Evidence map›Paper›PMID 36658732›Full record

ArticleAdvanced biology2023

DNA Methylation Dynamics During Esophageal Epithelial Regeneration Following Repair with Acellular Silk Fibroin Grafts in Rat.

Lauren A Urban, Jiachun Li, Gokhan Gundogdu, Annie Trinh, Hanjuan Shao, Travis Nguyen, Joshua R Mauney, Timothy L Downing

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Advanced biology, 2023. 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, top 99% of its field
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, 0 citations in OpenAlex.

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

8 authors at 1 institution in 1 country.

Lauren A UrbanDepartment of Microbiology & Molecular Genetics, University of California Irvine, Irvine, CA, 92697, USA.
Jiachun LiUCI Edwards Lifesciences Foundation Cardiovascular Innovation and Research Center (CIRC), University of California-Irvine, Irvine, CA, 92697, USA.
Gokhan GundogduDepartment of Urology, University of California, Orange, Irvine, CA, 92868, USA.
Annie TrinhDepartment of Microbiology & Molecular Genetics, University of California Irvine, Irvine, CA, 92697, USA.
Hanjuan ShaoUCI Edwards Lifesciences Foundation Cardiovascular Innovation and Research Center (CIRC), University of California-Irvine, Irvine, CA, 92697, USA.
Travis NguyenDepartment of Biomedical Engineering, University of California, Irvine, Irvine, CA, 92697, USA.
Joshua R MauneyDepartment of Biomedical Engineering, University of California, Irvine, Irvine, CA, 92697, USA.
Timothy L DowningDepartment of Microbiology & Molecular Genetics, University of California Irvine, Irvine, CA, 92697, USA.ORCID 0000-0002-5197-3684
University of California, Irvine · US

Funding

Spatial epigenomics: A new framework for overcoming mechanical heterogeneity in solid tumorsDP2CA250382 · NCI · UNIVERSITY OF CALIFORNIA-IRVINE · PI DOWNING, TIMOTHY LAMONT · 2019 to 2019
$2.4M
Development of Silk Fibroin Grafts for Reconstruction of Esophageal DefectsR01DK107568 · NIDDK · UNIVERSITY OF CALIFORNIA-IRVINE · PI ESTRADA, CARLOS R, MAUNEY, JOSHUA ROBERT · 2016 to 2020
$1.9M
Partial Bladder Outlet Obstruction: Mechanisms of Injury and Novel Repair StrategiesR01DK119240 · NIDDK · UNIVERSITY OF CALIFORNIA-IRVINE · PI ESTRADA, CARLOS R, MAUNEY, JOSHUA ROBERT · 2019 to 2023
$1.6M
Epigenetic regulation of macrophage response to biomaterial implantsR21EB027840 · NIBIB · UNIVERSITY OF CALIFORNIA-IRVINE · PI DOWNING, TIMOTHY LAMONT, LIU, WENDY · 2019 to 2020
$398k
NCI NIH HHS DP2 CA250382NIBIB NIH HHS R21 EB027840NIDDK NIH HHS R01 DK107568NIDDK NIH HHS R01 DK119240
6 · The paper itself

Abstract

Esophageal pathologies such as atresia and benign strictures often require surgical reconstruction with autologous tissues to restore organ continuity. Complications such as donor site morbidity and limited tissue availability have spurred the development of acellular grafts for esophageal tissue replacement. Acellular biomaterials for esophageal repair rely on the activation of intrinsic regenerative mechanisms to mediate de novo tissue formation at implantation sites. Previous research has identified signaling cascades involved in neoepithelial formation in a rat model of onlay esophagoplasty with acellular silk fibroin grafts, including phosphoinositide 3-kinase (PI3K), and protein kinase B (Akt) signaling. However, it is currently unknown how these mechanisms are governed by DNA methylation (DNAme) during esophageal wound healing processes. Reduced-representation bisulfite sequencing is performed to characterize temporal DNAme dynamics in host and regenerated tissues up to 1 week postimplantation. Overall, global hypermethylation is observed at postreconstruction timepoints and an inverse correlation between promoter DNAme and the expression levels of differentially expressed proteins during regeneration. Site-specific hypomethylation targets genes associated with immune activation, while hypermethylation occurs within gene bodies encoding PI3K-Akt signaling components during the tissue remodeling period. The data provide insight into the epigenetic mechanisms during esophageal regeneration following surgical repair with acellular grafts.

Indexed as

FibroinsAnimalsDNA MethylationPhosphatidylinositol 3-KinasesProto-Oncogene Proteins c-aktRatsRegenerationTissue ScaffoldsFibroinsPhosphatidylinositol 3-KinasesProto-Oncogene Proteins c-aktacellular graftsDNA methylationepigeneticsesophagustissue regeneration

Identifiers

PMID36658732
PMCPMC10401397
OpenAlexW4317512769

What OpenQuestion holds

Textmetadata
LicenceTDM
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.