DeepGOZero: improving protein function prediction from sequence and zero-shot learning based on ontology axioms.

ABSTRACT:

Motivation

Protein functions are often described using the Gene Ontology (GO) which is an ontology consisting of over 50 000 classes and a large set of formal axioms. Predicting the functions of proteins is one of the key challenges in computational biology and a variety of machine learning methods have been developed for this purpose. However, these methods usually require a significant amount of training data and cannot make predictions for GO classes that have only few or no experimental annotations.

Results

We developed DeepGOZero, a machine learning model which improves predictions for functions with no or only a small number of annotations. To achieve this goal, we rely on a model-theoretic approach for learning ontology embeddings and combine it with neural networks f

SUBMITTER: Kulmanov M 

PROVIDER: S-EPMC9235501 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature