Evidence map›Paper›PMID 41959400›Full record

ArticlebioRxiv : the preprint server for biology2026

Carafe2 enables high quality

Bo Wen, J Sebastian Paez, Chris Hsu, Daniele Canzani, Alexis Chang, Nicholas Shulman, Brendan X MacLean, Matthew D Berg, Judit Villén, William E Fondrie and 3 more

Abstract readPreprint
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

13 authors.

Bo WenDepartment of Genome Sciences, University of Washington.ORCID 0000-0003-2261-3150
J Sebastian PaezTalus Bioscience, Inc. Seattle, WA, USA.ORCID 0000-0002-0065-1474
Chris HsuDepartment of Genome Sciences, University of Washington.ORCID 0000-0002-0846-6126
Daniele CanzaniTalus Bioscience, Inc. Seattle, WA, USA.ORCID 0000-0002-9390-0571
Alexis ChangDepartment of Genome Sciences, University of Washington.ORCID 0000-0002-0822-8136
Nicholas ShulmanDepartment of Genome Sciences, University of Washington.ORCID 0000-0003-1674-0794
Brendan X MacLeanDepartment of Genome Sciences, University of Washington.ORCID 0000-0002-9575-0255
Matthew D BergDepartment of Genome Sciences, University of Washington.ORCID 0000-0002-7924-9241
Judit VillénDepartment of Genome Sciences, University of Washington.ORCID 0000-0002-1005-1739
William E FondrieTalus Bioscience, Inc. Seattle, WA, USA.ORCID 0000-0002-1554-3716
Lindsay K PinoTalus Bioscience, Inc. Seattle, WA, USA.ORCID 0000-0003-1857-7222
Michael J MacCossDepartment of Genome Sciences, University of Washington.ORCID 0000-0003-1853-0256
William S NobleDepartment of Genome Sciences, University of Washington.ORCID 0000-0001-7283-4715

Funding

University of Washington Nathan Shock Center of Excellence in the Basic Biology of AgingP30AG013280 · NIA · UNIVERSITY OF WASHINGTON · PI Maitreya J Dunham · 1995 to 2026
$27.1M
Technology to understand genetic variant effects in contextRM1HG010461 · NHGRI · UNIVERSITY OF WASHINGTON · PI Douglas M Fowler, Bruce Colston Trapnell · 2019 to 2026
$18.9M
Seattle Quant: A Resource for the Skyline Software EcosystemR24GM141156 · NIGMS · UNIVERSITY OF WASHINGTON · PI Michael MacCoss · 2021 to 2026
$6.7M
The role of phosphorylation in the cellular organization of the proteomeR35GM152061 · NIGMS · UNIVERSITY OF WASHINGTON · PI Judit Villen · 2024 to 2026
$1.3M
NHGRI NIH HHS RM1 HG010461NIA NIH HHS P30 AG013280NIGMS NIH HHS R24 GM141156NIGMS NIH HHS R35 GM152061
6 · The paper itself

Abstract

Data-independent acquisition (DIA) proteomics enables reproducible and systematic peptide detection and quantification, and trapped ion mobility spectrometry (TIMS) on the timsTOF platform further improves DIA by synchronizing ion mobility separation with quadrupole precursor sampling. Analyzing the highly multiplexed spectra generated by DIA typically relies on spectral libraries, and fully leveraging the additional ion mobility dimension requires these libraries to include accurate retention time, fragment ion intensity, and ion mobility annotations. Existing

Identifiers

PMID41959400
PMCPMC13060252

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.