rice transcriptome.Genomics, proteomics & bioinformatics · 2010Article
- Common and distinct organ and stress responsive transcriptomic patterns in Oryza sativa and Arabidopsis thaliana.BMC plant biology · 2010Article
- Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq.Genome research · 2010Article
- Genome-scale analysis and comparison of gene expression profiles in developing and germinated pollen in Oryza sativa.BMC genomics · 2010Article
- Gene expression profiles in rice roots under low phosphorus stress.Plant molecular biology · 2010Article
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20 authors.
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Abstract
Arabidopsis and rice are the only two model plants whose finished phase genome sequence has been completed. Here we report the construction of an oligomer microarray based on the presently known and predicted gene models in the rice genome. This microarray was used to analyze the transcriptional activity of the gene models in representative rice organ types. Expression of 86% of the 41,754 known and predicted gene models was detected. A significant fraction of these expressed gene models are organized into chromosomal regions, about 100 kb in length, that exhibit a coexpression pattern. Compared with similar genome-wide surveys of the Arabidopsis transcriptome, our results indicate that similar proportions of the two genomes are expressed in their corresponding organ types. A large percentage of the rice gene models that lack significant Arabidopsis homologs are expressed. Furthermore, the expression patterns of rice and Arabidopsis best-matched homologous genes in distinct functional groups indicate dramatic differences in their degree of conservation between the two species. Thus, this initial comparative analysis reveals some basic similarities and differences between the Arabidopsis and rice transcriptomes.
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