Evidence map›Paper›PMID 24490786›Full record

ArticleJournal of proteome research2014

Discovery of human sORF-encoded polypeptides (SEPs) in cell lines and tissue.

Jiao Ma, Carl C Ward, Irwin Jungreis, Sarah A Slavoff, Adam G Schwaid, John Neveu, Bogdan A Budnik, Manolis Kellis, Alan Saghatelian

Open access · bronzeAbstract read
In one paragraph

Article in Journal of proteome research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 105 papers.

0numbers the graph read from it
0cells of the map it votes in
105citing papers in PubMed
0.1field-weighted citation impact, top 48% 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

105 citing papers in PubMed, 8 citations in OpenAlex.

  1. Article
  2. The hidden players: LncRNA-Encoded micropeptides in cancer hallmarks.Cellular and molecular life sciences : CMLS · 2026
    Review
  3. Review
  4. Review
  5. Review
  6. Chasing the Ghost Proteome in the Dark Matter.Molecular & cellular proteomics : MCP · 2025
    Review
  7. Article
  8. CRISPR-Cas9 screening reveals microproteins regulating adipocyte proliferation and lipid metabolism.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  9. Article
  10. Article
  11. Article
  12. Eukaryotic Microproteins.Annual review of biochemistry · 2025
    Review
  13. Review
  14. Article
  15. The translatome of glioblastoma.Molecular oncology · 2025
    Article
  16. Article
  17. Article
  18. Review
  19. Article
  20. Review

45 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

9 authors at 4 institutions in 1 country.

Jiao MaDepartment of Chemistry and Chemical Biology, Harvard University , 12 Oxford Street, Cambridge, Massachusetts 02138, United States.
Carl C Ward
Irwin Jungreis
Sarah A Slavoff
Adam G Schwaid
John Neveu
Bogdan A Budnik
Manolis Kellis
Alan Saghatelian
Harvard University · USCenter for Systems Biology · USMassachusetts Institute of Technology · USSalk Institute for Biological Studies · US

Funding

GENCODE Resource ProjectU41HG007234 · NHGRI · SANGER INSTITUTE · PI FLICEK, PAUL · 2013 to 2020
$20.3M
The Discovery of Human Peptide Encoding GenesR01GM102491 · NIGMS · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI O'SHEA, CLODAGH, SAGHATELIAN, ALAN · 2012 to 2025
$5.5M
Regulatory Morif Discovery in the Human Genome Using Comparative GenomicsR01HG004037 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI KELLIS, MANOLIS · 2007 to 2015
$3.9M
Scope and mechanism of eptide translation from short open reading frames in the hF32GM099408 · NIGMS · HARVARD UNIVERSITY · PI SLAVOFF, SARAH ANN · 2011 to 2013
$147k
NHGRI NIH HHS R01 HG004037NHGRI NIH HHS U41 HG007234NIGMS NIH HHS 1F32GM099408-01NIGMS NIH HHS F32 GM099408NIGMS NIH HHS R01 GM102491NIGMS NIH HHS R01GM102491
6 · The paper itself

Abstract

The existence of nonannotated protein-coding human short open reading frames (sORFs) has been revealed through the direct detection of their sORF-encoded polypeptide (SEP) products. The discovery of novel SEPs increases the size of the genome and the proteome and provides insights into the molecular biology of mammalian cells, such as the prevalent usage of non-AUG start codons. Through modifications of the existing SEP-discovery workflow, we discover an additional 195 SEPs in K562 cells and extend this methodology to identify novel human SEPs in additional cell lines and human tissue for a final tally of 237 new SEPs. These results continue to expand the human genome and proteome and demonstrate that SEPs are a ubiquitous class of nonannotated polypeptides that require further investigation.

Indexed as

Genome, HumanOpen Reading FramesBreast NeoplasmsCell LineChromatography, LiquidCodon, InitiatorFemaleHumansK562 CellsPeptidesProtein BiosynthesisProteomeTandem Mass SpectrometryCodon, InitiatorPeptidesProteome

Identifiers

PMID24490786
PMCPMC3993966
OpenAlexW1549485798

What OpenQuestion holds

Textmetadata
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.