Cancer Research Manuscript

Insertions for all genotypes can be downloaded as a .csv file (comma delimited).

NCBI mouse build 37 - insertions built by mouse (identical inserts merged if from same mouse regardless of tissue of origin)

NCBI mouse build 37 - insertions built by tissue (identical inserts merged if from same tissue, this file is only used for the B cell/T cell tumor specificity analysis)

 

Cell Manuscript

Insertions for p53-/-, p19ARF-/- and wild type tumors can be downloaded as a .csv file (comma delimited).

NCBI mouse build 34 This is the build used in the manuscript.

NCBI mouse build 36

NCBI mouse build 37

 

Please note that the positions of some insertions may change between builds

A list of NCBI mouse builds & their UCSD equivalents can be found here.

Fields

chr - chromosome

base - position on the chromosome

ori - orientation of insertion

contig_depth - the number of times each insertion was cloned from a single mouse

sampleID - unique identifier for each PCR reaction

barcode - unique identifier for each mouse

tissueID - unique identifier for each tissue

genoType - genotype of the animal

screenID - unique identifier for entire tumor panel

enzyme - restriction enzyme used to digest DNA for linker mediated PCR

tissueType - tissue from which DNA was isolated

virus - virus used to infect the animal (MoMLV = Moloney murine leukemia virus)

gender - gender of the mouse

CD3 - % anti-CD3 positive cells of homogenized spleen or thymus

B220 - % anti-B220 positive cells of homogenized spleen or thymus

lifeSpan - age of mouse (in days) when it became moribund and tumor was collected

lifeSpanPercentile - percentile of the age of the mouse compared to all other mice of the same genotype

Insertions are isolated by shotgun subcloning. Where the same insertion is identified more than once from a single mouse these are built into contigs and treated as a single insert. In cases where contigs are built from multiple independent PCR reactions (either from the same tissue or from different tissues from the same mouse), the fields for sampleID and tissueID and enzyme may have the values '-1' or 'ambiguous'.