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ebfret matlab library  (MathWorks Inc)


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    MathWorks Inc ebfret matlab library
    Mechanism of FANCJ-mediated G4-unfolding and refolding. ( A ) Regions of the single-molecule G4-unfolding FRET time-courses for each FANCJ construct containing FRET transitions were globally analyzed by the <t>ebFRET</t> <t>Matlab</t> suite. The resulting transition density plots (TDPs) for each FANCJ construct show four major FRET states with mean FRET values of 0.13 (ssDNA; 1), 0.32 (G2), 0.49 (G3) and 0.64 (G4). Additional, albeit infrequent state (FRET ≈ 0.73) represents a parallel G-quadruplex (P). The scale bar for transition frequency is shown on the right of each respective TDP where the brighter peaks correspond to more frequent transitions. ( B ) Schematic representation of the TDP, observed FRET states and their corresponding DNA conformations, and transitions. ( C ) FANCJ-, bioFANCJ- and FANCJ HD -mediated G4-unfolding and refolding proceeded through the same intermediates and mechanism based on the TDPs. The TDP for the bioFANCJ K141/K142A -mediated process shows a reduction in the G2⇔G4 and G3⇔G4 interconversions.
    Ebfret Matlab Library, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ebfret matlab library/product/MathWorks Inc
    Average 90 stars, based on 1 article reviews
    ebfret matlab library - by Bioz Stars, 2026-04
    90/100 stars

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    1) Product Images from "G-quadruplex recognition and remodeling by the FANCJ helicase"

    Article Title: G-quadruplex recognition and remodeling by the FANCJ helicase

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkw574

    Mechanism of FANCJ-mediated G4-unfolding and refolding. ( A ) Regions of the single-molecule G4-unfolding FRET time-courses for each FANCJ construct containing FRET transitions were globally analyzed by the ebFRET Matlab suite. The resulting transition density plots (TDPs) for each FANCJ construct show four major FRET states with mean FRET values of 0.13 (ssDNA; 1), 0.32 (G2), 0.49 (G3) and 0.64 (G4). Additional, albeit infrequent state (FRET ≈ 0.73) represents a parallel G-quadruplex (P). The scale bar for transition frequency is shown on the right of each respective TDP where the brighter peaks correspond to more frequent transitions. ( B ) Schematic representation of the TDP, observed FRET states and their corresponding DNA conformations, and transitions. ( C ) FANCJ-, bioFANCJ- and FANCJ HD -mediated G4-unfolding and refolding proceeded through the same intermediates and mechanism based on the TDPs. The TDP for the bioFANCJ K141/K142A -mediated process shows a reduction in the G2⇔G4 and G3⇔G4 interconversions.
    Figure Legend Snippet: Mechanism of FANCJ-mediated G4-unfolding and refolding. ( A ) Regions of the single-molecule G4-unfolding FRET time-courses for each FANCJ construct containing FRET transitions were globally analyzed by the ebFRET Matlab suite. The resulting transition density plots (TDPs) for each FANCJ construct show four major FRET states with mean FRET values of 0.13 (ssDNA; 1), 0.32 (G2), 0.49 (G3) and 0.64 (G4). Additional, albeit infrequent state (FRET ≈ 0.73) represents a parallel G-quadruplex (P). The scale bar for transition frequency is shown on the right of each respective TDP where the brighter peaks correspond to more frequent transitions. ( B ) Schematic representation of the TDP, observed FRET states and their corresponding DNA conformations, and transitions. ( C ) FANCJ-, bioFANCJ- and FANCJ HD -mediated G4-unfolding and refolding proceeded through the same intermediates and mechanism based on the TDPs. The TDP for the bioFANCJ K141/K142A -mediated process shows a reduction in the G2⇔G4 and G3⇔G4 interconversions.

    Techniques Used: Construct



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    ebfret matlab library  (MathWorks Inc)
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    MathWorks Inc ebfret matlab library
    Mechanism of FANCJ-mediated G4-unfolding and refolding. ( A ) Regions of the single-molecule G4-unfolding FRET time-courses for each FANCJ construct containing FRET transitions were globally analyzed by the <t>ebFRET</t> <t>Matlab</t> suite. The resulting transition density plots (TDPs) for each FANCJ construct show four major FRET states with mean FRET values of 0.13 (ssDNA; 1), 0.32 (G2), 0.49 (G3) and 0.64 (G4). Additional, albeit infrequent state (FRET ≈ 0.73) represents a parallel G-quadruplex (P). The scale bar for transition frequency is shown on the right of each respective TDP where the brighter peaks correspond to more frequent transitions. ( B ) Schematic representation of the TDP, observed FRET states and their corresponding DNA conformations, and transitions. ( C ) FANCJ-, bioFANCJ- and FANCJ HD -mediated G4-unfolding and refolding proceeded through the same intermediates and mechanism based on the TDPs. The TDP for the bioFANCJ K141/K142A -mediated process shows a reduction in the G2⇔G4 and G3⇔G4 interconversions.
    Ebfret Matlab Library, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ebfret matlab library/product/MathWorks Inc
    Average 90 stars, based on 1 article reviews
    ebfret matlab library - by Bioz Stars, 2026-04
    90/100 stars
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    Mechanism of FANCJ-mediated G4-unfolding and refolding. ( A ) Regions of the single-molecule G4-unfolding FRET time-courses for each FANCJ construct containing FRET transitions were globally analyzed by the ebFRET Matlab suite. The resulting transition density plots (TDPs) for each FANCJ construct show four major FRET states with mean FRET values of 0.13 (ssDNA; 1), 0.32 (G2), 0.49 (G3) and 0.64 (G4). Additional, albeit infrequent state (FRET ≈ 0.73) represents a parallel G-quadruplex (P). The scale bar for transition frequency is shown on the right of each respective TDP where the brighter peaks correspond to more frequent transitions. ( B ) Schematic representation of the TDP, observed FRET states and their corresponding DNA conformations, and transitions. ( C ) FANCJ-, bioFANCJ- and FANCJ HD -mediated G4-unfolding and refolding proceeded through the same intermediates and mechanism based on the TDPs. The TDP for the bioFANCJ K141/K142A -mediated process shows a reduction in the G2⇔G4 and G3⇔G4 interconversions.

    Journal: Nucleic Acids Research

    Article Title: G-quadruplex recognition and remodeling by the FANCJ helicase

    doi: 10.1093/nar/gkw574

    Figure Lengend Snippet: Mechanism of FANCJ-mediated G4-unfolding and refolding. ( A ) Regions of the single-molecule G4-unfolding FRET time-courses for each FANCJ construct containing FRET transitions were globally analyzed by the ebFRET Matlab suite. The resulting transition density plots (TDPs) for each FANCJ construct show four major FRET states with mean FRET values of 0.13 (ssDNA; 1), 0.32 (G2), 0.49 (G3) and 0.64 (G4). Additional, albeit infrequent state (FRET ≈ 0.73) represents a parallel G-quadruplex (P). The scale bar for transition frequency is shown on the right of each respective TDP where the brighter peaks correspond to more frequent transitions. ( B ) Schematic representation of the TDP, observed FRET states and their corresponding DNA conformations, and transitions. ( C ) FANCJ-, bioFANCJ- and FANCJ HD -mediated G4-unfolding and refolding proceeded through the same intermediates and mechanism based on the TDPs. The TDP for the bioFANCJ K141/K142A -mediated process shows a reduction in the G2⇔G4 and G3⇔G4 interconversions.

    Article Snippet: The ebFRET Matlab library was used to statistically determine the number of FRET states observed during the course of G4 melting, and the mean lower bound was used to evaluate the number of states that best described each time series.

    Techniques: Construct