TY - JOUR
T1 - PlantQTL-GE
T2 - A database system for identifying candidate genes in rice and Arabidopsis by gene expression and QTL information
AU - Zeng, Huazong
AU - Luo, Lijun
AU - Zhang, Weixiong
AU - Zhou, Jie
AU - Li, Zuofeng
AU - Liu, Hongyan
AU - Zhu, Tiansheng
AU - Feng, Xiangqian
AU - Zhong, Yang
N1 - Funding Information:
The research was supported by grants from The Rockefeller Foundation, Shanghai Science and Technology Committee (05DJ14008 and 03DJ14015) and National Science Foundation of China (30570109). W.Z. was supported in part by United States of America, National Science Foundation Grants ITR/EIA-0113618 and IIS-0535257. We thank Shanghai Center for Bioinformation Technology for the webserver and Dr Y. X. Li, S. W. Yu, L. Chen, and P. Hao for comments and suggestions. Funding to pay the Open Access publication charges for this article was provided by Chinese Ministry of Education key program 106068 and program for NCET.
PY - 2007/1
Y1 - 2007/1
N2 - We have designed and implemented a web-based database system, called PlantQTL-GE, to facilitate quantitatine traits locus (QTL) based candidate gene identification and gene function analysis. We collected a large number of genes, gene expression information in microarray data and expressed sequence tags (ESTs) and genetic markers from multiple sources of Oryza sativa and Arabidopsis thaliana. The system integrates these diverse data sources and has a uniform web interface for easy access. It supports QTL queries specifying QTL marker intervals or genomic loci, and displays, on rice or Arabidopsis genome, known genes, microarray data, ESTs and candidate genes and similar putative genes in the other plant. Candidate genes in QTL intervals are further annotated based on matching ESTs, microarray gene expression data and cis-elements in regulatory sequences. The system is freely available at http://www.scbit.org/qtl2gene/new/.
AB - We have designed and implemented a web-based database system, called PlantQTL-GE, to facilitate quantitatine traits locus (QTL) based candidate gene identification and gene function analysis. We collected a large number of genes, gene expression information in microarray data and expressed sequence tags (ESTs) and genetic markers from multiple sources of Oryza sativa and Arabidopsis thaliana. The system integrates these diverse data sources and has a uniform web interface for easy access. It supports QTL queries specifying QTL marker intervals or genomic loci, and displays, on rice or Arabidopsis genome, known genes, microarray data, ESTs and candidate genes and similar putative genes in the other plant. Candidate genes in QTL intervals are further annotated based on matching ESTs, microarray gene expression data and cis-elements in regulatory sequences. The system is freely available at http://www.scbit.org/qtl2gene/new/.
UR - http://www.scopus.com/inward/record.url?scp=33846113649&partnerID=8YFLogxK
U2 - 10.1093/nar/gkl814
DO - 10.1093/nar/gkl814
M3 - Article
C2 - 17142239
AN - SCOPUS:33846113649
SN - 0305-1048
VL - 35
SP - D879-D882
JO - Nucleic acids research
JF - Nucleic acids research
IS - SUPPL. 1
ER -