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crispr guide design software  (Benchling Inc)

 
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    Benchling Inc crispr guide design software
    Characterization of <t>CRISPR–SaCas9</t> target site mutations in HIV breakthrough cultures. Supernatants from cultures exhibiting syncytia formation were collected at the peak of infection and used to infect fresh cells transduced <t>with</t> <t>SaCas9/gRNA.</t> After robust viral replication, cells were harvested, and total cellular DNA was extracted. The target region was amplified by PCR and analyzed by Sanger sequencing. Sequences were aligned to the LAI reference, with the wild-type sequence shown at the top and culture numbers indicated on the left. The target sequence is underlined, and the PAM sequence is highlighted in blue. Nucleotide substitutions are shown in red, predicted SaCas9 cleavage sites are indicated with black triangles, and corresponding amino acids are displayed on the right.
    Crispr Guide Design Software, supplied by Benchling Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/crispr guide design software/product/Benchling Inc
    Average 86 stars, based on 1 article reviews
    crispr guide design software - by Bioz Stars, 2026-05
    86/100 stars

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    1) Product Images from "Elucidating the kinetics of CRISPR–SaCas9 action to obtain effective HIV DNA excision with two gRNAs"

    Article Title: Elucidating the kinetics of CRISPR–SaCas9 action to obtain effective HIV DNA excision with two gRNAs

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkag205

    Characterization of CRISPR–SaCas9 target site mutations in HIV breakthrough cultures. Supernatants from cultures exhibiting syncytia formation were collected at the peak of infection and used to infect fresh cells transduced with SaCas9/gRNA. After robust viral replication, cells were harvested, and total cellular DNA was extracted. The target region was amplified by PCR and analyzed by Sanger sequencing. Sequences were aligned to the LAI reference, with the wild-type sequence shown at the top and culture numbers indicated on the left. The target sequence is underlined, and the PAM sequence is highlighted in blue. Nucleotide substitutions are shown in red, predicted SaCas9 cleavage sites are indicated with black triangles, and corresponding amino acids are displayed on the right.
    Figure Legend Snippet: Characterization of CRISPR–SaCas9 target site mutations in HIV breakthrough cultures. Supernatants from cultures exhibiting syncytia formation were collected at the peak of infection and used to infect fresh cells transduced with SaCas9/gRNA. After robust viral replication, cells were harvested, and total cellular DNA was extracted. The target region was amplified by PCR and analyzed by Sanger sequencing. Sequences were aligned to the LAI reference, with the wild-type sequence shown at the top and culture numbers indicated on the left. The target sequence is underlined, and the PAM sequence is highlighted in blue. Nucleotide substitutions are shown in red, predicted SaCas9 cleavage sites are indicated with black triangles, and corresponding amino acids are displayed on the right.

    Techniques Used: CRISPR, Infection, Transduction, Amplification, Sequencing



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    Characterization of CRISPR–SaCas9 target site mutations in HIV breakthrough cultures. Supernatants from cultures exhibiting syncytia formation were collected at the peak of infection and used to infect fresh cells transduced with SaCas9/gRNA. After robust viral replication, cells were harvested, and total cellular DNA was extracted. The target region was amplified by PCR and analyzed by Sanger sequencing. Sequences were aligned to the LAI reference, with the wild-type sequence shown at the top and culture numbers indicated on the left. The target sequence is underlined, and the PAM sequence is highlighted in blue. Nucleotide substitutions are shown in red, predicted SaCas9 cleavage sites are indicated with black triangles, and corresponding amino acids are displayed on the right.

    Journal: Nucleic Acids Research

    Article Title: Elucidating the kinetics of CRISPR–SaCas9 action to obtain effective HIV DNA excision with two gRNAs

    doi: 10.1093/nar/gkag205

    Figure Lengend Snippet: Characterization of CRISPR–SaCas9 target site mutations in HIV breakthrough cultures. Supernatants from cultures exhibiting syncytia formation were collected at the peak of infection and used to infect fresh cells transduced with SaCas9/gRNA. After robust viral replication, cells were harvested, and total cellular DNA was extracted. The target region was amplified by PCR and analyzed by Sanger sequencing. Sequences were aligned to the LAI reference, with the wild-type sequence shown at the top and culture numbers indicated on the left. The target sequence is underlined, and the PAM sequence is highlighted in blue. Nucleotide substitutions are shown in red, predicted SaCas9 cleavage sites are indicated with black triangles, and corresponding amino acids are displayed on the right.

    Article Snippet: gRNA spacers were designed using Benchling CRISPR guide design software ( https://www.benchling.com/ ), targeting the HIV-1 DNA genome of the primary LAI virus isolate.

    Techniques: CRISPR, Infection, Transduction, Amplification, Sequencing