Executable

TargetMiner

Download Instructions:

• Download the TargetMiner package.
• Unzip and extract all its files.
• Go to libsvm-2.88 directory. Use the command 'make'.
• Go to TargetMiner directory. Type 'chmod +x TargetMiner'.
• Type: ./TargetMiner -test < filename > -3utr < filename > -mir < filename > to execute TargetMiner.

Usage:

• Type: ./TargetMiner --help to see its usage.
  

Parameters:

test file: A Tab delimited two columns input file. First column contains the miRNA name (ex: >hsa-miR-1) and the second column contains the Refseq id (ex: NM_018362) of mRNA.
3utr file: A fasta format file containing the 3'UTR sequences.
mir file: A fasta format file containing the miRNA sequences.


Download zip file contains:

• hg18_3utr.txt: Human 3'UTR database file.
  
• hsa_mirbase_list.txt: MicroRNA sequence file.
  
• bio_verified_positive_test.txt: Input test file containing biologically validated positive examples.
  
• bio_verified_negative_test.txt: Input test file containing biologically validated negative examples.
  
• TargetMiner_Prediction_for_bio_verified_positive_test.html: Tab delimited table of predictions for biologically validated positive examples
  
• TargetMiner_Prediction_for_bio_verified_negative_test.html: Tab delimited table of predictions for biologically validated negative examples.
  
  
The result is obtained by the following command:
./TargetMiner -test bio_verified_positive_test.txt -3utr hg18_3utr.txt -mir hsa_mirbase_list.txt