Publications by Yury Tsybin | EPFL Graph Search

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We present mechanistic studies aimed at improving the understanding of the product ion formation rules in electron capture dissociation (ECD) of peptides and proteins in Fourier transform ion cyclotron resonance mass spectrometry. In particular, we attempt ...

Fourier transform mass spectrometry (FTMS) enables comprehensive analysis of complex molecular mixtures. Given the broad intensity ranges of components in the mass spectra, it is imperative to accurately determine a noise threshold level above which peak a ...

Improving qualitative and quantitative characterization of monoclonal antibodies is essential, because of their increasing popularity as therapeutic drug targets. Electron transfer dissociation (ETD)-based top-down mass spectrometry (MS) is the method of c ...

The increasing importance of immunoglobulins G (IgGs) as biotherapeutics calls for improved structural characterization methods designed for these large (similar to 150 kDa) macromolecules. Analysis workflows have to be rapid, robust, and require minimal s ...

We investigate the benefits and experimental feasibility of approaches enabling the shift from short (1.7 kDa on average) peptides in bottom-up proteomics to about twice longer (similar to 3.2 kDa on average) peptides in the so-called extended bottom-up pr ...

The synthesis of topologically complex structures, such as links and knots, is one of the current challenges in supramolecular chemistry. The so-called Solomon link consists of two doubly interlocked rings. Despite being a rather simple link from a topolog ...

Combined with high and ultra high pressure liquid chromatography, mass spectrometry-based peptide and protein structure analysis requires high resolution and mass accuracy achievable within short ion detection time. Although Fourier transform ion cyclotron ...

RATIONALE: Previously described methods for producing absorption mode Fourier transform ion cyclotron resonance (FTICR) mass spectra have all relied on the phase correction function being quadratic. This assumption has been found to be invalid for some ins ...

Sidebands in mass spectra are an intrinsic feature of Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS). Appearance of the sidebands there is detrimental for the analytical performance, especially in case of complex mixtures analyzed ...

Oviparous animals across many taxa have evolved diverse strategies that deter egg predation, providing valuable tests of how natural selection mitigates direct fitness loss. Communal egg laying in nonsocial species minimizes egg predation. However, in cann ...

Following a recent effort [J. Am. Soc. Mass Spectrom. 23, 386-396 (2012)], we continue to explore computational methodologies for generating molecular conformations to support collisional cross sections suggested by ion mobility measurements. Here, adaptiv ...

A mass spectrometry-based assay combining the specificity of selected reaction monitoring and the protein ion activation capabilities of electron transfer dissociation was developed and employed for the rapid identification of hemoglobin variants from whol ...

Modern mass spectrometry (MS)-based protein identification and characterization relies upon accurate mass measurements of the C-13 isotopic distributions of the enzymatically produced peptides. Interestingly, obtaining peptide elemental composition informa ...

Because of the high complexity of petroleomic-type samples, there is a need for efficient ways of visualizing and interpreting the resulting data in mass spectrometry-based petroleomics. Over the years, several graphing approaches have become widespread, y ...

The therapeutic efficacy and pharmacokinetics of antibody-drug conjugates (ADCs) in general, and antibody-oligonucleotide conjugates (AOCs) in particular, depend on the drug-to-antibody ratio (DAR) distribution and average value. The DAR is considered a cr ...

Data-dependent tandem mass spectrometry (MS/MS) is one of the main techniques for protein identification in shotgun proteomics. In a typical LC MS/MS workflow, peptide product ion mass spectra (MS/MS spectra) are compared with those derived theoretically f ...

Lipidomes undergo permanent extensive remodeling, but how the turnover rate differs between lipid classes and molecular species is poorly understood. We employed metabolic N-15 labeling and shotgun ultra-high-resolution mass spectrometry (sUHR) to quantify ...

Mass spectrometry (MS) is currently the most sensitive and selective analytical technique for routine peptide and protein structure analysis. Top-down proteomics is based on tandem mass spectrometry (MS/MS) of intact proteins, where multiply charged precur ...

Enhanced charging, or supercharging, of analytes in electrospray ionization mass spectrometry (ESI MS) facilitates high resolution MS by reducing an ion mass-to-charge (m/z) ratio, increasing tandem mass spectrometry (MS/MS) efficiency. ESI MS superchargin ...

Pairing light and heavy chains in monoclonal antibodies (mAbs) using top-down (TD) or middle-down (MD) mass spectrometry (MS) may complement the sequence information on single chains provided by high-throughput genomic sequencing and bottom-up proteomics, ...

Yury Tsybin

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Electron Capture Dissociation Product Ion Abundances at the X Amino Acid in RAAAA-X-AAAAK Peptides Correlate with Amino Acid Polarity and Radical Stability

Distinguishing analyte from noise components in mass spectra of complex samples: where to cut the noise?

Structural analysis of intact monoclonal antibodies by electron transfer dissociation mass spectrometry

Top-down analysis of immunoglobulin G isotypes 1 and 2 with electron transfer dissociation on a high-field Orbitrap mass spectrometer

Extended Bottom-Up Proteomics with Secreted Aspartic Protease Sap9

Self-Assembly of a Giant Molecular Solomon Link from 30 Subcomponents

Towards data acquisition throughput increase in Fourier transform mass spectrometry of proteins using double frequency measurements

Producing absorption mode Fourier transform ion cyclotron resonance mass spectra with non-quadratic phase correction functions

Sidebands in Fourier transform ion cyclotron resonance mass spectra

Drosophila melanogaster cloak their eggs with pheromones, which prevents cannibalism

Statistical Analysis of Ion Mobility Spectrometry. II. Adaptively Biased Methods and Shape Correlations

Electron Transfer Dissociation Mass Spectrometry of Hemoglobin on Clinical Samples

On the Utility of Isotopic Fine Structure Mass Spectrometry in Protein Identification

Hexagonal Class Representation for Fingerprinting and Facile Comparison of Petroleomic Samples

Drug-to-Antibody Ratio Estimation via Proteoform Peak Integration in the Analysis of Antibody-Oligonucleotide Conjugates with Orbitrap Fourier Transform Mass Spectrometry

Empirical multi-dimensional space for scoring peptide spectrum matches in shotgun proteomics

Monitoring Membrane Lipidome Turnover by Metabolic N-15 Labeling and Shotgun Ultra-High-Resolution Orbitrap Fourier Transform Mass Spectrometry

Practical Considerations for Improving the Productivity of Mass Spectrometry-based Proteomics

In-Spray Supercharging of Peptides and Proteins in Electrospray Ionization Mass Spectrometry

Multiplexed Middle-Down Mass Spectrometry as a Method for Revealing Light and Heavy Chain Connectivity in a Monoclonal Antibody