Evidence map›Paper›PMID 41659560›Full record

ArticlebioRxiv : the preprint server for biology2025

MS/MS Mass Spectrometry Filtering Tree for Bile Acid Isomer Annotation.

Ipsita Mohanty, Shipei Xing, Vanessa Castillo, Julius Agongo, Abubaker Patan, Yasin El Abiead, Helena Mannochio-Russo, Simone Zuffa, Jasmine Zemlin, Alexandre Tronel and 16 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 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. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

26 authors.

Ipsita MohantySkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0001-5311-6443
Shipei XingSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0001-6227-6959
Vanessa CastilloSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0002-4182-8846
Julius AgongoSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.
Abubaker PatanSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0003-1415-7829
Yasin El AbieadSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0003-4392-7706
Helena Mannochio-RussoSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0002-4961-2353
Simone ZuffaSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0001-7237-3402
Jasmine ZemlinSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.ORCID 0000-0003-0713-9956
Alexandre TronelPelican Health, 107 rue Aristide Briand, 38600, Fontaine, France.ORCID 0009-0009-8989-8796
Audrey Le GouellecUniv. Grenoble Alpes, CNRS, UMR 5525, VetAgro Sup, Grenoble INP, CHU Grenoble Alpes, TIMC, 38000 Grenoble, France.ORCID 0000-0002-4905-3854
Thomas SoranzoPelican Health, 107 rue Aristide Briand, 38600, Fontaine, France.ORCID 0009-0004-2452-4471
Crystal X WangDepartment of Psychiatry, University of California San Diego, San Diego, CA 92093, USA.
Jennifer E IudicelloDepartment of Psychiatry, University of California San Diego, San Diego, CA 92093, USA.ORCID 0000-0003-2854-7684
Mohammadsobhan S AndalibiDepartment of Psychiatry, University of California San Diego, San Diego, CA 92093, USA.ORCID 0000-0002-4895-1214
Ronald J EllisHIV Neurobehavioral Research Program, University of California San Diego, San Diego, CA 92093, USA.
David J MooreDepartment of Psychiatry, University of California San Diego, San Diego, CA 92093, USA.ORCID 0000-0001-9699-318X
Donald R FranklinDepartment of Psychiatry, University of California San Diego, San Diego, CA 92093, USA.
Marta Sala-ClimentDepartment of Medicine, University of California, San Diego, San Diego, CA.ORCID 0000-0003-4583-4562
Monica GumaDepartment of Medicine, University of California, San Diego, San Diego, CA.ORCID 0000-0003-1951-9411
Robin M VoigtDepartment of Internal Medicine, Rush University Medical Center, Chicago, IL, USA.
Rima Kaddaruh-DauokDepartment of Psychiatry and Behavioral Sciences, Duke University, Durham, NC, USA.
Dionicio SiegelSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.
Mingxun WangDepartment of Computer Science and Engineering, University of California Riverside, Riverside, CA, USA.ORCID 0000-0001-7647-6097
Lee R HageyDepartment of Medicine, University of California, San Diego, San Diego, CA.
Pieter C DorresteinSkaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA.

Funding

Project 4 - Mechanistic studies on the role of the gut microbiome in models for Alzheimer's diseaseU19AG063744 · NIA · UNIVERSITY OF TEXAS HLTH SCI CTR HOUSTON · PI Rima F Kaddurah-Daouk · 2019 to 2026
$54.1M
STRUCTURAL NEUROIMAGING COREP30MH062512 · NIMH · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Jessica Lynette Montoya · 2001 to 2026
$50.4M
Microbiota-Brain Axis in Alzheimer's Disease: MIND Diet-Induced EffectsR01AG056653 · NIA · RUSH UNIVERSITY MEDICAL CENTER · PI VOIGT-ZUWALA, ROBIN M · 2018 to 2022
$3.2M
Reverse Metabolomics for the Discovery of Disease Associated Microbial MoleculesR01DK136117 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PIETER C DORRESTEIN · 2023 to 2026
$2.9M
NIA NIH HHS R01 AG056653NIA NIH HHS U19 AG063744NIDDK NIH HHS R01 DK136117NIMH NIH HHS P30 MH062512
6 · The paper itself

Abstract

Bile acids are essential steroids regulating immunity, nutrient absorption, insulin, appetite, and body temperature. Their structural diversity is vast, but due to spectral similarities, MS/MS spectral matching often fails to resolve isomers. This study introduces a proof-of-concept workflow using a mass spectrometry query language filtering tree that distinguishes isomeric bile acids in untargeted LC-MS/MS data. Its application revealed a deoxycholyl-2-aminophenol amidate linked to whole grain consumption.

Identifiers

PMID41659560
PMCPMC12874289

What OpenQuestion holds

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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.