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starr seq screening vector  (Twist Bioscience)


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    Twist Bioscience starr seq screening vector
    Starr Seq Screening Vector, supplied by Twist Bioscience, used in various techniques. Bioz Stars score: 95/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/starr+seq+vector/Screening/pm42777703-413-9-16
    Average 95 stars, based on 1 article reviews
    starr seq screening vector - by Bioz Stars, 2026-11
    95/100 stars

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    Related Articles

    Synthesized:

    Article Title: Intraspecific sequence variation and complete genomes refine the identification of rapidly evolved regions in humans.
    Article Snippet: .. We synthesized test sequences and cloned them into the STARR-seq screening vector using a commercial service (Twist Bioscience). .. Plasmids were transformed into One Shot Stbl3 chemically competent E.coli (Thermo Fisher), selected for ampicillin resistance, and amplified in Luria broth (Invitrogen) with 100 μg/mL ampicillin.

    Clone Assay:

    Article Title: Intraspecific sequence variation and complete genomes refine the identification of rapidly evolved regions in humans.
    Article Snippet: .. We synthesized test sequences and cloned them into the STARR-seq screening vector using a commercial service (Twist Bioscience). .. Plasmids were transformed into One Shot Stbl3 chemically competent E.coli (Thermo Fisher), selected for ampicillin resistance, and amplified in Luria broth (Invitrogen) with 100 μg/mL ampicillin.

    Screening:

    Article Title: Intraspecific sequence variation and complete genomes refine the identification of rapidly evolved regions in humans.
    Article Snippet: .. We synthesized test sequences and cloned them into the STARR-seq screening vector using a commercial service (Twist Bioscience). .. Plasmids were transformed into One Shot Stbl3 chemically competent E.coli (Thermo Fisher), selected for ampicillin resistance, and amplified in Luria broth (Invitrogen) with 100 μg/mL ampicillin.

    Plasmid Preparation:

    Article Title: Intraspecific sequence variation and complete genomes refine the identification of rapidly evolved regions in humans.
    Article Snippet: .. We synthesized test sequences and cloned them into the STARR-seq screening vector using a commercial service (Twist Bioscience). .. Plasmids were transformed into One Shot Stbl3 chemically competent E.coli (Thermo Fisher), selected for ampicillin resistance, and amplified in Luria broth (Invitrogen) with 100 μg/mL ampicillin.



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    Novel motifs affect gene transcription in Jurkats. A Shown, is a diagram of the STARR-seq oligo library design. The figure was adapted from Georgakopoulos-Soares et al under the Creative Commons license http://creativecommons.org/licenses/by/4.0/ . Changes were made to the figure to account for the differences in our overall library design. Eighteen candidate motifs (nine novel and nine TFBS motifs) were embedded in a synthetic background DNA sequence. Each sequence contained one to three instances of a motif, separated by 10bp. The oligonucleotide library contains every possible combination, position, and orientation of the 18 candidate motifs. B The mean activity score for the 18 motifs in their respective orientations for Jurkat and ( C ) K562 cells are shown above. Mean activity scores were obtained from oligos containing the motif of interest only in its indicated orientation. Motifs with a significant effect on gene transcription were identified using a two-sided t-test that compared oligos containing the motif of interest to those that do not contain the motif. Only oligos containing 1-3 instances of the given motif in its respective orientation were used. Motifs with a significant effect of gene transcription are indicated as solid bars (Bonferroni corrected, p -value < 0.001, |Cohen's D| > 0.5). Error bars represent the standard error of activity scores. D Linear modelling was used to determine if there was an association between the number of copies of a motif and the mean activity score for the motifs with a significant effect on gene transcription in Jurkat cells and ( E ) K562 cells (Bonferroni corrected, p -value < 0.007). Only oligos containing one to three copies of the motif of interest were included in the analysis

    Journal: BMC Genomics

    Article Title: Identification of novel DNA sequence motifs that modulate transcription in T cells

    doi: 10.1186/s12864-025-12425-9

    Figure Lengend Snippet: Novel motifs affect gene transcription in Jurkats. A Shown, is a diagram of the STARR-seq oligo library design. The figure was adapted from Georgakopoulos-Soares et al under the Creative Commons license http://creativecommons.org/licenses/by/4.0/ . Changes were made to the figure to account for the differences in our overall library design. Eighteen candidate motifs (nine novel and nine TFBS motifs) were embedded in a synthetic background DNA sequence. Each sequence contained one to three instances of a motif, separated by 10bp. The oligonucleotide library contains every possible combination, position, and orientation of the 18 candidate motifs. B The mean activity score for the 18 motifs in their respective orientations for Jurkat and ( C ) K562 cells are shown above. Mean activity scores were obtained from oligos containing the motif of interest only in its indicated orientation. Motifs with a significant effect on gene transcription were identified using a two-sided t-test that compared oligos containing the motif of interest to those that do not contain the motif. Only oligos containing 1-3 instances of the given motif in its respective orientation were used. Motifs with a significant effect of gene transcription are indicated as solid bars (Bonferroni corrected, p -value < 0.001, |Cohen's D| > 0.5). Error bars represent the standard error of activity scores. D Linear modelling was used to determine if there was an association between the number of copies of a motif and the mean activity score for the motifs with a significant effect on gene transcription in Jurkat cells and ( E ) K562 cells (Bonferroni corrected, p -value < 0.007). Only oligos containing one to three copies of the motif of interest were included in the analysis

    Article Snippet: After designing the library, the oligonucleotide sequences were flanked by AgeI and SalI restriction sites to facilitate cloning into the STARR-seq vector (hSTARR-seq_ORI, Addgene #99296) and the necessary priming and Illumina adapter sequences were added to enable sequencing (Supplemental Table S3).

    Techniques: Sequencing, Activity Assay