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| Status |
Public on Jul 18, 2024 |
| Title |
NT_TNF_IL1_IFN_2 |
| Sample type |
SRA |
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| Source name |
Peripheral Blood
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| Organism |
Homo sapiens |
| Characteristics |
tissue: Peripheral Blood
cell type: Cd14+ Monocyte
treatment: TNF, Il1b, IFNa
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Nuclei are isolated by Lysis buffer(10 mM Tris-HCL, pH7.4, 10mM NaCl, 3mM MgCl2, 0.1% NP40)
ATAC-seq library was constructed by using illumina Tag DNA Enzyme & Buffer kit.
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| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Raw fastq file is trimmed by skewer to get eliminate adaptor sequence of TN5
trimmed fastq file is aligned on Hg19 reference genome by bowtie 2 software
Homer software constructed Tag directories based on aligned bam files
Homer software transformed Tag directories to bedgraph
Assembly: hg19
Supplementary files format and content: bedgraph.gz
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| Submission date |
Oct 10, 2023 |
| Last update date |
Jul 18, 2024 |
| Contact name |
Wonhyo Lee |
| E-mail(s) |
wonhyo6446@unist.ac.kr
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| Organization name |
UNIST
|
| Department |
Biological Sciences
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| Street address |
Unist-gil 50
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| City |
Ulju-gun |
| State/province |
Ulsan |
| ZIP/Postal code |
44919 |
| Country |
South Korea |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE244965 |
Longitudinal Immune Profiling and Corticosteroid Modulation of the Immediate Innate Immune Response to ChAdOx1 nCoV-19 |
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| Relations |
| BioSample |
SAMN37751295 |
| SRA |
SRX22045407 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7832843_NT_TNF_IL1_IFN_2.bedgraph.gz |
55.7 Mb |
(ftp)(http) |
BEDGRAPH |
SRA Run Selector |
| Raw data are available in SRA |
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