Evidence map›Paper›PMID 40570375›Full record

ArticleCell reports2025

Gene-regulatory programs that specify age-related differences during thymocyte development.

Divya Ganapathi Sankaran, Hongya Zhu, Viviana I Maymi, Isabel M Forlastro, Ya Jiang, Nathan Laniewski, Kristin M Scheible, Brian D Rudd, Andrew Grimson

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell reports, 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. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors.

Divya Ganapathi SankaranDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Hongya ZhuDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Viviana I MaymiDepartment of Microbiology and Immunology, Cornell University, Ithaca, NY 14853, USA.
Isabel M ForlastroDepartment of Microbiology and Immunology, Cornell University, Ithaca, NY 14853, USA.
Ya JiangDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Nathan LaniewskiDavid H. Smith Center for Vaccine Biology and Immunology, Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642, USA.
Kristin M ScheibleDavid H. Smith Center for Vaccine Biology and Immunology, Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642, USA.
Brian D RuddDepartment of Microbiology and Immunology, Cornell University, Ithaca, NY 14853, USA.
Andrew GrimsonDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA. Electronic address: agrimson@cornell.edu.

Funding

Small RNA Pathways in Mammalian GametogenesisP50HD076210 · NICHD · CORNELL UNIVERSITY · PI COHEN, PAULA ELAINE · 2014 to 2018
$7.4M
The developmental layers in the CD8+ T cell response to chronic infectionR01AI110613 · NIAID · CORNELL UNIVERSITY · PI GRIMSON, ANDREW W, RUDD, BRIAN DAVID · 2014 to 2022
$4.1M
Mechanisms Limiting Neonatal ImmunityR01AI105265 · NIAID · CORNELL UNIVERSITY · PI RUDD, BRIAN DAVID · 2014 to 2023
$4.0M
A Single Comprehensive Assay for Gene Regulatory Profiling Optimized for Minimal Sample Input RequirementsU24AI152176 · NIAID · CORNELL UNIVERSITY · PI GRIMSON, ANDREW W, SCHEIBLE, KRISTIN · 2020 to 2024
$2.2M
Roles for DevelopmentallyRegulated microRNAs in Neonatal ImmunityU01AI131348 · NIAID · CORNELL UNIVERSITY · PI GRIMSON, ANDREW W, RUDD, BRIAN DAVID · 2017 to 2021
$2.2M
CD8 T Cell Dysregulation in Premature InfantsK08AI108870 · NIAID · UNIVERSITY OF ROCHESTER · PI SCHEIBLE, KRISTIN · 2014 to 2016
$539k
The role of CD163L1 in CD8+ T cellsR21AI167858 · NIAID · CORNELL UNIVERSITY · PI GRIMSON, ANDREW W, RUDD, BRIAN DAVID · 2023 to 2024
$438k
NIAID NIH HHS K08 AI108870NIAID NIH HHS R01 AI105265NIAID NIH HHS R01 AI110613NIAID NIH HHS R21 AI167858NIAID NIH HHS U01 AI131348NIAID NIH HHS U24 AI152176NICHD NIH HHS P50 HD076210
6 · The paper itself

Abstract

T cell development is fundamental to immune system establishment, but how this development changes with age remains poorly understood. Here, we construct a transcriptional and chromatin accessibility atlas of T cell developmental programs in neonatal and adult mice, revealing the ontogeny of divergent gene-regulatory programs and their link to age-related differences. Specifically, we identify a gene module that diverges with age from the earliest stages of genesis and includes programs that govern the effector response and cell cycle. Moreover, we reveal that neonates possess more accessible chromatin during early thymocyte development, likely establishing poised gene expression programs that manifest later in thymocyte development. Finally, we leverage this atlas, employing a CRISPR-based perturbation approach coupled with single-cell RNA sequencing readout, to uncover a conserved transcriptional regulator, Zbtb20, that contributes to age-dependent differences in T cell development. In summary, our study defines gene-regulatory programs that regulate age-specific differences in T cell development.

Indexed as

AgingThymocytesAge FactorsAnimalsCell DifferentiationChromatinGene Expression Regulation, DevelopmentalGene Regulatory NetworksMiceMice, Inbred C57BLTranscription FactorsChromatinTranscription FactorsadultsCD8(+) T cellCP: Immunologydouble negativedouble positiveHSCsimmuneneonatesRNA-seqsingle positiveT cell development

Identifiers

PMID40570375
PMCPMC13309880

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.