Difference between revisions of "P53MH"

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<!--Modules-->
 
<!--Modules-->
==Required Modules==
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==Environment Modules==
 
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
 
* {{#var:app}}
 
<!--
 
===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
-->
 
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
* HPC_{{#uppercase:{{#var:app}}}}_BIN - executable directory
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* HPC_{{uc:{{#var:app}}}}_BIN - executable directory
* HPC_{{#uppercase:{{#var:app}}}}_DAT - example data directory
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* HPC_{{uc:{{#var:app}}}}_DAT - example data directory
 
<!--Configuration-->
 
<!--Configuration-->
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==

Latest revision as of 18:35, 10 June 2022

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 x 10 + (selected length of spacer region).

Environment Modules

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

System Variables

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

Additional 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 AJ, Ott J (2002) The p53MH algorithm and its application in detecting p53-responsive genes. Proc Natl Acad Sci USA 99, 8467-8472