Application advances of deep learning methods for de novo drug design and molecular dynamics simulation
De novo drug design is a stationary way to build novel ligands in the confined pocket of
receptor by assembling the atoms or fragments, while molecular dynamics (MD) simulation …
receptor by assembling the atoms or fragments, while molecular dynamics (MD) simulation …
In silico Strategies to Support Fragment-to-Lead Optimization in Drug Discovery
LR de Souza Neto, JT Moreira-Filho, BJ Neves… - Frontiers in …, 2020 - frontiersin.org
Fragment-based drug (or lead) discovery (FBDD or FBLD) has developed in the last two
decades to become a successful key technology in the pharmaceutical industry for early …
decades to become a successful key technology in the pharmaceutical industry for early …
AutoGrow4: an open-source genetic algorithm for de novo drug design and lead optimization
JO Spiegel, JD Durrant - Journal of cheminformatics, 2020 - Springer
We here present AutoGrow4, an open-source program for semi-automated computer-aided
drug discovery. AutoGrow4 uses a genetic algorithm to evolve predicted ligands on demand …
drug discovery. AutoGrow4 uses a genetic algorithm to evolve predicted ligands on demand …
FFLOM: A flow-based autoregressive model for fragment-to-lead optimization
J **, D Wang, G Shi, J Bao, J Wang… - Journal of Medicinal …, 2023 - ACS Publications
Recently, deep generative models have been regarded as promising tools in fragment-
based drug design (FBDD). Despite the growing interest in these models, they still face …
based drug design (FBDD). Despite the growing interest in these models, they still face …
Virtual screening web servers: designing chemical probes and drug candidates in the cyberspace
N Singh, L Chaput, BO Villoutreix - Briefings in bioinformatics, 2021 - academic.oup.com
The interplay between life sciences and advancing technology drives a continuous cycle of
chemical data growth; these data are most often stored in open or partially open databases …
chemical data growth; these data are most often stored in open or partially open databases …
PepScaf: Harnessing Machine Learning with In Vitro Selection toward De Novo Macrocyclic Peptides against IL-17C/IL-17RE Interaction
S Zhai, Y Tan, C Zhang, CJ Hipolito… - Journal of Medicinal …, 2023 - ACS Publications
The combination of library-based screening and artificial intelligence (AI) has been
accelerating the discovery and optimization of hit ligands. However, the potential of AI to …
accelerating the discovery and optimization of hit ligands. However, the potential of AI to …
Deep Lead Optimization: Leveraging Generative AI for Structural Modification
The integration of deep learning-based molecular generation models into drug discovery
has garnered significant attention for its potential to expedite the development process …
has garnered significant attention for its potential to expedite the development process …
Fragment based drug design: from experimental to computational approaches
Fragment based drug design has emerged as an effective alternative to high throughput
screening for the identification of lead compounds in drug discovery in the past fifteen years …
screening for the identification of lead compounds in drug discovery in the past fifteen years …
ACFIS: a web server for fragment-based drug discovery
In order to foster innovation and improve the effectiveness of drug discovery, there is a
considerable interest in exploring unknown 'chemical space'to identify new bioactive …
considerable interest in exploring unknown 'chemical space'to identify new bioactive …
De novo drug design
M Hartenfeller, G Schneider - Chemoinformatics and computational …, 2011 - Springer
Computer-assisted molecular design supports drug discovery by suggesting novel
chemotypes and compound modifications for lead structure optimization. While the aspect of …
chemotypes and compound modifications for lead structure optimization. While the aspect of …