CSRDB: a small RNA integrated database and browser resource for cereals

Plant small RNAs (smRNAs), which include microRNAs (miRNAs), short interfering RNAs (siRNAs) and trans-acting siRNAs (ta-siRNAs), are emerging as significant components of epigenetic processes and of gene networks involved in development and in homeostasis. Here we present a bioinformatics resource for cereal crops, the Cereal Small RNA Database (CSRDB), consisting of largescale datasets of maize and rice smRNA sequences generated by high-throughput pyrosequencing. The smRNA sequences have been mapped to the rice genome and to the available maize genome sequence and these results are presented in two genome browser datasets using the Generic Genome Browser. Potential RNA targets for the smRNAs have been predicted and access to the resulting smRNA/RNA target pair dataset has been made available through a MySQL based relational database. Various ways to access the data are provided including links from the genome browser to the target database. Data linking and integration are the main ...

• Type: Journal
• Year: 2007
• Where: NAR
• Authors: Cameron Johnson, Lewis Bowman, Alex T. Adai, Vicki Vance, Venkatesan Sundaresan
• Keywords: Genome Browser, Genome Browser Datasets, Maize Genome Sequence, NAR 2007