Evidence map›Paper›PMID 31943634›Full record

ArticleChembiochem : a European journal of chemical biology2020

Versatile 3' Functionalization of CRISPR Single Guide RNA.

Cody M Palumbo, Jeton M Gutierrez-Bujari, Henriette O'Geen, David J Segal, Peter A Beal

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Chembiochem : a European journal of chemical biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
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

3 citing papers in PubMed.

  1. Review
  2. Article
  3. 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

5 authors.

Cody M PalumboDepartment of Chemistry, University of California Davis, One Shields Ave., Davis, CA, 95616, USA.
Jeton M Gutierrez-BujariDepartment of Chemistry, University of California Davis, One Shields Ave., Davis, CA, 95616, USA.
Henriette O'GeenGenome Center and Department of Biochemistry and Molecular Medicine, University of California Davis, Davis, CA, 95616, USA.
David J SegalGenome Center and Department of Biochemistry and Molecular Medicine, University of California Davis, Davis, CA, 95616, USA.
Peter A BealDepartment of Chemistry, University of California Davis, One Shields Ave., Davis, CA, 95616, USA.ORCID 0000-0003-4855-7185

Funding

Nucleobase analogs for next generation siRNAsR01GM080784 · NIGMS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI BEAL, PETER A. · 2007 to 2020
$3.5M
BRIDGES TO THE PROFESSORIATET36GM008784 · NIGMS · WESTERN INTERSTATE COMMISSION HIGHER ED · PI PEPION, KENNETH · 2000 to 2015
$2.9M
UC Davis Training Program in Chemical BiologyT32GM113770 · NIGMS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI BEAL, PETER A. · 2015 to 2019
$742k
Determinants of Persistence in Epigenetic EditingR21HG010559 · NHGRI · UNIVERSITY OF CALIFORNIA AT DAVIS · PI SEGAL, DAVID J · 2019 to 2020
$415k
NHGRI NIH HHS R21 HG010559NIGMS NIH HHS R01 GM080784NIGMS NIH HHS T32 GM113770NIGMS NIH HHS T36 GM008784
6 · The paper itself

Abstract

Specific applications of CRISPR/Cas genome editing systems benefit from chemical modifications of the sgRNA. Herein we describe a versatile and efficient strategy for functionalization of the 3'-end of a sgRNA. An exemplary collection of six chemically modified sgRNAs was prepared containing crosslinkers, a fluorophore and biotin. Modification of the sgRNA 3'-end was broadly tolerated by Streptococcus pyogenes Cas9 in an in vitro DNA cleavage assay. The 3'-biotinylated sgRNA was used as an affinity reagent to identify IGF2BP1, YB1 and hnRNP K as sgRNA-binding proteins present in HEK293T cells. Overall, the modification strategy presented here has the potential to expand on current applications of CRISPR/Cas systems.

Indexed as

CRISPR-Cas SystemsBinding SitesBiotinBiotinylationCRISPR-Associated Protein 9Cross-Linking ReagentsDNADNA CleavageFluorescent DyesGene EditingGene ExpressionHEK293 CellsHeterogeneous-Nuclear Ribonucleoprotein KHumansModels, MolecularNucleic Acid ConformationBiotinCas9 endonuclease Streptococcus pyogenesCRISPR-Associated Protein 9Cross-Linking ReagentsDNAFluorescent DyesHeterogeneous-Nuclear Ribonucleoprotein KHNRNPK protein, humanIGF2BP1 protein, humanRNA-Binding ProteinsRNA, Guide, CRISPR-Cas SystemsY-Box-Binding Protein 1YBX1 protein, humanclick chemistrynucleic acidsprotein engineeringproteomicsRNA

Identifiers

PMID31943634
PMCPMC7323579

What OpenQuestion holds

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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.