[HTML][HTML] Transformer-based deep learning for predicting protein properties in the life sciences

A Chandra, L Tünnermann, T Löfstedt, R Gratz - Elife, 2023 - elifesciences.org
Recent developments in deep learning, coupled with an increasing number of sequenced
proteins, have led to a breakthrough in life science applications, in particular in protein …

[HTML][HTML] Deep learning methods in protein structure prediction

M Torrisi, G Pollastri, Q Le - Computational and Structural Biotechnology …, 2020 - Elsevier
Abstract Protein Structure Prediction is a central topic in Structural Bioinformatics. Since
the'60s statistical methods, followed by increasingly complex Machine Learning and recently …

From machine learning to deep learning: Advances in scoring functions for protein–ligand docking

C Shen, J Ding, Z Wang, D Cao… - Wiley Interdisciplinary …, 2020 - Wiley Online Library
Molecule docking has been regarded as a routine tool for drug discovery, but its accuracy
highly depends on the reliability of scoring functions (SFs). With the rapid development of …

Heart diagnosis using deep neural network

S Mall, J Singh - 2023 International Conference on …, 2023 - ieeexplore.ieee.org
Worldwide, heart disease is the leading cause of mortality. By providing proper therapy,
early identification of heart disease can lower the likelihood of the illness advancing to a …

DescribePROT: database of amino acid-level protein structure and function predictions

B Zhao, A Katuwawala, CJ Oldfield… - Nucleic Acids …, 2021 - academic.oup.com
We present DescribePROT, the database of predicted amino acid-level descriptors of
structure and function of proteins. DescribePROT delivers a comprehensive collection of 13 …

Structure and elevator mechanism of the mammalian sodium/proton exchanger NHE9

I Winkelmann, R Matsuoka, PF Meier, D Shutin… - The EMBO …, 2020 - embopress.org
Abstract Na+/H+ exchangers (NHEs) are ancient membrane‐bound nanomachines that
work to regulate intracellular pH, sodium levels and cell volume. NHE activities contribute to …

Different methods, techniques and their limitations in protein structure prediction: A review

V Bongirwar, AS Mokhade - Progress in Biophysics and Molecular Biology, 2022 - Elsevier
Because of the increase in different types of diseases in human habitats, demands for
designing various types of drugs are also increasing. Protein and its structure play a very …

SAINT: self-attention augmented inception-inside-inception network improves protein secondary structure prediction

MR Uddin, S Mahbub, MS Rahman, MS Bayzid - Bioinformatics, 2020 - academic.oup.com
Motivation Protein structures provide basic insight into how they can interact with other
proteins, their functions and biological roles in an organism. Experimental methods (eg X …

Deep learning for mining protein data

Q Shi, W Chen, S Huang, Y Wang… - Briefings in …, 2021 - academic.oup.com
The recent emergence of deep learning to characterize complex patterns of protein big data
reveals its potential to address the classic challenges in the field of protein data mining …

[HTML][HTML] Deep learning for protein secondary structure prediction: Pre and post-AlphaFold

DP Ismi, R Pulungan - Computational and structural biotechnology …, 2022 - Elsevier
This paper aims to provide a comprehensive review of the trends and challenges of deep
neural networks for protein secondary structure prediction (PSSP). In recent years, deep …