This is the implementation for the data portal associated with the following publication:
McMillan, E. A., Ryu, M.-J., Diep, C. H., Mendiratta, S., Clemenceau, J. R., Vaden, R. M., Kim, J.-H., Motoyaji, T., Covington, K. R., Peyton, M., Huffman, K., Wu, X., Girard, L., Sung, Y., Chen, P.-H., Mallipeddi, P. L., Lee, J. Y., Hanson, J., Voruganti, S., … White, M. A. (2018). Chemistry-first approach for nomination of personalized treatment in lung cancer. Cell, 173(4). https://doi.org/10.1016/j.cell.2018.03.028
The portal can be currently acccessed here: https://pops.biohpc.swmed.edu/pops/
This website is built based on a LAMP stack (Linux, Apache, MySQL, PHP). In order to set it up in your server environment, please install the following:
- Apache: version 2.4+
- MySQL: version 5.1+
- PHP: version 5.5+
Once dependencies are intalled do the following:
-
Clone the
pops/
directory to your server -
Contact @jeanrclemenceau for access to the data files
-
Replace the
placeholder.txt
file with the corresponding content for the following directories:pops/curves/
pops/gsea/
pops/pegplots/
pops/roc-curves/
pops/scanningks/
pops/elasticnet/
pops/images/compounds/
-
Build the MySQL POPS database using the given dump file (
POPS_LUNG_DB_<version>.sql
) -
Copy the contents of
SecuritySettings.php
and replace line 10 of `pops/pops_conf.php' -
Update any relevant email addresses and passwords in
pops/pops_conf.php
-
Setup your server for sending STMP emails
-
Point your httpd apache server to the code directory
-
Start your httpd server