Skip to content

Commit

Permalink
Add PSI-BLAST results to abstract
Browse files Browse the repository at this point in the history
  • Loading branch information
memgonzales authored Nov 30, 2024
1 parent 1bc6865 commit 537692f
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -118,7 +118,7 @@ This script will output a gzip-compressed, serialized version of the trained mod

**Method:** We present PHIStruct, a multilayer perceptron that takes in structure-aware embeddings of receptor-binding proteins, generated via the structure-aware protein language model SaProt, and then predicts the host from among the ESKAPEE genera.

**Results:** Compared against recent tools, PHIStruct exhibits the best balance of precision and recall, with the highest and most stable F1 score across a wide range of confidence thresholds and sequence similarity settings. The margin in performance is most pronounced when the sequence similarity between the training and test sets drops below 40%, wherein, at a relatively high-confidence threshold of above 50%, PHIStruct presents a 7% to 9% increase in class-averaged F1 over machine learning tools that do not directly incorporate structure information, as well as a 5% to 6% increase over BLASTp.
**Results:** Compared against recent tools, PHIStruct exhibits the best balance of precision and recall, with the highest and most stable F1 score across a wide range of confidence thresholds and sequence similarity settings. The margin in performance is most pronounced when the sequence similarity between the training and test sets drops below 40%, wherein, at a relatively high-confidence threshold of above 50%, PHIStruct presents a 7% to 9% increase in class-averaged F1 over machine learning tools that do not directly incorporate structure information, as well as a 5% to 6% increase over BLASTp and a 17% to 18% increase over PSI-BLAST.
<br><br>
<img src="https://github.com/bioinfodlsu/PHIStruct/blob/main/figure.png?raw=True" alt="Teaser Figure" width = 800>
<br><br>
Expand Down

0 comments on commit 537692f

Please sign in to comment.