457 citations · 613 across the 9 of their papers we have counts for
5 papers · 1 filter
LAFA: A Framework for Reproducible Longitudinal Assessment of Protein Function Annotation Models
An Phan, Yanli Wang, Frimpong Boadu +3
Motivation: Protein function prediction is a challenging task and an open problem in computational biology. The Critical Assessment of protein Function Annotation (CAFA) is a trien…
CAFA-evaluator: A Python Tool for Benchmarking Ontological Classification Methods
Damiano Piovesan, Davide Zago, Parnal Joshi +8
We present CAFA-evaluator, a powerful Python program designed to evaluate the performance of prediction methods on targets with hierarchical concept dependencies. It generalizes mu…
Reliable uncertainty estimate for antibiotic resistance classification with Stochastic Gradient Langevin Dynamics
Md-Nafiz Hamid, Iddo Friedberg
Antibiotic resistance monitoring is of paramount importance in the face of this on-going global epidemic. Deep learning models trained with traditional optimization algorithms (e.g…
Community-Wide Evaluation of Computational Function Prediction
Iddo Friedberg, Predrag Radivojac
A biological experiment is the most reliable way of assigning function to a protein. However, in the era of high-throughput sequencing, scientists are unable to carry out experimen…
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Yuxiang Jiang, Tal Ronnen Oron, Wyatt T Clark +144
Background: The increasing volume and variety of genotypic and phenotypic data is a major defining characteristic of modern biomedical sciences. At the same time, the limitations i…