Work

DIPS-Plus: The Enhanced Database of Interacting Protein Structures for Interface Prediction

Year: 2021

Type: dataset

Abstract: This dataset contains replication data for the paper titled "DIPS-Plus: The Enhanced Database of Interacting Protein Structures for Interface Prediction". The dataset consists of pickled Pandas DataFrame files that can be used to train and validate protein interface prediction models. This dataset also contains the externally generated residue-level PSAIA and HH-suite3 features for users' convenience (e.g. raw MSAs and profile HMMs for each protein complex). Our GitHub repository linked in the "Additional notes" metadata section below provides more details on how we parsed through these files to create training and validation datasets. The GitHub repository for DIPS-Plus also includes scripts that can be used to impute missing feature values and convert the final "raw" complexes into DGL-compatible graph objects.

Source: Figshare

DOI: 10.5281/zenodo.4815266

Authors: Morehead, Alex, Chen, Chen, Sedova, Ada, Cheng, Jianlin

Institutions: University of Missouri, Oak Ridge National Laboratory

Language: English

Topic: Machine Learning in Bioinformatics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: green

Funder: National Science Foundation

Awards: III: Medium: Collaborative Research: Guiding Exploration of Protein Structure Spaces with Deep Learning, ABI Innovation: Deep learning methods for protein bioinformatics

OpenAlex ID: W4393687372

Cites:

Cited by: 1

Related to: 10