Evidence map›Paper›PMID 27058758›Full record

ArticleOncotarget2016

Medulloblastoma-associated DDX3 variant selectively alters the translational response to stress.

Sekyung Oh, Ryan A Flynn, Stephen N Floor, James Purzner, Lance Martin, Brian T Do, Simone Schubert, Dedeepya Vaka, Sorana Morrissy, Yisu Li and 18 more

Open access · diamondAbstract read
In one paragraph

Article in Oncotarget, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.

0numbers the graph read from it
0cells of the map it votes in
52citing papers in PubMed
4.7field-weighted citation impact, top 5% 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

52 citing papers in PubMed, 82 citations in OpenAlex.

  1. Article
  2. Article
  3. Regulation of RNA-binding proteins by small biomolecules.Nature reviews. Molecular cell biology · 2026
    Review
  4. Article
  5. Article
  6. Article
  7. AnBioengineering & translational medicine · 2025
    Article
  8. Article
  9. Deficiency ofProceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Review
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article
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

28 authors at 7 institutions in 3 countries.

Sekyung OhDepartment of Neurology and Neurological Sciences, Stanford University School of Medicine, Stanford, CA, USA.
Ryan A FlynnProgram in Epithelial Biology, Stanford University School of Medicine, Stanford, CA, USA.
Stephen N FloorDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
James PurznerDepartment of Developmental Biology, Stanford University School of Medicine, Stanford, CA, USA.
Lance MartinDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
Brian T DoDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
Simone SchubertDepartment of Neurology and Neurological Sciences, Stanford University School of Medicine, Stanford, CA, USA.
Dedeepya VakaDepartment of Neurology and Neurological Sciences, Stanford University School of Medicine, Stanford, CA, USA.
Sorana MorrissyDevelopmental and Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Yisu LiCanada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC Canada.
Marcel KoolDivision of Pediatric Neurooncology, German Cancer Research Center (DKFZ), Heidelberg, Germany.
Volker HovestadtDivision of Molecular Genetics, German Cancer Research Center (DKFZ), Heidelberg, Germany.
David T W JonesDivision of Pediatric Neurooncology, German Cancer Research Center (DKFZ), Heidelberg, Germany.
Paul A NorthcottDivision of Pediatric Neurooncology, German Cancer Research Center (DKFZ), Heidelberg, Germany.
Thomas RischDepartment of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Berlin, Germany.
Hans-Jörg WarnatzDepartment of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Berlin, Germany.
Marie-Laure YaspoDepartment of Vertebrate Genomics, Max Planck Institute for Molecular Genetics, Berlin, Germany.
Christopher M AdamsThe Vincent Coates Foundation Mass Spectrometry Laboratory, Stanford University, Stanford, CA, USA.
Ryan D LeibThe Vincent Coates Foundation Mass Spectrometry Laboratory, Stanford University, Stanford, CA, USA.
Marcus BreeseCancer Biology Program, Stanford University School of Medicine, Stanford, CA, USA.
Marco A MarraCanada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC Canada.
David MalkinCancer Genetic Program, The Hospital for Sick Children, Toronto, ON, Canada.
Peter LichterDivision of Molecular Genetics, German Cancer Research Center (DKFZ), Heidelberg, Germany.
Jennifer A DoudnaDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
Stefan M PfisterDivision of Pediatric Neurooncology, German Cancer Research Center (DKFZ), Heidelberg, Germany.
Michael D TaylorDevelopmental and Stem Cell Biology Program, The Hospital for Sick Children, Toronto, ON, Canada.
Howard Y ChangProgram in Epithelial Biology, Stanford University School of Medicine, Stanford, CA, USA.
Yoon-Jae ChoDepartment of Neurology and Neurological Sciences, Stanford University School of Medicine, Stanford, CA, USA.
Stanford University · USGerman Cancer Research Center · DEUniversity of California, Berkeley · USCanada's Michael Smith Genome Sciences Centre · CAMax Planck Institute for Molecular Genetics · DEHeidelberg University · DEHospital for Sick Children · CA

Funding

PROJECT 3P50GM102706 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI CATE, JAMIE H · 2012 to 2016
$9.5M
Genetic network analysis of cancer targetsU01CA176287 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI WEISS, WILLIAM A · 2013 to 2016
$1.2M
NCI NIH HHS U01 CA176287NIGMS NIH HHS P50 GM102706
6 · The paper itself

Abstract

DDX3X encodes a DEAD-box family RNA helicase (DDX3) commonly mutated in medulloblastoma, a highly aggressive cerebellar tumor affecting both children and adults. Despite being implicated in several facets of RNA metabolism, the nature and scope of DDX3's interactions with RNA remain unclear. Here, we show DDX3 collaborates extensively with the translation initiation machinery through direct binding to 5'UTRs of nearly all coding RNAs, specific sites on the 18S rRNA, and multiple components of the translation initiation complex. Impairment of translation initiation is also evident in primary medulloblastomas harboring mutations in DDX3X, further highlighting DDX3's role in this process. Arsenite-induced stress shifts DDX3 binding from the 5'UTR into the coding region of mRNAs concomitant with a general reduction of translation, and both the shift of DDX3 on mRNA and decreased translation are blunted by expression of a catalytically-impaired, medulloblastoma-associated DDX3R534H variant. Furthermore, despite the global repression of translation induced by arsenite, translation is preserved on select genes involved in chromatin organization in DDX3R534H-expressing cells. Thus, DDX3 interacts extensively with RNA and ribosomal machinery to help remodel the translation landscape in response to stress, while cancer-related DDX3 variants adapt this response to selectively preserve translation.

Indexed as

Cerebellar NeoplasmsDEAD-box RNA HelicasesGene Expression Regulation, NeoplasticHEK293 CellsHumansMedulloblastomaProtein BiosynthesisStress, PhysiologicalTranscriptomeDDX3X protein, humanDEAD-box RNA HelicasesCLIP-seqDDX3DDX3XmedulloblastomaRNA helicase

Identifiers

PMID27058758
PMCPMC5053718
OpenAlexW2340787285

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.