Evidence map›Paper›PMID 24463464›Full record

ArticleNature structural & molecular biology2014

Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre.

Ezgi Hacisuleyman, Loyal A Goff, Cole Trapnell, Adam Williams, Jorge Henao-Mejia, Lei Sun, Patrick McClanahan, David G Hendrickson, Martin Sauvageau, David R Kelley and 8 more

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

Article in Nature structural & molecular biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 379 papers.

0numbers the graph read from it
0cells of the map it votes in
379citing papers in PubMed
23.6field-weighted citation impact, top 1% 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

379 citing papers in PubMed, 641 citations in OpenAlex.

  1. Review
  2. Direct roles of long non-coding RNAs in transcription activation.Nature structural & molecular biology · 2026
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319 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 5 institutions in 1 country.

Ezgi Hacisuleyman1] Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts, USA. [2] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA. [3] Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA. [4].
Loyal A Goff1] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA. [2] Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA. [3] Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA. [4].
Cole Trapnell1] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA. [2] Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA.
Adam WilliamsDepartment of Immunobiology, Yale University School of Medicine, New Haven, Connecticut, USA.
Jorge Henao-MejiaDepartment of Immunobiology, Yale University School of Medicine, New Haven, Connecticut, USA.
Lei SunWhitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA.
Patrick McClanahanDepartment of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania, USA.
David G Hendrickson1] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA. [2] Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA.
Martin Sauvageau1] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA. [2] Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA.
David R Kelley1] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA. [2] Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA.
Michael MorseBroad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA.
Jesse EngreitzBroad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA.
Eric S LanderBroad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA.
Mitch GuttmanDepartment of Biology, California Institute of Technology, Pasadena, California, USA.
Harvey F Lodish1] Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA. [2] Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA. [3] Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
Richard Flavell1] Department of Immunobiology, Yale University School of Medicine, New Haven, Connecticut, USA. [2] Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, Connecticut, USA.
Arjun RajDepartment of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania, USA.
John L Rinn1] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts, USA. [2] Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA. [3] Department of Pathology, Beth Israel Deaconess Medical Center, Boston, Massachusetts, USA.
Broad Institute · USUniversity of Pennsylvania · USYale University · USCalifornia Institute of Technology · USWhitehead Institute for Biomedical Research · US

Funding

Regulatory Roles and Dynamics of Nuclear long-noncoding RNAs in PluripotencyP01GM099117 · NIGMS · HARVARD UNIVERSITY · PI MEISSNER, ALEXANDER · 2011 to 2021
$21.2M
Center for Cell CircuitsP50HG006193 · NHGRI · BROAD INSTITUTE, INC. · PI REGEV, AVIV · 2011 to 2015
$15.6M
MicroRNAs and hematopoietic differentiationR01DK068348 · NIDDK · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI LODISH, HARVEY F · 2004 to 2019
$8.3M
Lincs and miRs that regulate brown fat formation and functionR01DK047618 · NIDDK · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI LODISH, HARVEY F · 1994 to 2016
$6.3M
RNA and Chromatin Formation: From Discovery to MechanismDP2OD006670 · OD · HARVARD UNIVERSITY · PI RINN, JOHN LOUIS · 2009 to 2009
$2.5M
A Comprehensive Spatial Picture of Transcription in the NucleusDP2OD008514 · OD · UNIVERSITY OF PENNSYLVANIA · PI RAJ, ARJUN · 2011 to 2011
$2.4M
Howard Hughes Medical InstituteNCCDPHP CDC HHS 1DP20D008514NHGRI NIH HHS P50 HG006193NHGRI NIH HHS P50HG006193-01NIDDK NIH HHS R01 DK047618NIDDK NIH HHS R01 DK068348NIGMS NIH HHS P01 GM099117NIGMS NIH HHS P01GM099117NIH HHS 1DP2OD00667NIH HHS DP2 OD006670NIH HHS DP2 OD008514
6 · The paper itself

Abstract

RNA, including long noncoding RNA (lncRNA), is known to be an abundant and important structural component of the nuclear matrix. However, the molecular identities, functional roles and localization dynamics of lncRNAs that influence nuclear architecture remain poorly understood. Here, we describe one lncRNA, Firre, that interacts with the nuclear-matrix factor hnRNPU through a 156-bp repeating sequence and localizes across an ~5-Mb domain on the X chromosome. We further observed Firre localization across five distinct trans-chromosomal loci, which reside in spatial proximity to the Firre genomic locus on the X chromosome. Both genetic deletion of the Firre locus and knockdown of hnRNPU resulted in loss of colocalization of these trans-chromosomal interacting loci. Thus, our data suggest a model in which lncRNAs such as Firre can interface with and modulate nuclear architecture across chromosomes.

Indexed as

Models, GeneticAnimalsBase SequenceChromatinChromosomesEmbryonic Stem CellsFemaleHumansMaleMiceMolecular Sequence DataRNA, Long NoncodingSequence Analysis, RNAX Chromosome InactivationChromatinlong noncoding RNA Firre, humanRNA, Long Noncoding

Identifiers

PMID24463464
PMCPMC3950333
OpenAlexW2134625814

What OpenQuestion holds

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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.