PDX Model DetailsTM00099

PDX Model Summary
Model Details	Model ID (Previous ID) TM00099 (BR1367F) Initial Diagnosis Invasive ductal carcinoma Final Diagnosis Invasive ductal carcinoma Stage/Grade AJCC IIA / Grade:3 Primary Site Breast Sample Site Breast Tumor Type Primary Malignancy
Publications citing this model	Malcolm, J; et al. Factors that influence response classifications in chemotherapy treated patient-derived xenografts (PDX). PeerJ. 2019 Mar 28;7:e6586. 10.7717/peerj.6586
Patient	Sex Female Age (at time of tissue collection) 44 Race/Ethnicity Asian or Pacific Islander / Not Reported Treatment Naïve? No Current Smoker/Former Smoker Unknown / Unknown
Engraftment	Host Strain NOD.Cg-Prkdc^scid Il2rg^tm1Wjl/SzJ (aka NSG or NOD Scid gamma) Sample Type Surgical resection (fragment) Engraftment Site no data

Molecular Data (Engrafted Tumor)
Variants	no variation plots
Gene Expression	Platforms: RNA_Seq, hg10st, stRNA_Seq Hatched bars indicate genes with expression levels determined to be mildly affected by alignment calculations. Details.
Gene CNV
CNV Plots
Tumor Mutation Burden	Sample BR1367F003P6 from passage P6 has a TMB score of 4.85 Sample BR1367F033P0 from passage P0 has a TMB score of 4.85 TMB Range 0.0-304.42 (across all JAX PDX models; TMB > 22 is considered high)
Microsatellite Instability	Sample:BR1367F003P6 from passage P6 Score:MSI-S Sample:BR1367F033P0 from passage P0 Score:MSI-S
Gene Fusion	no data

Model Characterization

Patient tumor for PDX model TM00099.	Patient tumor for PDX model TM00099; PR marker (negative)
Patient tumor for PDX model TM00099; ER marker (negative)	P0 tumor #033 for PDX model TM00099.
P0 tumor #033 for PDX model TM00099; PR marker (negative)	P0 tumor #033 for PDX model TM00099; ER marker (negative)
P0 tumor #033 for PDX model TM00099; HER2 (ERBB2) marker (negative)