Multi-substrate selectivity based on key loops and non-homologous domains: new insight into ALKBH family

B Xu, D Liu, Z Wang, R Tian, Y Zuo - Cellular and Molecular Life Sciences, 2021 - Springer
AlkB homologs (ALKBH) are a family of specific demethylases that depend on Fe 2+ and α-
ketoglutarate to catalyze demethylation on different substrates, including ssDNA, dsDNA …

Application of machine learning for drug–target interaction prediction

L Xu, X Ru, R Song - Frontiers in genetics, 2021 - frontiersin.org
Exploring drug–target interactions by biomedical experiments requires a lot of human,
financial, and material resources. To save time and cost to meet the needs of the present …

PAtbP-EnC: Identifying anti-tubercular peptides using multi-feature representation and genetic algorithm-based deep ensemble model

S Akbar, A Raza, T Al Shloul, A Ahmad, A Saeed… - IEEE …, 2023 - ieeexplore.ieee.org
Mycobacterium tuberculosis, a highly perilous pathogen in humans, serves as the causative
agent of tuberculosis (TB), affecting nearly 33% of the global population. With the increasing …

A first computational frame for recognizing heparin-binding protein

W Zhu, SS Yuan, J Li, CB Huang, H Lin, B Liao - Diagnostics, 2023 - mdpi.com
Heparin-binding protein (HBP) is a cationic antibacterial protein derived from multinuclear
neutrophils and an important biomarker of infectious diseases. The correct identification of …

iAMPCN: a deep-learning approach for identifying antimicrobial peptides and their functional activities

J Xu, F Li, C Li, X Guo, C Landersdorfer… - Briefings in …, 2023 - academic.oup.com
Antimicrobial peptides (AMPs) are short peptides that play crucial roles in diverse biological
processes and have various functional activities against target organisms. Due to the abuse …

A statistical analysis of the sequence and structure of thermophilic and non-thermophilic proteins

Z Ahmed, H Zulfiqar, L Tang, H Lin - International Journal of Molecular …, 2022 - mdpi.com
Thermophilic proteins have various practical applications in theoretical research and in
industry. In recent years, the demand for thermophilic proteins on an industrial scale has …

[HTML][HTML] Identification of cyclin protein using gradient boost decision tree algorithm

H Zulfiqar, SS Yuan, QL Huang, ZJ Sun, FY Dao… - Computational and …, 2021 - Elsevier
Cyclin proteins are capable to regulate the cell cycle by forming a complex with cyclin-
dependent kinases to activate cell cycle. Correct recognition of cyclin proteins could provide …

Deep-4mCW2V: A sequence-based predictor to identify N4-methylcytosine sites in Escherichia coli

H Zulfiqar, ZJ Sun, QL Huang, SS Yuan, H Lv, FY Dao… - Methods, 2022 - Elsevier
Abstract N4-methylcytosine (4mC) is a type of DNA modification which could regulate
several biological progressions such as transcription regulation, replication and gene …

RFhy-m2G: identification of RNA N2-methylguanosine modification sites based on random forest and hybrid features

C Ao, Q Zou, L Yu - Methods, 2022 - Elsevier
N2-methylguanosine is a post-transcriptional modification of RNA that is found in eukaryotes
and archaea. The biological function of m2G modification discovered so far is to control and …

Identify DNA-binding proteins through the extreme gradient boosting algorithm

Z Zhao, W Yang, Y Zhai, Y Liang, Y Zhao - Frontiers in Genetics, 2022 - frontiersin.org
The exploration of DNA-binding proteins (DBPs) is an important aspect of studying
biological life activities. Research on life activities requires the support of scientific research …