Evidence map›Paper›PMID 18772437›Full record

ArticleScience (New York, N.Y.)2008

Human-specific gain of function in a developmental enhancer.

Shyam Prabhakar, Axel Visel, Jennifer A Akiyama, Malak Shoukry, Keith D Lewis, Amy Holt, Ingrid Plajzer-Frick, Harris Morrison, David R Fitzpatrick, Veena Afzal and 3 more

Open access · greenAbstract read
In one paragraph

Article in Science (New York, N.Y.), 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 197 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
197citing papers in PubMed, 1 pooled it
10.6field-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

197 citing papers in PubMed, 1 synthesis or guideline pooled it, 385 citations in OpenAlex.

  1. Contrasts between adaptive coding and noncoding changes during human evolution.Proceedings of the National Academy of Sciences of the United States of America · 2010
    Pooled it
  2. Article
  3. Article
  4. Review
  5. Genomic-microbial coevolution in human development: chromosome 2 fusion, and human accelerated regions.Mammalian genome : official journal of the International Mammalian Genome Society · 2026
    Review
  6. Article
  7. Review
  8. Article
  9. Article
  10. Article
  11. Review
  12. Article
  13. Article
  14. Article
  15. Article
  16. Review
  17. Reconstructing human-specific regulatory functions in model systems.Current opinion in genetics & development · 2024
    Review
  18. Article
  19. Article
  20. Article

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors at 3 institutions in 2 countries.

Shyam PrabhakarGenomics Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Axel Visel
Jennifer A Akiyama
Malak Shoukry
Keith D Lewis
Amy Holt
Ingrid Plajzer-Frick
Harris Morrison
David R Fitzpatrick
Veena Afzal
Len A Pennacchio
Edward M Rubin
James P Noonan
Lawrence Berkeley National Laboratory · USWestern General Hospital · GBUnited States Department of Energy · US

Funding

Generation of an In Vivo Human Genome Transcriptional Enhancer DatasetR01HG003988 · NHGRI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI Len Alexander Pennacchio · 2006 to 2026
$24.1M
Comparative Genomic Resources for CV ResearchU01HL066681 · NHLBI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI RUBIN, EDWARD M · 2000 to 2007
$14.1M
Recovery and Analysis of Ancient Nuclear DNAF32GM074367 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI NOONAN, JAMES P. · 2005 to 2006
$93k
Medical Research Council MC_U127561093NHGRI NIH HHS HG003988NHGRI NIH HHS R01 HG003988NHLBI NIH HHS HL066681NHLBI NIH HHS U01 HL066681NIGMS NIH HHS 1-F32-GM074367NIGMS NIH HHS F32 GM074367
6 · The paper itself

Abstract

Changes in gene regulation are thought to have contributed to the evolution of human development. However, in vivo evidence for uniquely human developmental regulatory function has remained elusive. In transgenic mice, a conserved noncoding sequence (HACNS1) that evolved extremely rapidly in humans acted as an enhancer of gene expression that has gained a strong limb expression domain relative to the orthologous elements from chimpanzee and rhesus macaque. This gain of function was consistent across two developmental stages in the mouse and included the presumptive anterior wrist and proximal thumb. In vivo analyses with synthetic enhancers, in which human-specific substitutions were introduced into the chimpanzee enhancer sequence or reverted in the human enhancer to the ancestral state, indicated that 13 substitutions clustered in an 81-base pair module otherwise highly constrained among terrestrial vertebrates were sufficient to confer the human-specific limb expression domain.

Indexed as

Enhancer Elements, GeneticGene Expression Regulation, DevelopmentalAnimalsBase SequenceBinding SitesBody PatterningConserved SequenceEmbryonic DevelopmentEvolution, MolecularExtremitiesGene Expression ProfilingHumansLimb BudsMacaca mulattaMiceMice, TransgenicPAX9 Transcription FactorTranscription Factors

Identifiers

PMID18772437
PMCPMC2658639
OpenAlexW2105896832

What OpenQuestion holds

Textmetadata
LicenceTDM
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.