[HTML][HTML] SELFIES and the future of molecular string representations

M Krenn, Q Ai, S Barthel, N Carson, A Frei, NC Frey… - Patterns, 2022 - cell.com
Artificial intelligence (AI) and machine learning (ML) are expanding in popularity for broad
applications to challenging tasks in chemistry and materials science. Examples include the …

[HTML][HTML] Review on natural products databases: where to find data in 2020

M Sorokina, C Steinbeck - Journal of cheminformatics, 2020 - Springer
Natural products (NPs) have been the centre of attention of the scientific community in the
last decencies and the interest around them continues to grow incessantly. As a …

[HTML][HTML] High-confidence structural annotation of metabolites absent from spectral libraries

MA Hoffmann, LF Nothias, M Ludwig… - Nature …, 2022 - nature.com
Untargeted metabolomics experiments rely on spectral libraries for structure annotation, but,
typically, only a small fraction of spectra can be matched. Previous in silico methods search …

[HTML][HTML] BIOPEP-UWM database of bioactive peptides: Current opportunities

P Minkiewicz, A Iwaniak, M Darewicz - International journal of molecular …, 2019 - mdpi.com
The BIOPEP-UWM™ database of bioactive peptides (formerly BIOPEP) has recently
become a popular tool in the research on bioactive peptides, especially on these derived …

Systematic classification of unknown metabolites using high-resolution fragmentation mass spectra

K Dührkop, LF Nothias, M Fleischauer, R Reher… - Nature …, 2021 - nature.com
Metabolomics using nontargeted tandem mass spectrometry can detect thousands of
molecules in a biological sample. However, structural molecule annotation is limited to …

PubChem 2019 update: improved access to chemical data

S Kim, J Chen, T Cheng, A Gindulyte, J He… - Nucleic acids …, 2019 - academic.oup.com
Abstract PubChem (https://pubchem. ncbi. nlm. nih. gov) is a key chemical information
resource for the biomedical research community. Substantial improvements were made in …

[HTML][HTML] An open source chemical structure curation pipeline using RDKit

AP Bento, A Hersey, E Félix, G Landrum… - Journal of …, 2020 - Springer
Abstract Background The ChEMBL database is one of a number of public databases that
contain bioactivity data on small molecule compounds curated from diverse sources …

PubChem 2023 update

S Kim, J Chen, T Cheng, A Gindulyte, J He… - Nucleic acids …, 2023 - academic.oup.com
Abstract PubChem (https://pubchem. ncbi. nlm. nih. gov) is a popular chemical information
resource that serves a wide range of use cases. In the past two years, a number of changes …

[HTML][HTML] MSNovelist: de novo structure generation from mass spectra

MA Stravs, K Dührkop, S Böcker, N Zamboni - Nature Methods, 2022 - nature.com
Current methods for structure elucidation of small molecules rely on finding similarity with
spectra of known compounds, but do not predict structures de novo for unknown compound …

Per-and polyfluoroalkyl substances (PFAS) in PubChem: 7 million and growing

EL Schymanski, J Zhang, PA Thiessen… - Environmental …, 2023 - ACS Publications
Per-and polyfluoroalkyl substances (PFAS) are of high concern, with calls to regulate them
as a class. In 2021, the Organisation for Economic Co-operation and Development (OECD) …