Evidence map›Paper›PMID 41478392›Full record

ArticleBone2026

Temporal transcriptomic profiling of bone autograft healing reveals dynamic immune, vascular, and osteogenic programs.

Jared A Mereness, Sayantani Basu, Lauren Benoodt, Danielle S W Benoit

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Bone, 2026. 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

4 authors.

Jared A MerenessDepartment of Biomedical Engineering, University of Rochester, Rochester, NY, 14623, USA; Center for Musculoskeletal Research, University of Rochester Medical Center, Rochester, NY, 14623, USA; Department of Orthopaedics, University of Rochester Medical Center, Rochester, NY, 14623, USA; Department of Dermatology, University of Rochester Medical Center, Rochester, NY, 14623, USA.
Sayantani BasuDepartment of Biomedical Engineering, University of Rochester, Rochester, NY, 14623, USA; Center for Musculoskeletal Research, University of Rochester Medical Center, Rochester, NY, 14623, USA; Department of Orthopaedics, University of Rochester Medical Center, Rochester, NY, 14623, USA.
Lauren BenoodtGenomics Research Center, University of Rochester School of Medicine and Dentistry, Rochester, NY, USA.
Danielle S W BenoitDepartment of Biomedical Engineering, University of Rochester, Rochester, NY, 14623, USA; Center for Musculoskeletal Research, University of Rochester Medical Center, Rochester, NY, 14623, USA; Department of Orthopaedics, University of Rochester Medical Center, Rochester, NY, 14623, USA; Department of Bioengineering, Phil and Penny Knight Campus for Accelerating Scientific Impact, University of Oregon, Eugene, OR, 97403, USA. Electronic address: dbenoit@uoregon.edu.

Funding

Training in Environment ToxicologyT32ES007026 · NIEHS · UNIVERSITY OF ROCHESTER · PI Alison Elder, Marissa Sobolewski Terry · 1985 to 2026
$20.2M
Tissue Engineering Strategies to Revitalize Bone AllograftsR01AR064200 · NIAMS · UNIVERSITY OF ROCHESTER · PI Danielle S. Benoit · 2013 to 2026
$4.0M
Using hiPSCs to develop physiologically-relevant outer retina tissue mimeticsR01EY033192 · NEI · UNIVERSITY OF ROCHESTER · PI BENOIT, DANIELLE S., SINGH, RUCHIRA · 2022 to 2024
$1.7M
hiPSC-derived tissue mimetics of the retina blood barrierR21EY030817 · NEI · UNIVERSITY OF ROCHESTER · PI BENOIT, DANIELLE S., SINGH, RUCHIRA · 2020 to 2021
$417k
NEI NIH HHS R01 EY033192NEI NIH HHS R21 EY030817NIAMS NIH HHS R01 AR064200NIEHS NIH HHS T32 ES007026
6 · The paper itself

Abstract

Bone autograft healing is a highly orchestrated process that integrates immune activation, vascular ingrowth, and osteogenic remodeling. To define the molecular and cellular programs driving early autograft integration, bulk and single-cell RNA sequencing was used to analyze graft-associated tissues over 14 days in a murine periosteal-mediated autograft model. Global transcriptomic analysis revealed rapid and dynamic remodeling, with maximal gene expression changes occurring within the first week. The first 48 h were dominated by pro-inflammatory signaling, including TNF, IL-1, TLR, and MAPK pathways, accompanied by transcriptional signatures of phagocytosis and cellular clearance. These early inflammatory programs gave way to pro-regenerative signals, including activation of HIF-1, PI3K-AKT, Wnt, and BMP pathways, coincident with angiogenesis, osteogenesis, and matrix deposition. By day 14, extracellular matrix production and remodeling predominated, marked by metalloproteinase activity and structural matrix gene enrichment. Single-cell RNA sequencing revealed that donor-derived (eGFP

Indexed as

AutograftsBone and BonesBone TransplantationGene Expression ProfilingOsteogenesisTranscriptomeWound HealingAnimalsMaleMiceMice, Inbred C57BLNeovascularization, PhysiologicSignal TransductionBone autograft healingExtracellular matrix remodelingImmune-vascular-osteogenic crosstalkNeurovascular signalingPeriosteal-mediated repairSingle-cell RNA sequencing

Identifiers

PMID41478392
PMCPMC12815593

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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.