Evidence map›Paper›PMID 25124674›Full record

RevieweLife2014

Considerations when investigating lncRNA function in vivo.

Andrew R Bassett, Asifa Akhtar, Denise P Barlow, Adrian P Bird, Neil Brockdorff, Denis Duboule, Anne Ephrussi, Anne C Ferguson-Smith, Thomas R Gingeras, Wilfried Haerty and 3 more

Open access · goldAbstract readReview
In one paragraph

Review in eLife, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 204 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
204citing papers in PubMed, 1 pooled it
14.3field-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

204 citing papers in PubMed, 1 synthesis or guideline pooled it, 357 citations in OpenAlex.

  1. Pooled it
  2. Article
  3. Review
  4. Review
  5. Article
  6. Emerging Roles of Long Non-Coding RNAs in Cardiovascular Diseases.Journal of cellular and molecular medicine · 2025
    Review
  7. Review
  8. Review
  9. Article
  10. Article
  11. Article
  12. Article
  13. Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Sex-specific role for the long noncoding RNAbioRxiv : the preprint server for biology · 2023
    Article
  19. Article
  20. An enhancer RNA recruits MLL1 to regulate transcription ofbioRxiv : the preprint server for biology · 2023
    Article

144 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

13 authors at 10 institutions in 5 countries.

Andrew R BassettAndrew R Bassett is in the MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, United Kingdom. andrew.bassett@path.ox.ac.uk.
Asifa AkhtarAsifa Akhtar is in the Department of Chromatin Regulation, Max-Planck-Institut für Immunbiologie und Epigenetik, Freiburg im Breisgau, Germany.
Denise P BarlowDenise P Barlow is in the CeMM, Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria.
Adrian P BirdAdrian P Bird is in the Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh, United Kingdom.
Neil BrockdorffNeil Brockdorff is in the Department of Biochemistry, University of Oxford, Oxford, United Kingdom.
Denis DubouleDenis Duboule is in the School of Life Sciences, Ecole Polytechnique Fédérale Lausanne, Lausanne, Switzerland; Department of Genetics and Evolution, Université de Genève, Geneva, Switzerland.
Anne EphrussiAnne Ephrussi is in the Developmental Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.ORCID http://orcid.org/0000-0002-5061-4620
Anne C Ferguson-SmithAnne C Ferguson-Smith is in the Department of Genetics, University of Cambridge, Cambridge, United Kingdom.
Thomas R GingerasThomas R Gingeras is in the Functional Genomics Group, Cold Spring Harbor Laboratory, Cold Spring Harbor, United States.
Wilfried HaertyWilfried Haerty is in the MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, United Kingdom.
Douglas R HiggsDouglas R Higgs is in the MRC Molecular Haematology Unit, Weatherall Institute of Molecular Medicine, Oxford, United Kingdom.
Eric A MiskaEric A Miska is in the Wellcome Trust Cancer Research UK Gurdon Institute, University of Cambridge, Cambridge, United Kingdom; Department of Genetics, University of Cambridge, Cambridge, United Kingdom.
Chris P PontingChris P Ponting is in the MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford, United Kingdom; Wellcome Trust Sanger Institute, Cambridge, United Kingdom chris.ponting@dpag.ox.ac.uk.ORCID http://orcid.org/0000-0003-0202-7816
University of Oxford · GBAustrian Academy of Sciences · ATCold Spring Harbor Laboratory · USÉcole Polytechnique Fédérale de Lausanne · CHEuropean Molecular Biology Laboratory · DEMax Planck Institute of Immunobiology and Epigenetics · DEMRC Weatherall Institute of Molecular Medicine · GBThe Gurdon Institute · GBUniversity of Cambridge · GBWellcome Centre for Cell Biology · GB

Funding

Single-Cell Biology Shared ResourceP30CA045508 · NCI · COLD SPRING HARBOR LABORATORY · PI John Edward Moses · 1987 to 2026
$118.9M
Landscape of transcription in human and mouseU54HG007004 · NHGRI · COLD SPRING HARBOR LABORATORY · PI GINGERAS, THOMAS RAYMOND · 2012 to 2017
$10.6M
Cancer Research UK 11832European Research Council 249869Medical Research Council G1000801Medical Research Council G1000801BMedical Research Council MC_U137761446Medical Research Council MC_UU_12009/4Medical Research Council MC_UU_12021/1NCI NIH HHS P30 CA045508NHGRI NIH HHS U54 HG007004NHGRI NIH HHS U54 HG007004-2.Wellcome Trust 092076Wellcome Trust 095606Wellcome Trust 103768
6 · The paper itself

Abstract

Although a small number of the vast array of animal long non-coding RNAs (lncRNAs) have known effects on cellular processes examined in vitro, the extent of their contributions to normal cell processes throughout development, differentiation and disease for the most part remains less clear. Phenotypes arising from deletion of an entire genomic locus cannot be unequivocally attributed either to the loss of the lncRNA per se or to the associated loss of other overlapping DNA regulatory elements. The distinction between cis- or trans-effects is also often problematic. We discuss the advantages and challenges associated with the current techniques for studying the in vivo function of lncRNAs in the light of different models of lncRNA molecular mechanism, and reflect on the design of experiments to mutate lncRNA loci. These considerations should assist in the further investigation of these transcriptional products of the genome.

Indexed as

GenomeRegulatory Elements, TranscriptionalTranscription, GeneticAnimalsDrosophila melanogasterGenetic LociGenotypeHumansMiceMutationPhenotypeRatsRNA, Long NoncodingRNA, Long Noncodingbrain developmentdevelopmental defectknockout mouse modelslethalitylong non-coding RNAsScience forum

Identifiers

PMID25124674
PMCPMC4132285
OpenAlexW2056419701

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.