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nucleosome array dna  (New England Biolabs)


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    New England Biolabs nucleosome array dna
    Nucleosome Array Dna, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 33541 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/nucleosome+array+dna/T4+DNA+Ligase/pm41309605-323-19-26
    Average 99 stars, based on 33541 article reviews
    nucleosome array dna - by Bioz Stars, 2026-10
    99/100 stars

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    Purification:

    Article Title: Roles of histone chaperone Nap1 and histone acetylation in regulating phase-separation of chromatin arrays
    Article Snippet: .. Two short adapter DNA fragments (Integrated DNA Technologies, Coralville, IA) were ligated to the sticky ends of the purified nucleosome array DNA with T4 DNA ligase (New England Biolabs) at 16 °C for 14 hours followed by inactivation at 65 °C for 20 minutes. ..

    Article Title: Roles of histone chaperone Nap1 and histone acetylation in regulating phase-separation of nucleosome arrays
    Article Snippet: .. Two short adapter DNA fragments (Integrated DNA Technologies, Coralville, IA) were ligated to the sticky ends of the purified nucleosome array DNA with T4 DNA ligase (New England Biolabs) at 16 °C for 14 h followed by inactivation at 65 °C for 20 min. ..

    Article Title: Roles of histone chaperone Nap1 and histone acetylation in regulating phase-separation of nucleosome arrays.
    Article Snippet: .. Two short adapter DNA fragments (Integrated DNA Technologies, Coralville, IA) were ligated to the sticky ends of the purified nucleosome array DNA with T4 DNA ligase (New England Biolabs) at 16 °C for 14 h followed by inactivation at 65 °C for 20min. ..



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    nucleosome array dna  (New England Biolabs)
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    New England Biolabs nucleosome array dna
    Nucleosome Array Dna, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/nucleosome+array+dna/T4+DNA+Ligase/pm41309605-323-19-26
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    nucleosomal array strands  (New England Biolabs)
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    New England Biolabs nucleosomal array strands
    ( A ) Work-flow of Total Internal Reflection Fluorescence (TIRF) microscopy assay to study competition of PRC1 and SWI/SNF for access to <t>nucleosomal</t> arrays (see Methods for details). ( B ) Representative TIRF micrographs of nucleosomal arrays (yellow), SWI/SNF (cyan), and PRC1 (pink) 30 minutes after all were mixed simultaneously. The scale bar is 5 μm. ( C ) Line scan of intensities of the images in B along the dotted line. ( D ) Schematics showing the order of mixing for nucleosomal arrays, SWI/SNF, and PRC1. ( E ) Example TIRF micrographs of nucleosomal arrays, SWI/SNF, and PRC1 with PHC2 WT or PHC2 L307R . The scale bar is 10 μm. ( F ) Change of average PRC1 intensities on nucleosomal arrays over time. ( G ) Ratio of PRC1 to SWI/SNF molecules bound to nucleosomal arrays over time. ( F, G ) Error bars are standard error of the mean of four technical replicates. For each condition 12,000 to >130,000 spots have been analyzed.
    Nucleosomal Array Strands, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    ( A ) Work-flow of Total Internal Reflection Fluorescence (TIRF) microscopy assay to study competition of PRC1 and SWI/SNF for access to nucleosomal arrays (see Methods for details). ( B ) Representative TIRF micrographs of nucleosomal arrays (yellow), SWI/SNF (cyan), and PRC1 (pink) 30 minutes after all were mixed simultaneously. The scale bar is 5 μm. ( C ) Line scan of intensities of the images in B along the dotted line. ( D ) Schematics showing the order of mixing for nucleosomal arrays, SWI/SNF, and PRC1. ( E ) Example TIRF micrographs of nucleosomal arrays, SWI/SNF, and PRC1 with PHC2 WT or PHC2 L307R . The scale bar is 10 μm. ( F ) Change of average PRC1 intensities on nucleosomal arrays over time. ( G ) Ratio of PRC1 to SWI/SNF molecules bound to nucleosomal arrays over time. ( F, G ) Error bars are standard error of the mean of four technical replicates. For each condition 12,000 to >130,000 spots have been analyzed.

    Journal: bioRxiv

    Article Title: Mutual Antagonism Between PRC1 Condensates and SWI/SNF in Chromatin Regulation

    doi: 10.1101/2025.08.25.672128

    Figure Lengend Snippet: ( A ) Work-flow of Total Internal Reflection Fluorescence (TIRF) microscopy assay to study competition of PRC1 and SWI/SNF for access to nucleosomal arrays (see Methods for details). ( B ) Representative TIRF micrographs of nucleosomal arrays (yellow), SWI/SNF (cyan), and PRC1 (pink) 30 minutes after all were mixed simultaneously. The scale bar is 5 μm. ( C ) Line scan of intensities of the images in B along the dotted line. ( D ) Schematics showing the order of mixing for nucleosomal arrays, SWI/SNF, and PRC1. ( E ) Example TIRF micrographs of nucleosomal arrays, SWI/SNF, and PRC1 with PHC2 WT or PHC2 L307R . The scale bar is 10 μm. ( F ) Change of average PRC1 intensities on nucleosomal arrays over time. ( G ) Ratio of PRC1 to SWI/SNF molecules bound to nucleosomal arrays over time. ( F, G ) Error bars are standard error of the mean of four technical replicates. For each condition 12,000 to >130,000 spots have been analyzed.

    Article Snippet: These labeled dsDNA fragments were ligated to the nucleosomal array strands using T4 DNA ligase (NEB, M0202S) by incubating at 16 °C overnight, with the dsDNA added in 8-fold molar excess relative to the array DNA.

    Techniques: Fluorescence, Microscopy

    ( A ) Schematics of different CBX constructs. ( B ) Representative TIRF micrographs of nucleosomal arrays (yellow), SWI/SNF (cyan), and PRC1 (pink) with different CBX subunits. The scale bar is 10 μm. ( C ) Intensity histograms of PRC1 with different CBX subunits with 0 or 20 nM SWI/SNF. ( D ) Ratio of PRC1 to SWI/SNF molecules bound to nucleosomal arrays of PRC1 with different CBX subunits in the presence of 20 nM SWI/SNF. ( C, D ) For each condition 33,000 to >59,000 spots were analyzed. Data are representative of at least two technical replicates. ( E ) Schematic of Restriction Enzyme Accessibility (REA) assay. ( F, G ) Percentage of nucleosomal array cutting in REA assay for different PRC1 compositions. Opaque area is standard error of the mean of three replicates.

    Journal: bioRxiv

    Article Title: Mutual Antagonism Between PRC1 Condensates and SWI/SNF in Chromatin Regulation

    doi: 10.1101/2025.08.25.672128

    Figure Lengend Snippet: ( A ) Schematics of different CBX constructs. ( B ) Representative TIRF micrographs of nucleosomal arrays (yellow), SWI/SNF (cyan), and PRC1 (pink) with different CBX subunits. The scale bar is 10 μm. ( C ) Intensity histograms of PRC1 with different CBX subunits with 0 or 20 nM SWI/SNF. ( D ) Ratio of PRC1 to SWI/SNF molecules bound to nucleosomal arrays of PRC1 with different CBX subunits in the presence of 20 nM SWI/SNF. ( C, D ) For each condition 33,000 to >59,000 spots were analyzed. Data are representative of at least two technical replicates. ( E ) Schematic of Restriction Enzyme Accessibility (REA) assay. ( F, G ) Percentage of nucleosomal array cutting in REA assay for different PRC1 compositions. Opaque area is standard error of the mean of three replicates.

    Article Snippet: These labeled dsDNA fragments were ligated to the nucleosomal array strands using T4 DNA ligase (NEB, M0202S) by incubating at 16 °C overnight, with the dsDNA added in 8-fold molar excess relative to the array DNA.

    Techniques: Construct

    ( A ) Schematics showing the order of mixing for nucleosomal arrays, SWI/SNF, and PRC1. ( B ) Representative TIRF micrographs when SWI/SNF (cyan) and PRC1 (pink) are added to nucleosomal arrays (yellow) in different orders. The scale bar is 10 μm. ( C ) Intensity histograms of PRC1 and SWI/SNF for different order of addition. ( D ) Percentage of PRC1 molecules in condensates when SWI/SNF (pink) or PRC1 (purple) were added first to nucleosomal arrays. ( C, D ) For each condition 29,000 to >105,000 spots were analyzed. Data are representative of at least two technical replicates. ( E ) Representative epifluorescence microscopy micrographs when SWI/SNF and PRC1 are added to nucleosomal arrays in different orders for PRC1 complexes with PHC2 WT or PHC2 L307R . The scale bar is 5 μm. ( F ) Bar graphs of PRC1 intensity change for data as shown in E . Error bars are standard error of the mean of four technical replicates. For each condition 1,400 to >11,000 spots were analyzed.

    Journal: bioRxiv

    Article Title: Mutual Antagonism Between PRC1 Condensates and SWI/SNF in Chromatin Regulation

    doi: 10.1101/2025.08.25.672128

    Figure Lengend Snippet: ( A ) Schematics showing the order of mixing for nucleosomal arrays, SWI/SNF, and PRC1. ( B ) Representative TIRF micrographs when SWI/SNF (cyan) and PRC1 (pink) are added to nucleosomal arrays (yellow) in different orders. The scale bar is 10 μm. ( C ) Intensity histograms of PRC1 and SWI/SNF for different order of addition. ( D ) Percentage of PRC1 molecules in condensates when SWI/SNF (pink) or PRC1 (purple) were added first to nucleosomal arrays. ( C, D ) For each condition 29,000 to >105,000 spots were analyzed. Data are representative of at least two technical replicates. ( E ) Representative epifluorescence microscopy micrographs when SWI/SNF and PRC1 are added to nucleosomal arrays in different orders for PRC1 complexes with PHC2 WT or PHC2 L307R . The scale bar is 5 μm. ( F ) Bar graphs of PRC1 intensity change for data as shown in E . Error bars are standard error of the mean of four technical replicates. For each condition 1,400 to >11,000 spots were analyzed.

    Article Snippet: These labeled dsDNA fragments were ligated to the nucleosomal array strands using T4 DNA ligase (NEB, M0202S) by incubating at 16 °C overnight, with the dsDNA added in 8-fold molar excess relative to the array DNA.

    Techniques: Epifluorescence Microscopy

    ( A ) Cartoon of SWI/SNF with different ATPase mutations. ( B ) Percentage of nucleosomal array cutting in REA assay for different SWI/SNF complexes. Opaque area is standard error of the mean of three replicates. ( C ) Representative TIRF micrographs of nucleosomal arrays, PRC1, and different SWI/SNF complexes when PRC1 is added first. The scale bar is 10 μm. ( D, E ) Box plot of fold change of ( D ) PRC1 and ( E ) SWI/SNF intensity. ( F ) Violin plots of the ratio of PRC1 to SWI/SNF molecules bound to nucleosomal arrays. The orange line indicates when SWI/SNF and PRC1 molecules are present in equal numbers on nucleosomal arrays. ( D-F ) Data are representative of at least two technical replicates. For each condition 44,000 to >98,000 spots were analyzed.

    Journal: bioRxiv

    Article Title: Mutual Antagonism Between PRC1 Condensates and SWI/SNF in Chromatin Regulation

    doi: 10.1101/2025.08.25.672128

    Figure Lengend Snippet: ( A ) Cartoon of SWI/SNF with different ATPase mutations. ( B ) Percentage of nucleosomal array cutting in REA assay for different SWI/SNF complexes. Opaque area is standard error of the mean of three replicates. ( C ) Representative TIRF micrographs of nucleosomal arrays, PRC1, and different SWI/SNF complexes when PRC1 is added first. The scale bar is 10 μm. ( D, E ) Box plot of fold change of ( D ) PRC1 and ( E ) SWI/SNF intensity. ( F ) Violin plots of the ratio of PRC1 to SWI/SNF molecules bound to nucleosomal arrays. The orange line indicates when SWI/SNF and PRC1 molecules are present in equal numbers on nucleosomal arrays. ( D-F ) Data are representative of at least two technical replicates. For each condition 44,000 to >98,000 spots were analyzed.

    Article Snippet: These labeled dsDNA fragments were ligated to the nucleosomal array strands using T4 DNA ligase (NEB, M0202S) by incubating at 16 °C overnight, with the dsDNA added in 8-fold molar excess relative to the array DNA.

    Techniques: