Evidence map›Paper›PMID 42395363›Full record

ArticlebioRxiv : the preprint server for biology2026

Systematic optimization and benchmarking of synchro-PASEF for high-throughput phosphoproteome profiling.

Dain R Brademan, Angelina A Mullarkey, Mia L Greeson, Sarah Szvetecz, Olga Vitek, Emily E Blythe, Ruth Hüttenhain

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

7 authors.

Dain R BrademanDepartment of Molecular & Cellular Physiology, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0002-0971-9711
Angelina A MullarkeyDepartment of Molecular & Cellular Physiology, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0002-5830-5347
Mia L GreesonDepartment of Molecular & Cellular Physiology, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0002-9439-288X
Sarah SzveteczKhoury College of Computer Sciences, Northeastern University, Boston, MA, USA.ORCID 0000-0002-6773-2594
Olga VitekKhoury College of Computer Sciences, Northeastern University, Boston, MA, USA.ORCID 0000-0003-1728-1104
Emily E BlytheDepartment of Genetics, Cell Biology, and Development, University of Minnesota, Twin Cities, Minneapolis, MN, USA.ORCID 0000-0001-6363-2644
Ruth HüttenhainDepartment of Molecular & Cellular Physiology, Stanford School of Medicine, Stanford, CA, USA.ORCID 0000-0002-0896-5910

Funding

Cellular and Molecular Biology Training ProgramT32GM154663 · NIGMS · STANFORD UNIVERSITY · PI Ashby J. Morrison · 2025 to 2026
$3.2M
Spatiotemporal signaling and trafficking of the mu-opioid receptorR01DA056354 · NIDA · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Ruth Huttenhain · 2022 to 2026
$2.9M
NIDA NIH HHS R01 DA056354NIGMS NIH HHS T32 GM154663
6 · The paper itself

Abstract

High-throughput data-independent acquisition (DIA) workflows paired with short chromatographic separations are increasingly adopted for systems biology and clinical proteomics. However, narrower peak widths from rapid separations demand faster mass spectrometer cycle times to maintain quantitative depth and reproducibility. The synchro-PASEF acquisition mode on timsTOF mass spectrometers diagonally scans across ion mobility and

Indexed as

data-independent acquisition (DIA)dia-PASEFhigh-throughput proteomicsphosphoproteomicsretention time summationsynchro-PASEFtimsTOF

Identifiers

PMID42395363
PMCPMC13320783

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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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.