Antigen

Antigen Class

ATAC-Seq

Antigen

ATAC-Seq

Cell type

Cell type Class

Others

Cell type

Neoplasm Metastasis

MeSH Description

The transfer of a neoplasm from one organ or part of the body to another remote from the primary site.

Sample

source_name

lymph node metastasis

tissue

lymph node metastasis

genotype

Trp53-/-;Rb1-/-;p130-/-;R26mG

expression vector

Ad-CMV-Cre

not included for low atac-seq enrichment

FALSE

nfib amplification

TRUE

sequencing batch

3

sample prep batch

3

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

Cells were lysed, incubated with Tn5 transposase, and purified with Qiagen MinElute kit. Sequencing libraries were constructed using a modified version of the Illumina Nextera DNA Sample prep kit, as per Buenrostro et al. (2013).

Sequencing Platform

instrument_model

NextSeq 500

mm10

Number of total reads

23119365

Reads aligned (%)

69.2

Duplicates removed (%)

26.4

Number of peaks

19688 (qval < 1E-05)

mm9

Number of total reads

23119365

Reads aligned (%)

69.2

Duplicates removed (%)

26.4

Number of peaks

19680 (qval < 1E-05)