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Base-resolution detection of N4-methylcytosine in genomic DNA using 4mC-TAB-seq

N4-methylcytosine is a major DNA modification integral to restriction-modification (R-M) systems in bacterial genomes. Here we describe 4mC-Tet-Assisted Bisulfite-sequencing (4mC-TAB-seq), a method that accurately and rapidly reveals the genome-wide...

Species: Caldicellulosiruptor kristjanssonii; synthetic constructType: Methylation profiling by high throughput sequencing

Dataset: GSE63371

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Items: 10

1.

Base-resolution detection of N4-methylcytosine in genomic DNA using 4mC-TAB-seq

(Submitter supplied) N4-methylcytosine is a major DNA modification integral to restriction-modification (R-M) systems in bacterial genomes. Here we describe 4mC-Tet-Assisted Bisulfite-sequencing (4mC-TAB-seq), a method that accurately and rapidly reveals the genome-wide locations of N4-methylcytosines at single-base resolution. By coupling Tet-mediated oxidation with a modified sodium bisulfite conversion reaction, unmodified cytosines and 5-methylcytosines are read out as thymines, whereas N4-methylcytosines are read out as cytosines revealing their positions throughout the genome.
Organism:
Caldicellulosiruptor kristjanssonii; synthetic construct
Type:
Methylation profiling by high throughput sequencing
Platforms:
GPL19424 GPL19423
7 Samples
Download data: TSV
Series
Accession:
GSE63371
ID:
200063371
2.

Illumina NextSeq 500 (synthetic construct)

Organism:
synthetic construct
25 Series
308 Samples
Download data
Platform
Accession:
GPL19424
ID:
100019424
3.

Illumina NextSeq 500 (Caldicellulosiruptor kristjanssonii)

Organism:
Caldicellulosiruptor kristjanssonii
1 Series
2 Samples
Download data
Platform
Accession:
GPL19423
ID:
100019423
4.

C. kristjanssonii Tet treated

Organism:
Caldicellulosiruptor kristjanssonii
Source name:
genomic DNA
Platform:
GPL19423
Series:
GSE63371
Download data: TSV
Sample
Accession:
GSM1547607
ID:
301547607
5.

C. kristjanssonii untreated

Organism:
Caldicellulosiruptor kristjanssonii
Source name:
genomic DNA
Platform:
GPL19423
Series:
GSE63371
Download data: TSV
Sample
Accession:
GSM1547606
ID:
301547606
6.

76 mer control 100%

Organism:
synthetic construct
Source name:
pUC19 vector DNA
Platform:
GPL19424
Series:
GSE63371
Download data
Sample
Accession:
GSM1547612
ID:
301547612
7.

76 mer control 75%

Organism:
synthetic construct
Source name:
pUC19 vector DNA
Platform:
GPL19424
Series:
GSE63371
Download data
Sample
Accession:
GSM1547611
ID:
301547611
8.

76 mer control 50%

Organism:
synthetic construct
Source name:
pUC19 vector DNA
Platform:
GPL19424
Series:
GSE63371
Download data
Sample
Accession:
GSM1547610
ID:
301547610
9.

76 mer control 25%

Organism:
synthetic construct
Source name:
pUC19 vector DNA
Platform:
GPL19424
Series:
GSE63371
Download data
Sample
Accession:
GSM1547609
ID:
301547609
10.

76 mer control 0%

Organism:
synthetic construct
Source name:
pUC19 vector DNA
Platform:
GPL19424
Series:
GSE63371
Download data
Sample
Accession:
GSM1547608
ID:
301547608
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Supplemental Content

db=gds|term=GSE63371|query=1|qty=3|blobid=NCID_1_182382367_130.14.22.33_9001_1568709292_664969458_0MetA0_S_MegaStore_F_1|ismultiple=true|min_list=5|max_list=20|def_tree=20|def_list=|def_view=|url=/Taxonomy/backend/subset.cgi?|trace_url=/stat?
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