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  • 99
    Kapa Biosystems adapter ligated dna library
    Adapter Ligated Dna Library, supplied by Kapa Biosystems, used in various techniques. Bioz Stars score: 99/100, based on 451 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    New England Biolabs adapter ligation nebnext dna library prep modules for illumina
    Adapter Ligation Nebnext Dna Library Prep Modules For Illumina, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 12 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    New England Biolabs adapter ligation
    Adapter Ligation, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1412 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Bio-Rad adapter ligated dna fragments
    Adapter Ligated Dna Fragments, supplied by Bio-Rad, used in various techniques. Bioz Stars score: 94/100, based on 19 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc adapter ligated dna molecules
    Adapter Ligated Dna Molecules, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 91/100, based on 13 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Millipore adapter ligated dna
    Adapter Ligated Dna, supplied by Millipore, used in various techniques. Bioz Stars score: 99/100, based on 21 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc illumina adapter ligated dna
    Illumina Adapter Ligated Dna, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 85/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc phix genomic adapter ligated dna control library
    Phix Genomic Adapter Ligated Dna Control Library, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 93/100, based on 26 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Illumina Inc adapter ligated dna fragments
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Adapter Ligated Dna Fragments, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 89/100, based on 64 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    91
    Thermo Fisher adapter ligated dna
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Adapter Ligated Dna, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 91/100, based on 153 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    99
    Thermo Fisher adapters
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Adapters, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 251 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher ion torrent adapter ligated dna
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Ion Torrent Adapter Ligated Dna, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 88/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    97
    Kapa Biosystems bisulfite converted adapter ligated dna kapa hifi uracil
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Bisulfite Converted Adapter Ligated Dna Kapa Hifi Uracil, supplied by Kapa Biosystems, used in various techniques. Bioz Stars score: 97/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Thermo Fisher ngs ion torrent adapter ligated dna libraries
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Ngs Ion Torrent Adapter Ligated Dna Libraries, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 93/100, based on 6 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    New England Biolabs quick ligation kit
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Quick Ligation Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 4509 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    New England Biolabs y adapter gu y frag
    Co-localization of <t>5hmC</t> with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified <t>DNA;</t> therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P
    Y Adapter Gu Y Frag, 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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    Image Search Results


    Co-localization of 5hmC with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified DNA; therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P

    Journal: Genome Biology

    Article Title: 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells

    doi: 10.1186/gb-2011-12-6-r54

    Figure Lengend Snippet: Co-localization of 5hmC with enhancers . (a) 5hmC over enhancers in hESCs. 5hmC peak density was plotted over predicted hESC enhancers [ 9 , 21 ] in 100-bp windows. (b) Verfication of 5hmC at enhancers by measuring 5hmC levels at CCGG sites. Four 5hmC peaks at enhancers and two control regions were tested. MspI cannot cut glucosylated-5hmC but is able to cut 5hmC; therefore, copy numbers of MspI + beta-glucosyltransferase (BGT) represent 5hmC levels. On the other hand, HpaII can only cut unmodified DNA; therefore, copy numbers represent 5hmC + 5mC levels. Background signal was subtracted from the copy number of each sample and then normalized to the undigested glucosylated sample. Genomic locations of tested cytosines are indicated. Error bars represent the standard deviation. (c) Histone modifications over 5hmC peaks. The overlap of 5hmC peaks with previously defined H3K4me1- and H3K27ac-enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as 5hmC peaks were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (d) Histone modifications over 5hmC-marked enhancers. Predicted enhancers that overlapped with 5hmC peaks were selected. The overlap of these 5hmC-marked enhancers, as well as all predicted enhancers, with previously defined H3K4me1 and H3K27ac enriched regions [ 12 ] was calculated. Random regions with the same number and size distribution as the enhancers were generated and overlap with histone modifications was calculated 100 times. Error bars represent standard deviation. (e) hESC-specific expressed genes significantly overlap with 5hmC peaks. hESC-specific genes were defined as genes that were expressed in hESCs (reads per kilobase of exon model per million mapped reads (RPKM) ≥ 0.5) and silent in IMR90 cells (RPKM = 0) using published RNA-seq data [ 9 ]. * P

    Article Snippet: Hydroxymethyl-DNA immunoprecipitation and Illumina library generation/sequencing hmeDIP experiments were performed on HSF1 hESCs as previously described [ ] using commercial antibodies specific to 5hmC, except that Illumina adapter ligated DNA fragments were used as the input for the immunoprecipitation.

    Techniques: Standard Deviation, Generated, RNA Sequencing Assay

    High resolution map of hydroxymethylcytosine in human embryonic stem cells . (a) Genome-browser view of hmeDIP-seq data. Two hmeDIP-seq datasets along with input DNA and 'no antibody' controls are shown. Each track is represented as normalized density of reads (reads/bp/million uniquely mapping reads). (b) Gene density (genes/bp) and 5hmC peak density (peaks/bp) in chromosome 3. (c) 5hmC over genes with different expression levels. 5hmC peak density was plotted over RefSeq genes in 300-bp bins. Plots were smoothed by taking the moving average over ± 2 bins. Published RNA sequencing data [ 9 ] were used to rank the genes. TSS, transcription start site; TTS, transcription termination site.

    Journal: Genome Biology

    Article Title: 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells

    doi: 10.1186/gb-2011-12-6-r54

    Figure Lengend Snippet: High resolution map of hydroxymethylcytosine in human embryonic stem cells . (a) Genome-browser view of hmeDIP-seq data. Two hmeDIP-seq datasets along with input DNA and 'no antibody' controls are shown. Each track is represented as normalized density of reads (reads/bp/million uniquely mapping reads). (b) Gene density (genes/bp) and 5hmC peak density (peaks/bp) in chromosome 3. (c) 5hmC over genes with different expression levels. 5hmC peak density was plotted over RefSeq genes in 300-bp bins. Plots were smoothed by taking the moving average over ± 2 bins. Published RNA sequencing data [ 9 ] were used to rank the genes. TSS, transcription start site; TTS, transcription termination site.

    Article Snippet: Hydroxymethyl-DNA immunoprecipitation and Illumina library generation/sequencing hmeDIP experiments were performed on HSF1 hESCs as previously described [ ] using commercial antibodies specific to 5hmC, except that Illumina adapter ligated DNA fragments were used as the input for the immunoprecipitation.

    Techniques: Expressing, RNA Sequencing Assay