DeepPurpose: a deep learning library for drug–target interaction prediction

K Huang, T Fu, LM Glass, M Zitnik, C **ao… - Bioinformatics, 2020 - academic.oup.com
Accurate prediction of drug–target interactions (DTI) is crucial for drug discovery. Recently,
deep learning (DL) models for show promising performance for DTI prediction. However …

Protein structure prediction: recognition of primary, secondary, and tertiary structural features from amino acid sequence

F Eisenhaber, B Persson, P Argos - Critical reviews in biochemistry …, 1995 - Taylor & Francis
This review attempts a critical stock-taking of the current state of the science aimed at
predicting structural features of proteins from their amino acid sequences. At the primary …

Progress in protein structure prediction

DT Jones - Current Opinion in Structural Biology, 1997 - Elsevier
If protein structure prediction methods are to make any impact on the impending onerous
task of analyzing the large numbers of unknown protein sequences generated by the …

Predicting drug-target interactions using Lasso with random forest based on evolutionary information and chemical structure

H Shi, S Liu, J Chen, X Li, Q Ma, B Yu - Genomics, 2019 - Elsevier
The identification of drug-target interactions has great significance for pharmaceutical
scientific research. Since traditional experimental methods identifying drug-target …

DeepPPI: boosting prediction of protein–protein interactions with deep neural networks

X Du, S Sun, C Hu, Y Yao, Y Yan… - Journal of chemical …, 2017 - ACS Publications
The complex language of eukaryotic gene expression remains incompletely understood.
Despite the importance suggested by many proteins variants statistically associated with …

PROFEAT: a web server for computing structural and physicochemical features of proteins and peptides from amino acid sequence

ZR Li, HH Lin, LY Han, L Jiang, X Chen… - Nucleic acids …, 2006 - academic.oup.com
Sequence-derived structural and physicochemical features have frequently been used in the
development of statistical learning models for predicting proteins and peptides of different …

Classification of nuclear receptors based on amino acid composition and dipeptide composition

M Bhasin, GPS Raghava - Journal of Biological Chemistry, 2004 - ASBMB
Nuclear receptors are key transcription factors that regulate crucial gene networks
responsible for cell growth, differentiation, and homeostasis. Nuclear receptors form a …

ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST

M Bhasin, GPS Raghava - Nucleic acids research, 2004 - academic.oup.com
Automated prediction of subcellular localization of proteins is an important step in the
functional annotation of genomes. The existing subcellular localization prediction methods …

A multimodal deep learning framework for predicting PPI-modulator interactions

H Sun, J Wang, H Wu, S Lin, J Chen… - Journal of chemical …, 2023 - ACS Publications
Protein–protein interactions (PPIs) are essential for various biological processes and
diseases. However, most existing computational methods for identifying PPI modulators …

Modality-DTA: multimodality fusion strategy for drug–target affinity prediction

X Yang, Z Niu, Y Liu, B Song, W Lu… - … /ACM Transactions on …, 2022 - ieeexplore.ieee.org
Prediction of the drug–target affinity (DTA) plays an important role in drug discovery. Existing
deep learning methods for DTA prediction typically leverage a single modality, namely …