slc22a5

Variant effect prediction for SLC22A5 transporter gene using Potts models.

Colabs

Predicting single mutant variant effects with trained potts models slc22a5_single_mutants.ipynb

Training a potts model from an alignment slc22a5_train_potts.ipynb

Data

Wildtype

wget http://s3.amazonaws.com/songlabdata/slc22a5/O76082.fasta

Alignments

wget http://s3.amazonaws.com/songlabdata/slc22a5/alignments/deepsequence.a3m
wget http://s3.amazonaws.com/songlabdata/slc22a5/alignments/eve.a3m
wget http://s3.amazonaws.com/songlabdata/slc22a5/alignments/hhblits.a3m
wget http://s3.amazonaws.com/songlabdata/slc22a5/alignments/mammals_30.a3m
wget http://s3.amazonaws.com/songlabdata/slc22a5/alignments/vertebrates_100.a3m

Trained Potts models

wget http://s3.amazonaws.com/songlabdata/slc22a5/potts/deepsequence.npz
wget http://s3.amazonaws.com/songlabdata/slc22a5/potts/eve.npz
wget http://s3.amazonaws.com/songlabdata/slc22a5/potts/hhblits.npz
wget http://s3.amazonaws.com/songlabdata/slc22a5/potts/mammals_30.npz
wget http://s3.amazonaws.com/songlabdata/slc22a5/potts/vertebrates_100.npz