Evidence map›Paper›PMID 27524623›Full record

ArticleCell reports2016

In Vivo Characterization of Linc-p21 Reveals Functional cis-Regulatory DNA Elements.

Abigail F Groff, Diana B Sanchez-Gomez, Marcela M L Soruco, Chiara Gerhardinger, A Rasim Barutcu, Eric Li, Lara Elcavage, Olivia Plana, Lluvia V Sanchez, James C Lee and 2 more

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

Article in Cell reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers.

0numbers the graph read from it
0cells of the map it votes in
68citing papers in PubMed
5.4field-weighted citation impact, top 4% 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

68 citing papers in PubMed, 133 citations in OpenAlex.

  1. Article
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  7. Therapeutic Inhibition ofCirculation research · 2024
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  10. CRISPRi screens identify the lncRNA,Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  11. Review
  12. Article
  13. Article
  14. Article
  15. Article
  16. Review
  17. Review
  18. Emerging Functions of lncRNA Loci beyond the Transcript Itself.International journal of molecular sciences · 2022
    Review
  19. Evolutionary divergence ofRNA (New York, N.Y.) · 2022
    Article
  20. Article

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

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

12 authors at 3 institutions in 2 countries.

Abigail F GroffDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Diana B Sanchez-GomezDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA.
Marcela M L SorucoDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA.
Chiara GerhardingerDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA.
A Rasim BarutcuDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Eric LiDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA.
Lara ElcavageDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA.
Olivia PlanaDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA.
Lluvia V SanchezDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA.
James C LeeDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; Department of Medicine, University of Cambridge School of Clinical Medicine, Addenbrooke's Hospital, Cambridge CB2 0QQ, UK.
Martin SauvageauDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA.
John L RinnDepartment of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA 02215, USA. Electronic address: john_rinn@harvard.edu.
Harvard University · USBroad Institute · USBeth Israel Deaconess Medical Center · US

Funding

Regulatory Roles and Dynamics of Nuclear long-noncoding RNAs in PluripotencyP01GM099117 · NIGMS · HARVARD UNIVERSITY · PI MEISSNER, ALEXANDER · 2011 to 2021
$21.2M
Training Program in Angiogenesis &InflammationT32HL007893 · NHLBI · BETH ISRAEL DEACONESS MEDICAL CENTER · PI DVORAK, HAROLD FISHER · 1998 to 2017
$5.5M
Functional Roles of Long Noncoding RNAs During Neuronal DevelopmentR01MH102416 · NIMH · HARVARD UNIVERSITY · PI ARLOTTA, PAOLA · 2014 to 2018
$2.1M
NHLBI NIH HHS T32 HL007893NIGMS NIH HHS P01 GM099117NIMH NIH HHS R01 MH102416Wellcome Trust
6 · The paper itself

Abstract

The Linc-p21 locus, encoding a long non-coding RNA, plays an important role in p53 signaling, cell-cycle regulation, and tumor suppression. However, despite extensive study, confusion exists regarding its mechanism of action: is activity driven by the transcript acting in trans, in cis, or by an underlying functional enhancer? Here, using a knockout mouse model and a massively parallel enhancer assay, we delineate the functional elements at this locus. We observe that, even in tissues with no detectable Linc-p21 transcript, deletion of the locus significantly affects local gene expression, including of the cell-cycle regulator Cdkn1a. To characterize this RNA-independent regulatory effect, we systematically interrogated the underlying DNA sequence for enhancer activity at nucleotide resolution and confirmed the existence of multiple enhancer elements. Together, these data suggest that, in vivo, the cis-regulatory effects mediated by Linc-p21, in the presence or absence of transcription, are due to DNA enhancer elements.

Indexed as

Base SequenceEnhancer Elements, GeneticSequence DeletionAnimalsCell LineCyclin-Dependent Kinase Inhibitor p21Gene Expression RegulationGenetic LociHigh-Throughput Nucleotide SequencingHigh-Throughput Screening AssaysMiceMice, KnockoutMyoblastsPromoter Regions, GeneticRNA, Long NoncodingSignal TransductionCdkn1a protein, mouseCyclin-Dependent Kinase Inhibitor p21RNA, Long NoncodingTumor Suppressor Protein p53

Identifiers

PMID27524623
PMCPMC5014909
OpenAlexW2514110482

What OpenQuestion holds

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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.