AI Networking Cookbook: Practical recipes for AI-assisted network automation and development
TL;DR
This work provides a foundational framework for optimizing spectral library selection in neuropeptidomics and underscores the importance of model-specific biases when analyzing structurally diverse endogenous peptides.
Mass spectrometry has become a central technology for lipidomics, with data-independent acquisition (DIA) enabling broad and reproducible sampling of lipid signals. However, the multiplexed fragment-ion spectra in DIA data complicate lipid identification. Here, we introduce OpenLipid, a large language model (LLM)-based...
Neuropeptides are a diverse class of short, secreted signaling molecules that regulate key physiological processes in animals. Despite their important biological roles and increasingly recognized therapeutic value, the discovery of new neuropeptides remains challenging, largely because their short length and high seque...
Results demonstrate that MolFormer-XL, which combines pre-trained molecular representations with a Transformer-based architecture and learned SMILES embeddings, provides a promising approach for transfer under severe domain-specific data scarcity in environmental mass spectrometry.
Chemoproteomics aims to achieve precise and comprehensive quantification of protein-small molecule interactions, yet methodological comparisons across quantitative proteomics workflows remain scarce. Here, we systematically benchmark tandem mass tag data-dependent acquisition (TMT-DDA) on Orbitrap Exploris/Eclipse inst...
Neurological disorders are the leading cause of health loss worldwide. The growing number of patients suffering from such conditions calls for improved strategies for their prevention, diagnosis, and therapy. To better understand human pathologies, relevant models and methodologies must be made available. In this study...
Top-down (TD) Fourier transform mass spectrometry (FTMS) of proteins generates highly information-rich mass spectra. However, the resulting spectral complexity can hinder data interpretation and method applicability. Here, we apply transient-mediated, instrument-specific simulations of protein TD mass spectra with us...
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