ISL won the Poster Award at ABIC 2009

On September 25, 2009, our poster won the Poster Award at the 2009 Agricultural Biotechnology International Conference.
Use the link below to see why
Large scale In silico identification and comparison of miRNAs and targets in diverse plant species , Wuttichai Mhuantong, Supawadee Ingsriswang, Duangdao Wichadakul

New Plant microRNAs Database Launched

This month, the Information Systems Laboratory (ISL) has launched the MicroPC (µPC), a new database and prediction tools for plant microRNAs that enables users with the inclusive comparing and predicting plant miRNAs and miRNA targets across plant species and classification. The µPC database consists of 4,006 potential miRNA candidates in 128 families of 125 plant species and 2,995 proteins (4,953 EST sequences) potentially targeted by 78 families of the miRNA candidates. These comprehensive content was resulted from a large-scale computational identification of previously reported miRNAs from miRBase against Expressed Sequence Tags (ESTs) from PlantGDB. Users may explore and utilize the µPC via three main utilities: (1) the comparative utility enables users to compare stored mature or precursor miRNAs and user-supplied sequences among plant species, (2) the search utility allows users to access the predicted miRNAs and their targets in details, and (3) the prediction utility provides interactive steps for determining a miRNA or miRNA targets from an input nucleotide sequence and links the prediction results to their homologs in the µPC. The full paper describing the µPC has been accepted (in press) by BMC Genomics. The µPC is freely available at http://www.biotec.or.th/isl/micropc.

d-Omix: a mixer of generic protein domain analysis tools

Domain combination provides important clues to the roles of protein domains in protein function, interaction, and evolution. We have developed a web server d-Omix (a Mixer of Protein Domain Analysis Tools) aiming as a unified platform to analyze, compare, and visualize protein data sets in various aspects of protein domain combinations. With InterProScan files for protein sets of interest provided by users, the server incorporates four services for domain analyses. First, it constructs protein phylogenetic tree based on a distance matrix calculated from protein domain architectures (DAs), allowing the comparison with a sequence-based tree. Second, it calculates and visualizes the versatility, abundance, and co-presence of protein domains via a domain graph. Third, it compares the similarity of proteins based on DA alignment. Fourth, it builds a putative protein network derived from domain-domain interactions from DOMINE. Users may select a variety of input data files and flexibly choose domain search tools (e.g., hmmpfam, superfamily) for a specific analysis. Results from the d-Omix could be interactively explored and exported into various formats such as SVG, JPG, BMP and CSV. Users with only protein sequences could prepare an InterProScan file using a service provided by the server as well. The d-Omix web server is freely available at http://www.biotec.or.th/isl/Domix. d-Omix has been recently accepted and published in Nucleic Acids Research, 2009 Web Server Issue(http://nar.oxfordjournals.org/cgi/content/full/gkp329).