p53MH

Description

p53mh website

Computes a score between 0 and 100 for each site in the DNA sequence of a gene. A high score indicates an increased probability that n nucleotides at that and subsequent sites represent a p53 binding site, where n = 2 × 10 + (selected length of spacer region).

Environment Modules

Run module spider p53mh to find out what environment modules are available for this application.

Environment Variables

• HPC_P53MH_DIR - installation directory
• HPC_P53MH_BIN - executable directory
• HPC_P53MH_DAT - data directory

Additional Usage Information

p53MH requires a data file. You can copy the example data file to your current working directory with the follow command:

ml p53mh
cp $HPC_P53MH_DAT/* .

Citation

If you publish research that uses p53mh you have to cite it as follows:

Hoh, J., Jin, S., Parrado, T., Edington, J., Levine, A. J., & Ott, J. (2002). The p53MH algorithm and its application in detecting p53-responsive genes. Proceedings of the National Academy of Sciences, 99(13), 8467-8472. https://doi.org/10.1073/pnas.132268899

Categories

biology, sequencing