Evidence map›Paper›PMID 40736054›Full record

ArticleJournal of the American Society for Mass Spectrometry2025

SynchroSep-MS: Parallel LC Separations for Multiplexed Proteomics.

Noah M Lancaster, Li-Yu Chen, Bingnan Zhao, Benton J Anderson, Mitchell D Probasco, Vadim Demichev, Daniel A Polasky, Alexey I Nesvizhskii, Katherine A Overmyer, Scott T Quarmby and 1 more

Abstract read
In one paragraph

Article in Journal of the American Society for Mass Spectrometry, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. SynchroSep-MS: Parallel LC Separations for Multiplexed Proteomics.Journal of the American Society for Mass Spectrometry · 2025
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors.

Noah M LancasterDepartment of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.ORCID 0009-0002-3609-7951
Li-Yu ChenDepartment of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.
Bingnan ZhaoDepartment of Biomolecular Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.
Benton J AndersonDepartment of Biomolecular Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.
Mitchell D ProbascoDepartment of Biomolecular Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.
Vadim DemichevQuantitative Proteomics Laboratory, Charité - Universitätsmedizin Berlin, Berlin 10117, Germany.
Daniel A PolaskyDepartment of Pathology, University of Michigan, Ann Arbor, Michigan 48109, United States.ORCID 0000-0002-0515-1735
Alexey I NesvizhskiiDepartment of Pathology, University of Michigan, Ann Arbor, Michigan 48109, United States.ORCID 0000-0002-2806-7819
Katherine A OvermyerDepartment of Biomolecular Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.ORCID 0000-0002-1929-1229
Scott T QuarmbyDepartment of Biomolecular Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.ORCID 0000-0003-2991-5637
Joshua J CoonDepartment of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, United States.ORCID 0000-0002-0004-8253

Funding

TR&D 2 Metabolic Labels for Ultraplexed Protein Quantification p. 453P41GM108538 · NIGMS · UNIVERSITY OF WISCONSIN-MADISON · PI COON, JOSHUA J · 2016 to 2025
$13.1M
Structure, Function and Regulation of the ProteomeR35GM118110 · NIGMS · UNIVERSITY OF WISCONSIN-MADISON · PI COON, JOSHUA J · 2016 to 2025
$9.1M
RESEARCH TRAINING IN HEMATOLOGYT32HL007899 · NHLBI · UNIVERSITY OF WISCONSIN-MADISON · PI Jane Ellen Churpek · 1998 to 2026
$8.2M
COMPUTATIONAL TOOLS FOR MASS SPECTROMETRY-BASED INTERACTOME DATAR01GM094231 · NIGMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Alexey I Nesvizhskii · 2010 to 2026
$5.4M
NHLBI NIH HHS T32 HL007899NIGMS NIH HHS P41 GM108538NIGMS NIH HHS R01 GM094231NIGMS NIH HHS R35 GM118110
6 · The paper itself

Abstract

Achieving high throughput remains a challenge in MS-based proteomics for large-scale applications. We introduce SynchroSep-MS, a novel method for parallelized, label-free proteome analysis that leverages the rapid acquisition speed of modern mass spectrometers. This approach employs multiple liquid chromatography columns, each with an independent sample, simultaneously introduced into a single mass spectrometer inlet. A precisely controlled retention time offset between sample injections creates distinct elution profiles, facilitating unambiguous analyte assignment. We modified the DIA-NN workflow to effectively process these unique parallelized data, accounting for retention time offsets. Using a dual-column setup with mouse brain peptides, SynchroSep-MS detected approximately 16,700 unique protein groups, nearly doubling the peptide information obtained from a conventional single proteome analysis. The method demonstrated excellent precision and reproducibility (median protein %RSDs less than 4%) and high quantitative linearity (median R

Indexed as

Mass SpectrometryProteomeProteomicsAnimalsBrain ChemistryChromatography, LiquidMicePeptidesReproducibility of ResultsPeptidesProteome

Identifiers

PMID40736054
PMCPMC12331150

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.