Evidence map›Paper›PMID 29039416›Full record

ArticleNature methods2017

Antibodies to biotin enable large-scale detection of biotinylation sites on proteins.

Namrata D Udeshi, Kayvon Pedram, Tanya Svinkina, Shaunt Fereshetian, Samuel A Myers, Ozan Aygun, Karsten Krug, Karl Clauser, Dominic Ryan, Tslil Ast and 3 more

Open access · greenAbstract read
In one paragraph

Article in Nature methods, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 84 papers.

0numbers the graph read from it
0cells of the map it votes in
84citing papers in PubMed
7.2field-weighted citation impact, top 2% 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

84 citing papers in PubMed, 161 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Review
  6. Article
  7. Review
  8. Dynamic extracellular interactions with AMPA receptors.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  9. Article
  10. Review
  11. Article
  12. Review
  13. Review
  14. Alginate lyase immobilizedActa pharmaceutica Sinica. B · 2025
    Article
  15. Review
  16. Article
  17. Article
  18. Article
  19. Article
  20. Review

24 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 2 institutions in 1 country.

Namrata D UdeshiProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.ORCID http://orcid.org/0000-0001-5312-1402
Kayvon PedramDepartments of Genetics, Biology, and Chemistry, Stanford University, Stanford, California, USA.ORCID http://orcid.org/0000-0001-8365-1826
Tanya SvinkinaProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Shaunt FereshetianProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Samuel A MyersProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Ozan AygunProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Karsten KrugProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Karl ClauserProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Dominic RyanDRI2 LLC, Littleton, Massachusetts, USA.
Tslil AstProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Vamsi K MoothaProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.
Alice Y TingDepartments of Genetics, Biology, and Chemistry, Stanford University, Stanford, California, USA.
Steven A CarrProteomics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA.ORCID http://orcid.org/0000-0002-7203-4299
Broad Institute · USStanford University · US

Funding

Spatially-resolved proteomic mapping of living cellsR01CA186568 · NCI · STANFORD UNIVERSITY · PI TING, ALICE Y · 2013 to 2018
$3.3M
6 · The paper itself

Abstract

Although purification of biotinylated molecules is highly efficient, identifying specific sites of biotinylation remains challenging. We show that anti-biotin antibodies enable unprecedented enrichment of biotinylated peptides from complex peptide mixtures. Live-cell proximity labeling using APEX peroxidase followed by anti-biotin enrichment and mass spectrometry yielded over 1,600 biotinylation sites on hundreds of proteins, an increase of more than 30-fold in the number of biotinylation sites identified compared to streptavidin-based enrichment of proteins.

Indexed as

AntibodiesBiotechnologyBiotinBiotinylationChromatography, LiquidHEK293 CellsHumansJurkat CellsPeptidesProteinsStaining and LabelingStreptavidinTandem Mass SpectrometryAntibodiesBiotinPeptidesProteinsStreptavidin

Identifiers

PMID29039416
PMCPMC8954634
OpenAlexW2765968230

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.