Evidence map›Paper›PMID 24997861›Full record

ArticleNature methods2014

Accelerated chromatin biochemistry using DNA-barcoded nucleosome libraries.

Uyen T T Nguyen, Lenka Bittova, Manuel M Müller, Beat Fierz, Yael David, Brian Houck-Loomis, Vanessa Feng, Geoffrey P Dann, Tom W Muir

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature methods, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 91 papers.

0numbers the graph read from it
0cells of the map it votes in
91citing papers in PubMed
9.1field-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

91 citing papers in PubMed, 148 citations in OpenAlex.

  1. Trial
  2. Review
  3. A Chromatin Biology Assessment of AlphaFold3.bioRxiv : the preprint server for biology · 2026
    Article
  4. Article
  5. Article
  6. Review
  7. Article
  8. Review
  9. A Tailored Phospho-p53 Library Probes Antibody Specificity and Recognition Limitations.Chembiochem : a European journal of chemical biology · 2025
    Article
  10. Article
  11. Article
  12. Review
  13. Review
  14. Article
  15. The Function of E2A in B-Cell Development.Advances in experimental medicine and biology · 2024
    Review
  16. Article
  17. Review
  18. Review
  19. Review
  20. Article

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors at 1 institution in 1 country.

Uyen T T Nguyen1] Department of Chemistry, Princeton University, Princeton, New Jersey, USA. [2].
Lenka BittovaDepartment of Chemistry, Princeton University, Princeton, New Jersey, USA.
Manuel M MüllerDepartment of Chemistry, Princeton University, Princeton, New Jersey, USA.
Beat Fierz1] Department of Chemistry, Princeton University, Princeton, New Jersey, USA. [2].
Yael DavidDepartment of Chemistry, Princeton University, Princeton, New Jersey, USA.
Brian Houck-Loomis1] The Rockefeller University, New York, New York, USA. [2].
Vanessa FengDepartment of Chemistry, Princeton University, Princeton, New Jersey, USA.
Geoffrey P DannDepartment of Chemistry, Princeton University, Princeton, New Jersey, USA.
Tom W MuirDepartment of Chemistry, Princeton University, Princeton, New Jersey, USA.
Princeton University · US

Funding

Structure, Function and Applications of InteinsR37GM086868 · NIGMS · PRINCETON UNIVERSITY · PI MUIR, TOM · 2012 to 2021
$5.4M
Development and Applications of 'Designer Chromatin'R01GM107047 · NIGMS · PRINCETON UNIVERSITY · PI MUIR, TOM · 2013 to 2016
$1.2M
NIGMS NIH HHS R01 GM107047NIGMS NIH HHS R37 GM086868NIGMS NIH HHS R37-GM086868
6 · The paper itself

Abstract

Elucidating the molecular details of how chromatin-associated factors deposit, remove and recognize histone post-translational modification (PTM) signatures remains a daunting task in the epigenetics field. We introduce a versatile platform that greatly accelerates biochemical investigations into chromatin recognition and signaling. This technology is based on the streamlined semisynthesis of DNA-barcoded nucleosome libraries with distinct combinations of PTMs. Chromatin immunoprecipitation of these libraries, once they have been treated with purified chromatin effectors or the combined chromatin recognizing and modifying activities of the nuclear proteome, is followed by multiplexed DNA-barcode sequencing. This ultrasensitive workflow allowed us to collect thousands of biochemical data points revealing the binding preferences of various nuclear factors for PTM patterns and how preexisting PTMs, alone or synergistically, affect further PTM deposition via cross-talk mechanisms. We anticipate that the high throughput and sensitivity of the technology will help accelerate the decryption of the diverse molecular controls that operate at the level of chromatin.

Indexed as

DNA Barcoding, TaxonomicChromatinChromatin ImmunoprecipitationNucleosomesChromatinNucleosomes

Identifiers

PMID24997861
PMCPMC4130351
OpenAlexW2085258086

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.