DNA Damage Atlas

GSM2585715-GM12878_CPD_20J_nakedDNA_A

Basic Information Genome Browser Distribution Quantification Visualization Motif Analysis


Basic Information

Manual

Sample ID:   

SRR5461459


Source Project ID:   

GSE98025

Cell Type:   

GM12878


Organism:   

Homo sapiens


Treatment:   

UV (254 nm)


Treatment Time:   

20s


Treatment Dose:   

1J/m2/s


Layout:   

PAIRED


Instrument model:   

Illumina HiSeq 2500


Technique:   

HS-Damage-seq


Others:   

nakedDNA (in vitro damaged)


Fastqc:  



Genome Browser

Manual

  link to genome browser visualization (rDNA locus is firstly shown for human and mouse samples)



Distribution

Manual




Genomic distribution Repeat distribution Top 10 simple repeats


Quantification

Manual

Peak Intensity Top 10 Peaks
Chromosome Start End Summit Intensity Strand
chr163265636332659713326572431.74742+
chrUn_gl0002225846360588598561.60657+
chr21310340951310353241310347241.59273+
chrUn_gl0002161262681289161268271.58005+
chrUn_gl0002242346629069282621.55308+
chrUn_gl0002343447704239501.46317+
chr219415976941841894164231.46261+
chr174419680844197890441969861.44044+
chr199576098268959521.43521+
chr97100280871005071710029631.43071+
Download the Full Peak List


Overlapped Peaks from Replicates




Average Peak Intensity Top 10 Merged Peaks
Chromosome Start End Summit Intensity Strand
chrUn_gl0002343447647639501.79785+
chr121100989841101000821100993241.67718+
chr163265671632659691326572431.65693+
chrUn_gl0002225857660553598561.64826+
chr93909176139093645390930021.56693+
chr17_gl000205_random5657959880583401.54872+
chr163240532032409011324073281.54182+
chr219415976941826494164231.53926+
chrUn_gl0002172904830066295911.5035+
chr11042500101042514381042503551.49294+
Download the Full Merged Peak List


Visualization

Manual



Motif Analysis

Manual





Copyright © 2023 All Rights Reserved by Wu lab