About the Server
MiRNA target mimics, or miRNA target decoys, are endogenous RNAs that can negatively regulate the miRNA activities. The target mimics always contain a motif with sequence complematarity to the miRNA, but the pairing is interrupted by a bulge around the supposed cleavage site (often at 10-11 nt on miRNA). Because of the bulge, miRNA target mimics are not cleaved, instead, they sequesters the miRNA and reduces its active level.
MiRNA target mimics are proved to be powerful tools to analyze functions of miRNA families. Meanwhile, precise manipulation of plant endogenous RNA regulatory networks by engineering miRNA target mimics are expected to enhance plant development and their ability to respond to environmental stresses.
Our software is developed to predict plant miRNA endougenous target mimics in genome-wide scale. We provide pre-loaded transcript sequences of coding and non-coding regions from 4 species as a candidate pool of target mimics and as many as 6 tunable parameters.
For detailed explanation of the usages of the server, please check the manual.
Download
Download and install psMimic source code:
PsMimic local version is provided in need of high throughput local plant small RNA target mimicry prediction. The local version is written in C with a Perl wrapper. In order to install and use the local version of psMimic, you need to have a Unix/Linux system, a C compiler and a Perl interpreter.
Version | Source | Date | ||
---|---|---|---|---|
psMimic v1.1 | psMimic_v1.1.tar.gz | 04-13-2016 |
To install psMimic:
tar zxvf psMimic_v1.1.tar.gz
cd psMimic_v1.1
./configure -p <INSTALLATION_PATH>
make
make install
Run psMimic:
psRobot_mim -s <SMALL_RNA> -t <TARGET_MIMICRY> -o <OUTPUT_FILE>
For detailed usage and alternative parameter settings, please run:
psRobot_mim -h