dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii buffer
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii buffer
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
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    dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii buffer
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
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    dpnii buffer - by Bioz Stars, 2023-01
    94/100 stars

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    dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii buffer
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
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    x nebuffer dpnii  (New England Biolabs)


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    New England Biolabs x nebuffer dpnii
    X Nebuffer Dpnii, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/x nebuffer dpnii/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
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    x nebuffer dpnii - by Bioz Stars, 2023-01
    94/100 stars

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    dpnii and dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii and dpnii buffer

    Dpnii And Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii and dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    dpnii and dpnii buffer - by Bioz Stars, 2023-01
    94/100 stars

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    1) Product Images from "Stem cell niche organization in the Drosophila ovary requires the ECM component Perlecan"

    Article Title: Stem cell niche organization in the Drosophila ovary requires the ECM component Perlecan

    Journal: Current Biology

    doi: 10.1016/j.cub.2021.01.071


    Figure Legend Snippet:

    Techniques Used: Plasmid Preparation, Electron Microscopy, Purification, Ligation, Software, Sequencing

    dpnii restriction buffer  (New England Biolabs)


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    New England Biolabs dpnii restriction buffer
    Dpnii Restriction Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii restriction buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    dpnii restriction buffer - by Bioz Stars, 2023-01
    94/100 stars

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    dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii buffer
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    dpnii buffer - by Bioz Stars, 2023-01
    94/100 stars

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    dpnii and dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii and dpnii buffer
    KEY RESOURCES TABLE
    Dpnii And Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii and dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    dpnii and dpnii buffer - by Bioz Stars, 2023-01
    94/100 stars

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    1) Product Images from "μDamID: A Microfluidic Approach for Joint Imaging and Sequencing of Protein-DNA Interactions in Single Cells"

    Article Title: μDamID: A Microfluidic Approach for Joint Imaging and Sequencing of Protein-DNA Interactions in Single Cells

    Journal: Cell systems

    doi: 10.1016/j.cels.2020.08.015

    KEY RESOURCES TABLE
    Figure Legend Snippet: KEY RESOURCES TABLE

    Techniques Used: Recombinant, Purification, Polymerase Chain Reaction, Isolation, Sequencing, Multiplex Assay, Plasmid Preparation, Modification, Software

    dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii buffer
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    dpnii buffer - by Bioz Stars, 2023-01
    94/100 stars

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    dpnii buffer  (New England Biolabs)


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    New England Biolabs dpnii buffer
    Multiplexed Integrated Accessibility Assay (MIAA) measures <t>local</t> <t>DNA</t> accessibility of synthesized oligonucleotide phrase libraries. A) 100nt phrases are integrated into stem cells at a designated genomic locus. Stem cells are split and half are differentiated into definitive endoderm cells. Retinoic acid receptor fused to hyper-activated deoxyadenosine methylase (DAM) enzyme results in methylation of phrases that open DNA. DNA is extracted and half is exposed to <t>DpnII,</t> which cleaves unmethylated sequences, while half is exposed to DpnI, which cleaves methylated sequences. Sequences are PCR amplified and sequenced. B) DpnI and DpnII read counts measured from a single definitive endoderm replicate show difference between designed opening and closing phrases. C) Proportion of DpnII read counts measured from a single definitive endoderm replicate gives estimate of MIAA openness. D) 100nt native sequences that were differentially opening as measured by DNase-seq are differentially opening as measured by MIAA and different from randomly shuffled control sequences (significance measured by paired t-test). E) Differential accessibility as measured by log change in normalized DNase-seq reads and MIAA methylation proportion shows correlation between native differential accessibility and MIAA accessibility. The correlation reported is the Pearson correlation coefficient (r).
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/dpnii buffer/product/New England Biolabs
    Average 94 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    dpnii buffer - by Bioz Stars, 2023-01
    94/100 stars

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    1) Product Images from "Identification of determinants of differential chromatin accessibility through a massively parallel genome-integrated reporter assay"

    Article Title: Identification of determinants of differential chromatin accessibility through a massively parallel genome-integrated reporter assay

    Journal: bioRxiv

    doi: 10.1101/2020.03.02.973396

    Multiplexed Integrated Accessibility Assay (MIAA) measures local DNA accessibility of synthesized oligonucleotide phrase libraries. A) 100nt phrases are integrated into stem cells at a designated genomic locus. Stem cells are split and half are differentiated into definitive endoderm cells. Retinoic acid receptor fused to hyper-activated deoxyadenosine methylase (DAM) enzyme results in methylation of phrases that open DNA. DNA is extracted and half is exposed to DpnII, which cleaves unmethylated sequences, while half is exposed to DpnI, which cleaves methylated sequences. Sequences are PCR amplified and sequenced. B) DpnI and DpnII read counts measured from a single definitive endoderm replicate show difference between designed opening and closing phrases. C) Proportion of DpnII read counts measured from a single definitive endoderm replicate gives estimate of MIAA openness. D) 100nt native sequences that were differentially opening as measured by DNase-seq are differentially opening as measured by MIAA and different from randomly shuffled control sequences (significance measured by paired t-test). E) Differential accessibility as measured by log change in normalized DNase-seq reads and MIAA methylation proportion shows correlation between native differential accessibility and MIAA accessibility. The correlation reported is the Pearson correlation coefficient (r).
    Figure Legend Snippet: Multiplexed Integrated Accessibility Assay (MIAA) measures local DNA accessibility of synthesized oligonucleotide phrase libraries. A) 100nt phrases are integrated into stem cells at a designated genomic locus. Stem cells are split and half are differentiated into definitive endoderm cells. Retinoic acid receptor fused to hyper-activated deoxyadenosine methylase (DAM) enzyme results in methylation of phrases that open DNA. DNA is extracted and half is exposed to DpnII, which cleaves unmethylated sequences, while half is exposed to DpnI, which cleaves methylated sequences. Sequences are PCR amplified and sequenced. B) DpnI and DpnII read counts measured from a single definitive endoderm replicate show difference between designed opening and closing phrases. C) Proportion of DpnII read counts measured from a single definitive endoderm replicate gives estimate of MIAA openness. D) 100nt native sequences that were differentially opening as measured by DNase-seq are differentially opening as measured by MIAA and different from randomly shuffled control sequences (significance measured by paired t-test). E) Differential accessibility as measured by log change in normalized DNase-seq reads and MIAA methylation proportion shows correlation between native differential accessibility and MIAA accessibility. The correlation reported is the Pearson correlation coefficient (r).

    Techniques Used: Synthesized, Methylation, Amplification

    MIAA identifies global influence of GC-content and differentially accessible motifs. A) GC-content observed to be correlated with accessibility in both stem and endoderm cells from positive (universally opening) and negative (universally closing) control sequences. B) GC-content correlated with accessibility in random DNA phrases. The regression model was trained on MIAA Dpn proportions with GC-content, replicate, and cell type-specific effects of 20 motifs and 26 motif pairs as features, and predicts well on (C) training data (n = 21,420) and (D) held-out test data (n = 4,404). The correlation reported is the Pearson correlation coefficient (r). E) Regression weights of individual motifs and motif pairs in stem and definitive endoderm cells. Hierarchical clustering of regression weights followed by motif enrichment recovers clusters representing cell type-specific transcription factor DNA binding motifs. F) Example of individual motifs (left, middle) which alone do not differentially open chromatin, but differentially open chromatin stem cells in combination (right). Each dot represents the average DpnII read proportion of an individual phrase, compared to shuffled controls (CTRL). Significance computed by paired t-test.
    Figure Legend Snippet: MIAA identifies global influence of GC-content and differentially accessible motifs. A) GC-content observed to be correlated with accessibility in both stem and endoderm cells from positive (universally opening) and negative (universally closing) control sequences. B) GC-content correlated with accessibility in random DNA phrases. The regression model was trained on MIAA Dpn proportions with GC-content, replicate, and cell type-specific effects of 20 motifs and 26 motif pairs as features, and predicts well on (C) training data (n = 21,420) and (D) held-out test data (n = 4,404). The correlation reported is the Pearson correlation coefficient (r). E) Regression weights of individual motifs and motif pairs in stem and definitive endoderm cells. Hierarchical clustering of regression weights followed by motif enrichment recovers clusters representing cell type-specific transcription factor DNA binding motifs. F) Example of individual motifs (left, middle) which alone do not differentially open chromatin, but differentially open chromatin stem cells in combination (right). Each dot represents the average DpnII read proportion of an individual phrase, compared to shuffled controls (CTRL). Significance computed by paired t-test.

    Techniques Used: Binding Assay

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    New England Biolabs dpnii buffer
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    x nebuffer dpnii  (New England Biolabs)
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    New England Biolabs x nebuffer dpnii
    X Nebuffer Dpnii, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    dpnii and dpnii buffer  (New England Biolabs)
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    New England Biolabs dpnii and dpnii buffer

    Dpnii And Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    dpnii restriction buffer  (New England Biolabs)
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    New England Biolabs dpnii restriction buffer

    Dpnii Restriction Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Journal: Current Biology

    Article Title: Stem cell niche organization in the Drosophila ovary requires the ECM component Perlecan

    doi: 10.1016/j.cub.2021.01.071

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    Article Snippet: DpnII and DpnII buffer , NEB , Cat# R0543S.

    Techniques: Plasmid Preparation, Electron Microscopy, Purification, Ligation, Software, Sequencing