[PDF][PDF] Encyclopedia of bioinformatics and computational biology

SC Peter, JK Dhanjal, V Malik… - … , S., Grib-skov, M …, 2019 - researchgate.net
Quantitative structure-activity relationship (QSAR) methods are important for prediction of
biological effect of chemical compounds based on mathematical and statistical relations …

Therapeutic targets and computational approaches on drug development for COVID-19

A Shanmugam, N Muralidharan… - Current Topics in …, 2020 - ingentaconnect.com
World Health Organization declared coronavirus disease (COVID-19) caused by SARS
coronavirus-2 (SARS-CoV-2) as pandemic. Its outbreak started in China in Dec 2019 and …

Exploring the selectivity of inhibitor complexes with Bcl-2 and Bcl-XL: A molecular dynamics simulation approach

N Wakui, R Yoshino, N Yasuo, M Ohue… - Journal of Molecular …, 2018 - Elsevier
Abstract B-cell lymphoma 2 (Bcl-2) family proteins are potential drug targets in cancer and
have a relatively flat and flexible binding site. ABT-199 is one of the most promising selective …

Computational approaches for identifying potential inhibitors on targeting protein interactions in drug discovery

V Kanakaveti, A Shanmugam, C Ramakrishnan… - Advances in protein …, 2020 - Elsevier
In the era of big data, the interplay of artificial and human intelligence is the demanding job
to address the concerns involving exchange of decisions between both sides. Drug …

Exploring the chemical space of protein–protein interaction inhibitors through machine learning

J Choi, JS Yun, H Song, NH Kim, HS Kim, JI Yook - Scientific reports, 2021 - nature.com
Although protein–protein interactions (PPIs) have emerged as the basis of potential new
therapeutic approaches, targeting intracellular PPIs with small molecule inhibitors is …

Grouping matrix based graph pooling with adaptive number of clusters

SM Ko, S Cho, DW Jeong, S Han, M Lee… - Proceedings of the AAAI …, 2023 - ojs.aaai.org
Graph pooling is a crucial operation for encoding hierarchical structures within graphs. Most
existing graph pooling approaches formulate the problem as a node clustering task which …

Selectivity mechanism of BCL-XL/2 inhibition through in silico investigation

J Luan, B Hu, S Wang, H Liu, S Lu, W Li… - Physical Chemistry …, 2022 - pubs.rsc.org
The BCL-XL protein is among the most important members of the anti-apoptotic subfamily of
the BCL-2 protein family, and is currently a promising new target for anti-tumor drug …

Novel BH4-BCL-2 domain antagonists induce BCL-2-mediated apoptosis in triple-negative breast cancer

V Kanakaveti, S Ramasamy, R Kanumuri… - Cancers, 2022 - mdpi.com
Simple Summary Our work has led to the identification of three novel BH4 mimetics, SM216,
SM396, and SM949, with nanomolar activities both in vitro and in vivo assays. SM396 binds …

Application of multivariate adaptive regression splines (MARSplines) for predicting hansen solubility parameters based on 1D and 2D molecular descriptors computed …

M Przybyłek, T Jeliński, P Cysewski - Journal of Chemistry, 2019 - Wiley Online Library
A new method of Hansen solubility parameters (HSPs) prediction was developed by
combining the multivariate adaptive regression splines (MARSplines) methodology with a …

3D Denoisers are Good 2D Teachers: Molecular Pretraining via Denoising and Cross-Modal Distillation

S Cho, DW Jeong, SM Ko, J Kim, S Han… - arXiv preprint arXiv …, 2023 - arxiv.org
Pretraining molecular representations from large unlabeled data is essential for molecular
property prediction due to the high cost of obtaining ground-truth labels. While there exist …