In San Diego for personal reasons a few weeks before #asms2026. Highly recommend the zoo if any of you on #TeamMassSpec have a free day before or after the conference.

Use of Ion Oscillation Phase Values for Peak Classification and Noise Filtering Efficiency Estimation in Orbitrap Mass Spectra of Natural Organic Matter An unprocessed high-resolution mass spectrum of natural organic matter contains tens of thousands of peaks, many of which are uninformative and associated with noise. Several noise filtering algorithm...

Use of Ion Oscillation Phase Values for Peak Classification and Noise Filtering Efficiency Estimation in Orbitrap Mass Spectra of Natural Organic Matter | Journal of the American Society for Mass Spectrometry pubs.acs.org/doi/10.1021/...

Enhancing Sensitivity in Targeted Single-Cell Proteomics by Coupling a Dual Ion Funnel Interface with Triple Quadrupole Mass Spectrometer Single-cell proteomics (SCP) has emerged as a powerful approach for understanding cellular heterogeneity and biological processes at unprecedented resolution. However, the extremely limited protein co...

pubs.acs.org/doi/10.1021/...

Zero-Dalton Resolution in Nanopore Peptide Recognition Achieving zero-dalton resolution─the discrimination of biomolecules with identical mass─remains a fundamental challenge in molecular analysis. Nanopore sensing can resolve short peptide isomers, but w...

Zero-Dalton Resolution in Nanopore Peptide Recognition | Analytical Chemistry pubs.acs.org/doi/10.1021/...

"Zero Dalton resolution" is a terrible name

Lessons Learned in Orbitrap MS-Based Isotope Ratio Analysis of Organic Acid Mixtures Stable isotope analysis is a vital tool across chemistry, geology, and environmental science, but conventional Isotope Ratio Mass Spectrometry (IRMS) techniques have limited capabilities for site-spec...

pubs.acs.org/doi/10.1021/...

Got a new MacBook Air 15" last weekend. This could possibly be the perfect laptop.

Just the time scales that modern lc-ms users expect

Most mass spectrometers can process just a few molecules at once: Reengineered prototype does a billion simultaneously Mass spectrometry is already a powerful tool for determining what kind and how many molecules are present in a given sample. But most instruments still analyze their molecules one or just a few at a t...

phys.org/news/2026-03...

Not sure how useful this would be for real use cases, but an interesting idea, if nothing else.

Boiler up! Big Ten champs!

If I can end up having even a small fraction of the impact that John has had, I will be a happy man. Here's to a great retirement Dr. Syka! (N/N) #TeamMassSpec

Little did I know that two decades later I would be a close friend of John's, working in those same offices on instruments that are descendants of his early work. What an honor to be one of the people carrying on the tradition that he and others started at Finnigan all those years ago. (3/N)

I remember reading his chapter on commercialization of the ion trap in "Practical Aspects of Ion Trap Mass Spectrometry" while I was in grad school. I thought it sounded like such a cool process, combining serious science and engineering to make tools for other scientists. (2/N)

I just had one last dinner with John Syka, before he moves back to Virginia for retirement later this week. I am indescribably grateful for the opportunity to work with him over the last eight years at Thermo. #TeamMassSpec (1/N)

ASMS acceptances are coming out #TeamMassSpec

Spatial selection of ions separated in a multi-reflection time-of-flight mass analyzer Multi-reflection time-of-flight mass analyzers (MR TOF MAs) have become widely used in nuclear physics research due to their combination of high mass …

www.sciencedirect.com/science/arti...

Finally released the preprint covering TMT HR mode for the Orbitrap Astral Zoom mass spectrometer. Here, multi-pass MS/MS measurements grant us sufficient resolution to quantify TMT reporter ions even to 35-plex, greatly increasing analytical throughput.

www.biorxiv.org/content/10.6...

Pioneer and Altimeter: Fast Analysis of DIA Proteomics Data Optimized for Narrow Isolation Windows Advances in mass spectrometry have enabled increasingly fast data-independent acquisition (DIA) experiments, producing datasets whose scale and complexity challenge existing analysis tools. Those same advances have also led to the use of narrow isolation windows, which alter MS2 spectra via fragment isotope effects and give rise to systematic deviations from spectral libraries. Here we introduce Pioneer and Altimeter, open-source tools for fast DIA analysis with explicit modeling of isolation-window effects. Altimeter predicts deisotoped fragment intensity as a continuous function of collision energy, allowing a single spectral library to be reused across datasets. Pioneer re-isotopes predicted spectra per scan and combines an intensity-aware fragment index, spectral deconvolution, and dual-window quantification for fast, spectrum-centric DIA analysis. Across instruments, experimental designs, and sample inputs, Pioneer enables high-confidence identification and precise quantification at scale, completing analyses 2-6x faster and maintaining conservative false-discovery rate control.

(BioRxiv All) Pioneer and Altimeter: Fast Analysis of DIA Proteomics Data Optimized for Narrow Isolation Windows: Advances in mass spectrometry have enabled increasingly fast data-independent acquisition (DIA) experiments, producing datasets whose scale and complexity… #BioRxiv #MassSpecRSS

Regarding Emitter Positioning for Nanoflow Electrospray Ionization with a High-Capacity Inlet Capillary Nanoflow electrospray ionization is commonly used for proteomics due to its high sensitivity. Signal intensity, however, is dependent on optimal emitter positioning relative to the mass spectrometer i...

Regarding Emitter Positioning for Nanoflow Electrospray Ionization with a High-Capacity Inlet Capillary | Journal of the American Society for Mass Spectrometry pubs.acs.org/doi/10.1021/...

Quantifying the ∼75–95% of Peptides in DIA-MS Data Sets that Were Not Previously Quantified We have developed a novel algorithm termed GoldenHaystack (GH) that was designed for enhanced peptide quantification of data-independent acquisition liquid-mass spectrometry (DIA-LC-MS) data files reg...

dx.doi.org/10.1021/acs....

A Novel Compact Multi-Reflecting Time-of-Flight Mass Spectrometer Mass spectrometry is an indispensable tool for the rapid and in-depth analysis of complex mixtures across diverse biologically important fields including metabolomics, lipidomics, and proteomics. Thes...

pubs.acs.org/doi/10.1021/...

Characterization and Manipulation of Ion Clouds Inside an FT-ICR Instrument: A Laser Tomography Perspective The efficiency of many tandem mass spectrometry (MS/MS) techniques depends on the position of the trapped ion cloud and its overlap with a beam of photons or electrons. Here, we report photoactivated ...

pubs.acs.org/doi/10.1021/...

Boosting the Speed and Accuracy of Protein Quantification Algorithms in Mass Spectrometry-Based Proteomics Protein quantification is a crucial data processing step that combines quantitative values at the peptide or fragment level into protein levels in mass spectrometry-based proteomics. However, many of ...

dx.doi.org/10.1021/acs....

dx.doi.org/10.1021/jasm...

A Systematic Approach to Selecting the Right Tool for Mass Spectrometry Data Analysis in Protein and Peptide Bioanalysis Mass spectrometry (MS) has emerged as an imperative technology in protein and peptide bioanalysis, offering unparalleled sensitivity, specificity, and dynamic range. However, the complexity of MS dat...

analyticalsciencejournals.onlinelibrary.wiley.com/doi/10.1002/...

Native Charge Detection Mass Spectrometry of Kilobase-Scale Messenger RNAs Charge detection mass spectrometry (CDMS) enables direct measurement of mass and charge for individual ions and overcomes fundamental limitations of conventional electrospray mass spectrometry for lar...

chemrxiv.org/engage/chemr...

High performance interface for boosting ion transmission in native mass spectrometry and beyond. Electrospray ionization (ESI)-based native mass spectrometry (MS) has been extensively used to study non-covalent protein complexes and their structural aspects in the gas phase. As such it has a stab...

dx.doi.org/10.26434/che...

Accessing Higher Order Mathieu Space Stability Zones to Narrow Isolation Widths Using Digital Quadrupole Time-of-Flight Mass Spectrometry Digital quadrupoles are driven with rectangular RF waveforms and, through duty cycle control, can access higher-order Mathieu space stability zones (HZs) using comparatively low voltages. Analytically...

pubs.acs.org/doi/full/10....

a close up of a man in a suit and tie with a question mark on his neck . ALT: a close up of a man in a suit and tie with a question mark on his neck .

chemrxiv.org/engage/chemr...

Feedback Control for Electrospray Ionization Based on The Shape of The Liquid Meniscus at The ESI Emitter Stable electrospray ionization is crucial for ensuring consistent ion generation in mass spectrometry. Previously, a feedback control system based on …

www.sciencedirect.com/science/arti...

Feedback Control for Electrospray Ionization Based on The Shape of The Liquid Meniscus at The ESI Emitter Stable electrospray ionization is crucial for ensuring consistent ion generation in mass spectrometry. Previously, a feedback control system based on …

www.sciencedirect.com/science/arti...