DNA Damage Atlas

SRX1865405-END-seq-preB-LIG4-2

Basic Information Genome Browser Telomere Analysis Distribution Quantification Visualization Motif Analysis


Basic Information

Manual

Sample ID:   

SRR3703254


Source Project ID:   

PRJNA326246

Cell Type:   

Pre-B cell


Organism:   

Mus musculus


Genotype:   

Lig4-/-


In-situ Treatment:   

Exo VII + Exo T


Spike-in Intensity:   

no spike in


Layout:   

SINGLE


Instrument model:   

Illumina HiSeq 2000


Technique:   

END-seq


Fastqc:  



Genome Browser

Manual

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



Telomere Analysis

Manual

Ratio of (G-rich strand/C-rich strand): 0.007806


Distribution

Manual




Genomic distribution Repeat distribution Top 10 simple repeats


Quantification

Manual

Peak Intensity Top 10 Peaks
Chromosome Start End Summit Intensity Strand
chr11924538891924542801924540787275.16+
chr121055245811055249911055247495974.31+
chr99542575695426182954259267580.62+
chr109487200294872372948721484375.23+
chr169378903793789834937891984149.49+
chr149091104390911431909112137270.94+
chr186510385365104243651040414108.65+
chr21950917019509567195093315002.36+
chr165709004570940557091925150.25+
chrY4036475403690540366337809.42+
Download the Full Peak List


Overlapped Peaks from Replicates




Average Peak Intensity Top 10 Merged Peaks
Chromosome Start End Summit Intensity Strand
chrY40364754036905403663312866.8+
chr510617662510617701810617680012672.5+
chr995425764954261829542592612598.9+
chr1657090045709405570919212448.3+
chr119245388919245428019245407812165.2+
chr1490911043909114319091121312014.5+
chr1693789040937895409378919810964.9+
chr1210552460910552499110552474910505.2+
chr1353269758532701525326992210314.3+
chr1241514963415153474151511310206.3+
Download the Full Merged Peak List


Visualization

Manual



Motif Analysis

Manual





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