Evidence map›Paper›PMID 33823140›Full record

ArticleMolecular cell2021

p53 mediates target gene association with nuclear speckles for amplified RNA expression.

Katherine A Alexander, Allison Coté, Son C Nguyen, Liguo Zhang, Omid Gholamalamdari, Paula Agudelo-Garcia, Enrique Lin-Shiao, K M A Tanim, Joan Lim, Nicolas Biddle and 8 more

Open access · bronzeAbstract read
In one paragraph

Article in Molecular cell, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 67 papers.

0numbers the graph read from it
0cells of the map it votes in
67citing papers in PubMed
6.2field-weighted citation impact, top 2% 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

67 citing papers in PubMed, 113 citations in OpenAlex.

  1. Article
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  9. Direct roles of long non-coding RNAs in transcription activation.Nature structural & molecular biology · 2026
    Review
  10. Article
  11. Review
  12. Nuclear speckles are regulatory hubs for viral and host mRNA expression during HSV-1 infection.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  13. Review
  14. Article
  15. Article
  16. Review
  17. Review
  18. Review
  19. The multifunctional proline-rich domain of p53 tumor suppressor.Biochimica et biophysica acta. Reviews on cancer · 2025
    Review
  20. Biomolecular condensates in immune cell fate.Nature reviews. Immunology · 2025
    Review

7 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

18 authors at 2 institutions in 1 country.

Katherine A AlexanderPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, Philadelphia, PA 19104, USA.
Allison CotéDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
Son C NguyenDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Liguo ZhangDepartment of Cell and Developmental Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
Omid GholamalamdariDepartment of Cell and Developmental Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
Paula Agudelo-GarciaPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, Philadelphia, PA 19104, USA.
Enrique Lin-ShiaoPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Biochemistry, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
K M A TanimPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, Philadelphia, PA 19104, USA.
Joan LimPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, Philadelphia, PA 19104, USA.
Nicolas BiddlePenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Biology, School of Arts and Sciences, University of Pennsylvania, Philadelphia, PA 19104, USA.
Margaret C DunaginDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
Charly R GoodPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, Philadelphia, PA 19104, USA.
Mariel R MendozaPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Biochemistry, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Shawn C LittleDepartment of Cell and Developmental Biology, Perelman School of Medicine, Philadelphia, PA 19104, USA.
Andrew BelmontDepartment of Cell and Developmental Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
Eric F JoycePenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Arjun RajPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Shelley L BergerPenn Epigenetics Institute, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Cell and Developmental Biology, Perelman School of Medicine, Philadelphia, PA 19104, USA; Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Department of Biology, School of Arts and Sciences, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address: bergers@pennmedicine.upenn.edu.
University of Pennsylvania · USUniversity of Illinois Urbana-Champaign · US

Funding

Mapping Technology DevelopmentU54DK107965 · NIDDK · UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN · PI BELMONT, ANDREW STEVEN · 2015 to 2019
$8.6M
CHROMATIN DOMAIN STRUCTURE/FUNCTIONR01GM058460 · NIGMS · UNIVERSITY OF ILLINOIS URBANA-CHAMPAIGN · PI BELMONT, ANDREW STEVEN · 1999 to 2025
$8.0M
Role of PCAF/GCN5 Acetylation on p53 TransactivationR01CA078831 · NCI · WISTAR INSTITUTE · PI BERGER, SHELLEY L · 1999 to 2022
$7.8M
Engineering and Imaging 3D genome structure-function dynamics across time scalesU01DK127405 · NIDDK · UNIVERSITY OF PENNSYLVANIA · PI BLOBEL, GERD A, PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2020 to 2024
$5.7M
Regulation of chromatin folding in space and timeR35GM128903 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI Eric F. Joyce · 2018 to 2026
$4.2M
Engineering and visualizing genome folding at high spatiotemporal resolutionU01HL129998 · NHLBI · UNIVERSITY OF PENNSYLVANIA · PI BLOBEL, GERD A, PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2015 to 2019
$4.2M
Modulation of wild type and mutant p53 by HMGA1F32CA221010 · NCI · UNIVERSITY OF PENNSYLVANIA · PI ALEXANDER, KATHERINE ANN · 2018 to 2020
$188k
Novel Roles of p53 Post Translational Modifications in CancerF32CA232466 · NCI · UNIVERSITY OF PENNSYLVANIA · PI GOOD, CHARLY RYAN · 2019 to 2019
$53k
NCI NIH HHS F32 CA221010NCI NIH HHS F32 CA232466NCI NIH HHS R01 CA078831NHLBI NIH HHS U01 HL129998NIDDK NIH HHS U01 DK127405NIDDK NIH HHS U54 DK107965NIGMS NIH HHS R01 GM058460NIGMS NIH HHS R35 GM128903
6 · The paper itself

Abstract

Nuclear speckles are prominent nuclear bodies that contain proteins and RNA involved in gene expression. Although links between nuclear speckles and gene activation are emerging, the mechanisms regulating association of genes with speckles are unclear. We find that speckle association of p53 target genes is driven by the p53 transcription factor. Focusing on p21, a key p53 target, we demonstrate that speckle association boosts expression by elevating nascent RNA amounts. p53-regulated speckle association did not depend on p53 transactivation functions but required an intact proline-rich domain and direct DNA binding, providing mechanisms within p53 for regulating gene-speckle association. Beyond p21, a substantial subset of p53 targets have p53-regulated speckle association. Strikingly, speckle-associating p53 targets are more robustly activated and occupy a distinct niche of p53 biology compared with non-speckle-associating p53 targets. Together, our findings illuminate regulated speckle association as a mechanism used by a transcription factor to boost gene expression.

Indexed as

Cell NucleusDNAGene Expression RegulationHEK293 CellsHumansIntranuclear Inclusion BodiesNuclear ProteinsProtein BindingRNATranscriptional ActivationTranscription FactorsTranscription, GeneticTumor Suppressor Protein p53DNANuclear ProteinsRNATP53 protein, humanTranscription FactorsTumor Suppressor Protein p53chromosome architecturegene activationnuclear positioningnuclear specklesp21p53phase-separated nuclear bodiestranscriptiontranscription factor

Identifiers

PMID33823140
PMCPMC8830378
OpenAlexW3148301852

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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.