Evidence map›Paper›PMID 39547519›Full record

ArticleBiochimica et biophysica acta. Molecular basis of disease2025

Integrated multiomic analysis identifies TRIP13 as a mediator of alveolar epithelial type II cell dysfunction in idiopathic pulmonary fibrosis.

Laurence St Pierre, Asres Berhan, Eun K Sung, Juan R Alvarez, Hongjun Wang, Yanbin Ji, Yixin Liu, Haoze Yu, Angela Meier, Kamyar Afshar and 9 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Biochimica et biophysica acta. Molecular basis of disease, 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. Review
  2. Review
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

19 authors.

Laurence St PierreDepartment of Surgery, University of Southern California, Los Angeles, CA 90089, USA; Department of Biochemistry and Molecular Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Asres BerhanDepartment of Medicine, University of California San Diego, CA 92037, USA.
Eun K SungDepartment of Translational Genomics, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; Department of Integrative Translational Sciences, Beckman Research Institute, City of Hope, Duarte, CA 91010, USA.
Juan R AlvarezDepartment of Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; Hastings Center for Pulmonary Research, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Hongjun WangDepartment of Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; Hastings Center for Pulmonary Research, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Yanbin JiDepartment of Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; Hastings Center for Pulmonary Research, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Yixin LiuDepartment of Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; Hastings Center for Pulmonary Research, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Haoze YuDepartment of Stem Cell Biology and Regenerative Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Angela MeierDepartment of Anesthesiology, University of California, San Diego, La Jolla, CA 92037, USA.
Kamyar AfsharDepartment of Medicine, University of California San Diego, CA 92037, USA.
Eugene M GoltsDepartment of Surgery, University of California, San Diego, La Jolla, CA 92037, USA.
Grace Y LinDepartment of Pathology, University of California, San Diego, La Jolla, CA 92037, USA.
Alessandra CastaldiDepartment of Medicine, University of California San Diego, CA 92037, USA.
Ben A CalvertDepartment of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, IA 52242, USA.
Amy RyanDepartment of Anatomy and Cell Biology, Carver College of Medicine, University of Iowa, Iowa City, IA 52242, USA.
Beiyun ZhouDepartment of Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; Hastings Center for Pulmonary Research, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; USC Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA.
Ite A OffringaDepartment of Surgery, University of Southern California, Los Angeles, CA 90089, USA; Department of Biochemistry and Molecular Medicine, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; USC Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA. Electronic address: offringa@usc.edu.
Crystal N MarconettDepartment of Surgery, University of Southern California, Los Angeles, CA 90089, USA; Department of Translational Genomics, Keck School of Medicine, University of Southern California, Los Angeles, CA 90089, USA; Department of Integrative Translational Sciences, Beckman Research Institute, City of Hope, Duarte, CA 91010, USA. Electronic address: cmarconett@coh.org.
Zea BorokDepartment of Medicine, University of California San Diego, CA 92037, USA. Electronic address: zborok@health.ucsd.edu.

Funding

USC/NORRIS COMPREHENSIVE CANCER CENTER (CORE) SUPPORTP30CA014089 · NCI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Fumito Ito · 1985 to 2026
$181.4M
Beyond the Barrier: Alveolar Epithelial Cell Biology in Health and DiseaseR35HL135747 · NHLBI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI BOROK, ZEA · 2017 to 2023
$6.8M
Role of Chaperone GRP78 and Mitochondrial Dysfunction in ER Stress-Mediated Pulmonary FibrosisR01HL114959 · NHLBI · UNIVERSITY OF SOUTHERN CALIFORNIA · PI ANN, DAVID K., ZHOU, BEIYUN · 2013 to 2025
$4.2M
NCI NIH HHS P30 CA014089NHLBI NIH HHS R01 HL114959NHLBI NIH HHS R35 HL135747
6 · The paper itself

Abstract

Idiopathic pulmonary fibrosis (IPF) is a lethal progressive lung disease urgently needing new therapies. Current treatments only delay disease progression, leaving lung transplant as the sole remaining option. Recent studies support a model whereby IPF arises because alveolar epithelial type II (AT2) cells, which normally mediate distal lung regeneration, acquire airway and/or mesenchymal characteristics, preventing proper repair. Mechanisms driving this abnormal differentiation remain unclear. We performed integrated transcriptomic and epigenomic analysis of purified AT2 cells which revealed genome-wide alterations in IPF lungs. The most prominent epigenetic alteration was activation of an enhancer in thyroid receptor interactor 13 (TRIP13), although TRIP13 was not the most significantly transcriptionally upregulated gene. TRIP13 is broadly implicated in epithelial-mesenchymal plasticity. In cultured human AT2 cells and lung slices, small molecule TRIP13 inhibitor DCZ0415 prevented acquisition of the mesenchymal gene signature characteristic of IPF, suggesting TRIP13 inhibition as a potential therapeutic approach to fibrotic disease.

Indexed as

Alveolar Epithelial CellsATPases Associated with Diverse Cellular ActivitiesCell Cycle ProteinsIdiopathic Pulmonary FibrosisAnimalsEpigenesis, GeneticEpithelial-Mesenchymal TransitionHumansMiceTranscriptomeATPases Associated with Diverse Cellular ActivitiesCell Cycle ProteinsTRIP13 protein, humanATAC-seqEpigenomic analysisEpithelial-mesenchymal plasticityIdiopathic pulmonary fibrosis (IPF)RNA-seqTRIP13

Identifiers

PMID39547519
PMCPMC11951472

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Registered trials

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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.