Evidence map›Paper›PMID 22039435›Full record

ArticlePloS one2011

Cell-type independent MYC target genes reveal a primordial signature involved in biomass accumulation.

Hongkai Ji, George Wu, Xiangcan Zhan, Alexandra Nolan, Cheryl Koh, Angelo De Marzo, Hoang Mai Doan, Jinshui Fan, Christopher Cheadle, Mohammad Fallahi and 3 more

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 113 papers.

0numbers the graph read from it
0cells of the map it votes in
113citing papers in PubMed
6.3field-weighted citation impact, top 3% 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

113 citing papers in PubMed, 170 citations in OpenAlex.

  1. Article
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  12. Epigenetic Control of Translation Checkpoint and Tumor Progression via RUVBL1-EEF1A1 Axis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023
    Article
  13. MYC-driven synthesis of Siglec ligands is a glycoimmune checkpoint.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  14. MYC: a complex problem.Trends in cell biology · 2023
    Review
  15. Ribosome biogenesis in disease: new players and therapeutic targets.Signal transduction and targeted therapy · 2023
    Review
  16. MYC function and regulation in physiological perspective.Frontiers in cell and developmental biology · 2023
    Review
  17. Review
  18. Review
  19. Article
  20. Article

53 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 4 institutions in 1 country.

Hongkai JiDepartment of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, United States of America. hji@jhsph.edu
George Wu
Xiangcan Zhan
Alexandra Nolan
Cheryl Koh
Angelo De Marzo
Hoang Mai Doan
Jinshui Fan
Christopher Cheadle
Mohammad Fallahi
John L Cleveland
Chi V Dang
Karen I Zeller
Johns Hopkins University · USJohns Hopkins Medicine · USScripps Research Institute · USUniversity of Pennsylvania · US

Funding

C-MYC TARGETS IN THE PATHOGENESIS OF HUMAN CANCERSR01CA057341 · NCI · WISTAR INSTITUTE · PI DANG, CHI V. · 1992 to 2021
$8.3M
Overcoming bias and unwanted variability in next generation sequencingR01HG005220 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI IRIZARRY, RAFAEL ANGEL · 2010 to 2018
$3.6M
The Bcl-2/Bcl-X Pathway in Myc-Induced LymphomagenesisR01CA076379 · NCI · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI CLEVELAND, JOHN L. · 1998 to 2012
$3.5M
Myc Role in Hematopoiesis, Vasculogenesis &AgiogenesisR01DK044158 · NIDDK · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI CLEVELAND, JOHN L. · 1991 to 2009
$2.8M
NCI NIH HHS CA076379NCI NIH HHS R01 CA057341NCI NIH HHS R01 CA076379NCI NIH HHS R01CA57341NHGRI NIH HHS R01 HG005220NHGRI NIH HHS R01HG005220NIDDK NIH HHS DK44158NIDDK NIH HHS R01 DK044158
6 · The paper itself

Abstract

The functions of key oncogenic transcription factors independent of context have not been fully delineated despite our richer understanding of the genetic alterations in human cancers. The MYC oncogene, which produces the Myc transcription factor, is frequently altered in human cancer and is a major regulatory hub for many cancers. In this regard, we sought to unravel the primordial signature of Myc function by using high-throughput genomic approaches to identify the cell-type independent core Myc target gene signature. Using a model of human B lymphoma cells bearing inducible MYC, we identified a stringent set of direct Myc target genes via chromatin immunoprecipitation (ChIP), global nuclear run-on assay, and changes in mRNA levels. We also identified direct Myc targets in human embryonic stem cells (ESCs). We further document that a Myc core signature (MCS) set of target genes is shared in mouse and human ESCs as well as in four other human cancer cell types. Remarkably, the expression of the MCS correlates with MYC expression in a cell-type independent manner across 8,129 microarray samples, which include 312 cell and tissue types. Furthermore, the expression of the MCS is elevated in vivo in Eμ-Myc transgenic murine lymphoma cells as compared with premalignant or normal B lymphocytes. Expression of the MCS in human B cell lymphomas, acute leukemia, lung cancers or Ewing sarcomas has the highest correlation with MYC expression. Annotation of this gene signature reveals Myc's primordial function in RNA processing, ribosome biogenesis and biomass accumulation as its key roles in cancer and stem cells.

Indexed as

BiomassGenes, mycAnimalsChromatin ImmunoprecipitationHumansLymphoma, B-CellMiceMice, TransgenicOligonucleotide Array Sequence Analysis

Identifiers

PMID22039435
PMCPMC3198433
OpenAlexW2091154312

What OpenQuestion holds

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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.