4 papers
Towards a Unified Framework for Determining Conformational Ensembles of Disordered Proteins
Hamidreza Ghafouri, Pavel Kadeřávek, Ana M Melo +23
Disordered proteins play essential roles in myriad cellular processes, yet their structural characterization remains a major challenge due to their dynamic and heterogeneous nature…
DOME Registry: Implementing community-wide recommendations for reporting supervised machine learning in biology
Omar Abdelghani Attafi, Damiano Clementel, Konstantinos Kyritsis +17
Supervised machine learning (ML) is used extensively in biology and deserves closer scrutiny. The DOME recommendations aim to enhance the validation and reproducibility of ML resea…
Best practices for the manual curation of Intrinsically Disordered Proteins in DisProt
Federica Quaglia, Anastasia Chasapi, Maria Victoria Nugnes +4
The DisProt database is a significant resource containing manually curated data on experimentally validated intrinsically disordered proteins (IDPs) and regions (IDRs) from the lit…
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…