Evidence map›Paper›PMID 25398349›Full record

ArticleMethods in enzymology2014

Cas9-based genome editing in Xenopus tropicalis.

Takuya Nakayama, Ira L Blitz, Margaret B Fish, Akinleye O Odeleye, Sumanth Manohar, Ken W Y Cho, Robert M Grainger

Abstract read
In one paragraph

Article in Methods in enzymology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.

0numbers the graph read from it
0cells of the map it votes in
57citing papers in PubMed
12.4field-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

57 citing papers in PubMed, 107 citations in OpenAlex.

  1. Current issues in molecular biology · 2026
    Review
  2. Article
  3. TheBiomolecules · 2025
    Review
  4. Article
  5. Article
  6. Using Xenopus to discover new candidate genes involved in BOR and other congenital hearing loss syndromes.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2024
    Review
  7. Article
  8. Article
  9. Science advances · 2024
    Article
  10. Article
  11. Article
  12. Review
  13. Automated multi-sample DNA extraction for genotyping live Xenopus embryos.Developmental dynamics : an official publication of the American Association of Anatomists · 2023
    Article
  14. Article
  15. Clock genes rescue nphp mutations in zebrafish.Human molecular genetics · 2022
    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

7 authors at 2 institutions in 1 country.

Takuya NakayamaDepartment of Biology, University of Virginia, Charlottesville, Virginia, USA.
Ira L BlitzDepartment of Developmental and Cell Biology, University of California, Irvine, California, USA.
Margaret B FishDepartment of Developmental and Cell Biology, University of California, Irvine, California, USA.
Akinleye O OdeleyeDepartment of Biology, University of Virginia, Charlottesville, Virginia, USA.
Sumanth ManoharDepartment of Biology, University of Virginia, Charlottesville, Virginia, USA.
Ken W Y ChoDepartment of Developmental and Cell Biology, University of California, Irvine, California, USA.
Robert M GraingerDepartment of Biology, University of Virginia, Charlottesville, Virginia, USA. Electronic address: rmg9p@virginia.edu.
University of Virginia · USUniversity of California, Irvine · US

Funding

Resource CoreP40OD010997 · OD · MARINE BIOLOGICAL LABORATORY · PI Marko E Horb · 2012 to 2026
$13.1M
Deciphering the gene regulatory network controlling vertebrate endodermal fatesR01HD073179 · NICHD · UNIVERSITY OF CALIFORNIA-IRVINE · PI CHO, KEN W.Y., MJOLSNESS, ERIC D · 2013 to 2017
$2.9M
Genomic survey of cis-regulatory element function by high-throughput transgenesisR01EY018000 · NEI · UNIVERSITY OF VIRGINIA · PI GRAINGER, ROBERT M · 2009 to 2012
$1.3M
Mechanisms of Embryonic Lens DeterminationR01EY022954 · NEI · UNIVERSITY OF VIRGINIA · PI GRAINGER, ROBERT M · 2013 to 2015
$1.2M
Genome engineering in Xenopus using the CRISPR/Cas systemR21HD080684 · NICHD · UNIVERSITY OF CALIFORNIA-IRVINE · PI BLITZ, IRA L · 2014 to 2015
$419k
NEI NIH HHS EY018000NEI NIH HHS EY022954NEI NIH HHS R01 EY018000NEI NIH HHS R01 EY022954NICHD NIH HHS HD073179NICHD NIH HHS HD080684NICHD NIH HHS R01 HD073179NICHD NIH HHS R21 HD080684NIH HHS OD010997NIH HHS P40 OD010997
6 · The paper itself

Abstract

Xenopus tropicalis has been developed as a model organism for developmental biology, providing a system offering both modern genetics and classical embryology. Recently, the Clustered Regularly Interspaced Short Palindromic Repeats/CRISPR-associated (CRISPR/Cas) system for genome modification has provided an additional tool for Xenopus researchers to achieve simple and efficient targeted mutagenesis. Here, we provide insights into experimental design and procedures permitting successful application of this technique to Xenopus researchers, and offer a general strategy for performing loss-of-function assays in F0 and subsequently F1 embryos.

Indexed as

MutagenesisAnimalsBase SequenceClustered Regularly Interspaced Short Palindromic RepeatsCRISPR-Cas SystemsEmbryo, NonmammalianGene TargetingGenetic EngineeringGenomeMolecular Sequence DataRNA, Guide, CRISPR-Cas SystemsXenopusRNA, Guide, CRISPR-Cas SystemsAmphibian mutagenesisCRISPRDisease modelGenome engineeringLoss-of-functionOff-target effectssgRNA designTargeted mutagenesis

Identifiers

PMID25398349
PMCPMC4284096
OpenAlexW2229227489

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.