Davuluri Ramana V, Sun Hao, Palaniswamy Saranyan K, Matthews Nicole, Molina Carlos, Kurtz Mike, Grotewold Erich
Human Cancer Genetics Program, Comprehensive Cancer Center, Dept of Molecular Virology, Immunology and Medical Genetics, The Ohio State University, Columbus, OH 43210, USA.
BMC Bioinformatics. 2003 Jun 23;4:25. doi: 10.1186/1471-2105-4-25.
The gene regulatory information is hardwired in the promoter regions formed by cis-regulatory elements that bind specific transcription factors (TFs). Hence, establishing the architecture of plant promoters is fundamental to understanding gene expression. The determination of the regulatory circuits controlled by each TF and the identification of the cis-regulatory sequences for all genes have been identified as two of the goals of the Multinational Coordinated Arabidopsis thaliana Functional Genomics Project by the Multinational Arabidopsis Steering Committee (June 2002).
AGRIS is an information resource of Arabidopsis promoter sequences, transcription factors and their target genes. AGRIS currently contains two databases, AtTFDB (Arabidopsis thaliana transcription factor database) and AtcisDB (Arabidopsis thaliana cis-regulatory database). AtTFDB contains information on approximately 1,400 transcription factors identified through motif searches and grouped into 34 families. AtTFDB links the sequence of the transcription factors with available mutants and, when known, with the possible genes they may regulate. AtcisDB consists of the 5' regulatory sequences of all 29,388 annotated genes with a description of the corresponding cis-regulatory elements. Users can search the databases for (i) promoter sequences, (ii) a transcription factor, (iii) a direct target genes for a specific transcription factor, or (vi) a regulatory network that consists of transcription factors and their target genes.
AGRIS provides the necessary software tools on Arabidopsis transcription factors and their putative binding sites on all genes to initiate the identification of transcriptional regulatory networks in the model dicotyledoneous plant Arabidopsis thaliana. AGRIS can be accessed from http://arabidopsis.med.ohio-state.edu.
基因调控信息被硬编码在由结合特定转录因子（TFs）的顺式调控元件形成的启动子区域中。因此，建立植物启动子的结构对于理解基因表达至关重要。确定每个转录因子控制的调控回路以及识别所有基因的顺式调控序列已被多国拟南芥指导委员会确定为多国协调的拟南芥功能基因组计划的两个目标（2002年6月）。
AGRIS是一个关于拟南芥启动子序列、转录因子及其靶基因的信息资源。AGRIS目前包含两个数据库，AtTFDB（拟南芥转录因子数据库）和AtcisDB（拟南芥顺式调控数据库）。AtTFDB包含通过基序搜索鉴定的约1400个转录因子的信息，并分为34个家族。AtTFDB将转录因子的序列与可用的突变体联系起来，并在已知的情况下与它们可能调控的基因联系起来。AtcisDB由所有29388个注释基因的5'调控序列组成，并对相应的顺式调控元件进行了描述。用户可以在数据库中搜索（i）启动子序列，（ii）转录因子，（iii）特定转录因子的直接靶基因，或（iv）由转录因子及其靶基因组成的调控网络。
AGRIS提供了关于拟南芥转录因子及其在所有基因上的假定结合位点的必要软件工具，以启动对模式双子叶植物拟南芥转录调控网络的鉴定。可从http://arabidopsis.med.ohio-state.edu访问AGRIS。
