Prediction of bio-sequence modifications and the associations with diseases

C Ao, L Yu, Q Zou - Briefings in Functional Genomics, 2021 - academic.oup.com
Modifications of protein, RNA and DNA play an important role in many biological processes
and are related to some diseases. Therefore, accurate identification and comprehensive …

Research progress in protein posttranslational modification site prediction

W He, L Wei, Q Zou - Briefings in functional genomics, 2019 - academic.oup.com
Posttranslational modifications (PTMs) play an important role in regulating protein folding,
activity and function and are involved in almost all cellular processes. Identification of PTMs …

Multivariate approach for Alzheimer's disease detection using stationary wavelet entropy and predator-prey particle swarm optimization

Y Zhang, S Wang, Y Sui, M Yang… - Journal of …, 2018 - journals.sagepub.com
Background: The number of patients with Alzheimer's disease is increasing rapidly every
year. Scholars often use computer vision and machine learning methods to develop an …

iEnhancer-5Step: identifying enhancers using hidden information of DNA sequences via Chou's 5-step rule and word embedding

NQK Le, EKY Yapp, QT Ho, N Nagasundaram… - Analytical …, 2019 - Elsevier
An enhancer is a short (50–1500bp) region of DNA that plays an important role in gene
expression and the production of RNA and proteins. Genetic variation in enhancers has …

iCarPS: a computational tool for identifying protein carbonylation sites by novel encoded features

D Zhang, ZC Xu, W Su, YH Yang, H Lv, H Yang… - …, 2021 - academic.oup.com
Motivation Protein carbonylation is one of the most important oxidative stress-induced post-
translational modifications, which is generally characterized as stability, irreversibility and …

Malsite-deep: prediction of protein malonylation sites through deep learning and multi-information fusion based on NearMiss-2 strategy

M Wang, L Song, Y Zhang, H Gao, L Yan… - Knowledge-Based Systems, 2022 - Elsevier
Malonylation is a new protein post-translational modification and regulates a variety of
cellular physiological processes. However, it is costly and time-consuming to identify …

Citrullination site prediction by incorporating sequence coupled effects into PseAAC and resolving data imbalance issue

MAM Hasan, MK Ben Islam, J Rahman… - Current …, 2020 - ingentaconnect.com
Background: Post-translational modification is one of the bio-molecular mechanisms in living
organisms, which incorporate functional diversity in proteins as well as regulate cellular …

predML-site: predicting multiple lysine PTM sites with optimal feature representation and data imbalance minimization

S Ahmed, A Rahman, MAM Hasan… - IEEE/ACM …, 2021 - ieeexplore.ieee.org
Identifying of post-translational modifications (PTM) is crucial in the study of computational
proteomics, cell biology, pathogenesis, and drug development due to its role in many bio …

[HTML][HTML] mLysPTMpred: multiple lysine PTM site prediction using combination of SVM with resolving data imbalance issue

MAM Hasan, S Ahmad - Natural Science, 2018 - scirp.org
Post-translational modification (PTM) increases the functional diversity of proteins by
introducing new functional groups to the side chain of amino acid of a protein. Among all …

MDD-carb: a combinatorial model for the identification of protein carbonylation sites with substrate motifs

HJ Kao, SL Weng, KY Huang, FJ Kaunang… - BMC systems …, 2017 - Springer
Background Carbonylation, which takes place through oxidation of reactive oxygen species
(ROS) on specific residues, is an irreversibly oxidative modification of proteins. It has been …