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Status |
Public on Jul 09, 2013 |
Title |
NT2 input 1 |
Sample type |
SRA |
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Source name |
NT2 input 1
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Organism |
Homo sapiens |
Characteristics |
cell line: Ntera2
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Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted from NT2 cells and was either fragmented using HindIII, EcoRI, BsrGI, XbaI and SspI (DRIP-seq 1) or BamHI, NcoI, ApaLI, NheI and PvuII (DRIP-seq 2). Monoclonal S9.6 antibody was used to enrich for RNA/DNA hybrids. Sequencing library was constructed using standard Illumina protocol.
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Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina HiSeq 2000 |
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Description |
gDNA digested with HindIII, EcoRI, BsrGI, XbaI and SspI
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Data processing |
Library strategy: DRIP-seq Fastq reads were aligned to hg19 using BWA version 0.6.1 Peak calling was performed using MACS 1.4.2 Genome_build: hg19 Supplementary_files_format_and_content: wig files were generated by MACS
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Submission date |
Mar 27, 2013 |
Last update date |
May 15, 2019 |
Contact name |
Yoong Wearn Lim |
E-mail(s) |
ywlim@ucdavis.edu
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Organization name |
University of California, Davis
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Department |
Molecular and Cellular Biology
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Lab |
Chedin
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Street address |
One Shields Avenue
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City |
Davis |
State/province |
CA |
ZIP/Postal code |
95616 |
Country |
USA |
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Platform ID |
GPL11154 |
Series (1) |
GSE45530 |
DNA-RNA Immunoprecipitation sequencing (DRIP-seq) of human NT2 cells |
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Relations |
SRA |
SRX255720 |
BioSample |
SAMN01992769 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data not applicable for this record |
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