Tomáš Pluskal

This paper introduces a high-throughput method for screening protein solubility using aqueous solvents, demonstrating its effectiveness with challenging de novo proteins.

The paper introduces a collaborative platform for curating microbial metabolite knowledge to enhance metabolomics data interpretation.

MARTS-DB is a manually curated database of terpene synthase mechanisms and reactions, providing over 2,600 reactions and supporting computational analysis and machine learning.

An all-atom diffusion model unifying biomolecular structure prediction and sequence-structure generation designs experimentally validated nanobodies, mini-proteins, and linear or cyclic peptides across 26 diverse targets.

The paper identifies six enzymatic steps in the biosynthesis of atisinium using comparative transcriptomics and demonstrates ethanolamine as the preferred nitrogen source for diterpenoid alkaloids.

The paper identifies and isolates novel capsaicinoids from chilis, showing structural variations significantly impact TRPV1 activation and demonstrating non-pungent compounds modulate capsaicin's effects.

This study uses computational metabolomics to discover novel alkaloids in Piper fimbriulatum, revealing previously overlooked chemodiversity in the Piperaceae family.

The paper develops a drug exposure resource from untargeted metabolomics data to identify medications without clinical records.

The paper curates LC-MS/MS data from plant extracts to create a taxonomically focused database for exploring plant-derived molecules.

The paper introduces POMBOX, a toolkit for constructing genetic circuits in fission yeast, enabling modular assembly of multi-gene pathways and testing synthetic elements in metabolic engineering.

MassQL, an open-source query language, lets users search raw mass spectrometry data from any vendor for isotope, fragmentation and neutral-loss patterns, from one file to entire public repositories.

The paper introduces Ion Identity Molecular Networking to connect ion species of the same molecule, improving network connectivity and annotation.

The paper introduces FBMN, a method for improving molecular networking by enhancing quantitative analysis and isomer distinction using feature detection and alignment tools in the GNPS platform.