TY  - JOUR
A1  - Ma, Ligeng
A1  - Chen, Chen
A1  - Liu, Xigang
A1  - Jiao, Yuling
A1  - Su, Ning
A1  - Li, Lin
A1  - Wang, Xiangfeng
A1  - Cao, Mengliang
A1  - Sun, Ning
A1  - Zhang, Xiuqing
A1  - Bao, Jingyue
A1  - Li, Jian
A1  - Pedersen, Soren
A1  - Bolund, Lars
A1  - Zhao, Hongyu
A1  - Yuan, Longping
A1  - Wong, Gane Ka-Shu
A1  - Wang, Jun
A1  - Deng, Xing Wang
A1  - Wang, Jian
T1  - A microarray analysis of the rice transcriptome and its comparison to Arabidopsis
Y1  - 2005/09/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1274 
EP  - 1283 
DO  - 10.1101/gr.3657405 
VL  - 15 
IS  - 9 
UR  - http://genome.cshlp.org/content/15/9/1274.abstract 
N2  - 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. 
ER  -