computational prediction of biological liquid-liquid phase separation systems
https://www.biorxiv.org/content/10.1101/2022.07.25.501404v1
- pre-requirements: see Code/packages.ini
- data requirements:
a) Download PPI data （"BIOGRID-ORGANISM-Homo_sapiens-4.4.207.tab3.txt"） from biogrid
https://downloads.thebiogrid.org/BioGRID/Release-Archive/BIOGRID-4.4.211/
and change the path in main.py
b) Create uniprot database from https://www.uniprot.org/help/downloads
mkdir uniprotDB
wget https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/complete/uniprot_sprot.dat.gz
split the .dat file and rename those file as uniprotID.txt
-
start the query python main.py --id [uniprotID]
-
check the results
change the path in app.py
app = Flask(__name__, template_folder="../Code/condensateNetV2/templates")
python app.py
then open a browser on the URL http://127.0.0.1:8000/llpswise/+<targetid>