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Status |
Public on Aug 05, 2016 |
Title |
HEK_Gibco_3 |
Sample type |
SRA |
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Source name |
cell line
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Organism |
Homo sapiens |
Characteristics |
cell line: NHEK treatment: NA
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Extracted molecule |
total RNA |
Extraction protocol |
See methods section in the associated manuscript See methods section in the associated manuscript
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
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Description |
HEK_Gibco_3
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Data processing |
bcl files were converted to fastq using bcl2fastq v2.15.0.4 with default options. See https://github.com/sblab-bioinformatics/dna-secondary-struct-chrom-lands/blob/master/Methods.md Genome_build: hg19 Supplementary_files_format_and_content: For narrowPeak format see MACS2 documentation at https://github.com/taoliu/MACS/. The text format files are differential binding and differential expression tables with columns: logFC: the log-abundance ratio, i.e. fold change, for each tag in the two groups being compared, logCPM: the log-average concentration/abundance for each tag in the two groups being compared, PValue exact p-value for differential expression using the NB model, FDR the p-value adjusted for multiple testing
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Submission date |
Jan 08, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Dario Beraldi |
E-mail(s) |
dario.beraldi@cruk.cam.ac.uk
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Organization name |
Cambridge Research Institute
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Street address |
Robinson Way
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City |
Cambridge |
ZIP/Postal code |
CB2 0RE |
Country |
United Kingdom |
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Platform ID |
GPL18573 |
Series (1) |
GSE76688 |
G-quadruplex structures mark human regulatory chromatin |
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Relations |
BioSample |
SAMN04393149 |
SRA |
SRX1525717 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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