Connecting metabolome and phenotype: recent advances in functional metabolomics tools for the identification of bioactive natural products

GA Vitale, C Geibel, V Minda, M Wang, AT Aron… - Natural Product …, 2024 - pubs.rsc.org
Covering: 1995 to 2023Advances in bioanalytical methods, particularly mass spectrometry,
have provided valuable molecular insights into the mechanisms of life. Non-targeted …

Prefix-tree decoding for predicting mass spectra from molecules

S Goldman, J Bradshaw, J Xin… - Advances in Neural …, 2023 - proceedings.neurips.cc
Computational predictions of mass spectra from molecules have enabled the discovery of
clinically relevant metabolites. However, such predictive tools are still limited as they occupy …

From multi-omics to predictive biomarker: AI in tumor microenvironment

L Hai, Z Jiang, H Zhang, Y Sun - Frontiers in Immunology, 2024 - frontiersin.org
In recent years, tumors have emerged as a major global health threat. An increasing number
of studies indicate that the production, development, metastasis, and elimination of tumor …

Mass2SMILES: deep learning based fast prediction of structures and functional groups directly from high-resolution MS/MS spectra.

D Elser, F Huber, E Gaquerel - bioRxiv, 2023 - biorxiv.org
Modern mass spectrometry-based metabolomics generates vast amounts of mass spectral
data as part of the chemical inventory of biospecimens. Annotation of the resulting MS/MS …

Machine Learning Methods for Discovering Metabolite Structures from Mass Spectra

SL Goldman - 2024 - dspace.mit.edu
Small molecule metabolites mediate myriad biological and environmental phenomena
across host-microbiome interactions, plant chemistry, cancer biology, and various other …

LSM1-MS2: A Foundation Model for MS/MS, Encompassing Chemical Property Predictions, Search and de novo Generation

G Asher, MC Delmar, JM Campbell, J Geremia… - 2024 - chemrxiv.org
We present LSM1-MS2, a pre-trained self-supervised foundation model designed for
tandem mass spectrometry (MS/MS) utilizing a transformer architecture with custom …

[引用][C] Welcome to the machine: how machine learning identified metabolomic changes in Brachypodium distachyon under stress

G Pierroz - The Plant Journal, 2023 - Wiley Online Library
Plants produce an incredible array of specialized metabolites that are used to attract
pollinators, deter herbivores, communicate with each other, and regulate their own growth …