Base editing-coupled survival screening enabled high-sensitive analysis of PAM compatibility and finding of the new possible off-target

Ultra Sensitive Analysis using Atmospheric Plasmas

The Journal of the Institute of Electrical Engineers of Japan ◽

10.1541/ieejjournal.135.226 ◽

2015 ◽

Vol 135 (4) ◽

pp. 226-229

Author(s):

Ken KAKEGAWA ◽

Mari AIDA ◽

Akitoshi OKINO

Keyword(s):

Sensitive Analysis ◽

Atmospheric Plasmas

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Capillary electrophoresis with fluorescence detection for sensitive analysis of morphine and 6-acetylmorphine in human urine

Acta Chromatographica ◽

10.1556/achrom.20.2008.2.7 ◽

2008 ◽

Vol 20 (2) ◽

pp. 227-238 ◽

Cited By ~ 6

Author(s):

A. Alnajjar Alnajjar

Keyword(s):

Capillary Electrophoresis ◽

Fluorescence Detection ◽

Human Urine ◽

Sensitive Analysis

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Faculty Opinions recommendation of Highly efficient RNA-guided base editing in mouse embryos.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.727363082.793529464 ◽

2017 ◽

Author(s):

Emmanuelle Charpentier ◽

Christina J Groß

Keyword(s):

Mouse Embryos ◽

Base Editing ◽

Highly Efficient

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Sensitive analysis of river geometry under various flow conditions in South Han River using GSTARS model

Journal of Korea Water Resources Association ◽

10.3741/jkwra.2016.49.4.347 ◽

2016 ◽

Vol 49 (4) ◽

pp. 347-359

Author(s):

Jungkyu Ahn ◽

Jong Mun Lee ◽

Young Do Kim ◽

Boosik Kang

Keyword(s):

Flow Conditions ◽

Sensitive Analysis ◽

Han River

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Cost-Sensitive Analysis of Communication Protocols

10.21236/ada237356 ◽

1991 ◽

Cited By ~ 5

Author(s):

Baruch Awerbuch ◽

Alan Baratz ◽

David Peleg

Keyword(s):

Communication Protocols ◽

Sensitive Analysis

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Estimating Copy-Number Proportions: The Comeback of Sanger Sequencing

Genes ◽

10.3390/genes12020283 ◽

2021 ◽

Vol 12 (2) ◽

pp. 283

Author(s):

Eyal Seroussi

Keyword(s):

Copy Number ◽

Sanger Sequencing ◽

Cytosine Methylation ◽

Direct Sequencing ◽

Information Source ◽

Gene Copy Number ◽

Cost Effective ◽

Gene Copy ◽

Base Editing ◽

Recent Developments

Determination of the relative copy numbers of mixed molecular species in nucleic acid samples is often the objective of biological experiments, including Single-Nucleotide Polymorphism (SNP), indel and gene copy-number characterization, and quantification of CRISPR-Cas9 base editing, cytosine methylation, and RNA editing. Standard dye-terminator chromatograms are a widely accessible, cost-effective information source from which copy-number proportions can be inferred. However, the rate of incorporation of dye terminators is dependent on the dye type, the adjacent sequence string, and the secondary structure of the sequenced strand. These variable rates complicate inferences and have driven scientists to resort to complex and costly quantification methods. Because these complex methods introduce their own biases, researchers are rethinking whether rectifying distortions in sequencing trace files and using direct sequencing for quantification will enable comparable accurate assessment. Indeed, recent developments in software tools (e.g., TIDE, ICE, EditR, BEEP and BEAT) indicate that quantification based on direct Sanger sequencing is gaining in scientific acceptance. This commentary reviews the common obstacles in quantification and the latest insights and developments relevant to estimating copy-number proportions based on direct Sanger sequencing, concluding that bidirectional sequencing and sophisticated base calling are the keys to identifying and avoiding sequence distortions.

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CRISPR-mediated base editing in mice using cytosine deaminase base editor 4

Electronic Journal of Biotechnology ◽

10.1016/j.ejbt.2021.04.010 ◽

2021 ◽

Author(s):

Salah Adlat ◽

Farooq Hayel ◽

Ping Yang ◽

Yang Chen ◽

Zin Mar Oo ◽

...

Keyword(s):

Cytosine Deaminase ◽

Base Editing

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Lentiviral Vectors for Delivery of Gene-Editing Systems Based on CRISPR/Cas: Current State and Perspectives

Viruses ◽

10.3390/v13071288 ◽

2021 ◽

Vol 13 (7) ◽

pp. 1288

Author(s):

Wendy Dong ◽

Boris Kantor

Keyword(s):

Large Scale ◽

Lentiviral Vector ◽

Clinical Applications ◽

Scale Production ◽

Base Editing ◽

Epigenome Editing ◽

Vector Systems ◽

Dividing Cells

CRISPR/Cas technology has revolutionized the fields of the genome- and epigenome-editing by supplying unparalleled control over genomic sequences and expression. Lentiviral vector (LV) systems are one of the main delivery vehicles for the CRISPR/Cas systems due to (i) its ability to carry bulky and complex transgenes and (ii) sustain robust and long-term expression in a broad range of dividing and non-dividing cells in vitro and in vivo. It is thus reasonable that substantial effort has been allocated towards the development of the improved and optimized LV systems for effective and accurate gene-to-cell transfer of CRISPR/Cas tools. The main effort on that end has been put towards the improvement and optimization of the vector’s expression, development of integrase-deficient lentiviral vector (IDLV), aiming to minimize the risk of oncogenicity, toxicity, and pathogenicity, and enhancing manufacturing protocols for clinical applications required large-scale production. In this review, we will devote attention to (i) the basic biology of lentiviruses, and (ii) recent advances in the development of safer and more efficient CRISPR/Cas vector systems towards their use in preclinical and clinical applications. In addition, we will discuss in detail the recent progress in the repurposing of CRISPR/Cas systems related to base-editing and prime-editing applications.

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