PDX Model DetailsTM00208

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PDX Model Summary
Model Details	Model ID (Previous ID) TM00208 (LG0830F) Initial Diagnosis Lung squamous cell carcinoma Final Diagnosis Lung squamous cell carcinoma Stage/Grade AJCC IIIA / Grade:2 Primary Site Lung Sample Site Lung 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 Male Age (at time of tissue collection) 65 Race/Ethnicity White / Not Hispanic or Latino Treatment Naïve? Yes Current Smoker/Former Smoker No / Yes
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 Hatched bars indicate genes with expression levels determined to be mildly affected by alignment calculations. Details.
Gene CNV
CNV Plots
Tumor Mutation Burden	Sample LG0830F1385P0 from passage P0 has a TMB score of 9.69 TMB Range 0.0-304.42 (across all JAX PDX models; TMB > 22 is considered high)
Microsatellite Instability	Sample:LG0830F1385P0 from passage P0 Score:MSI-S
Gene Fusion	no data

Model Characterization

Histology

Summary:
P0 pathology consistent with squamous cell carcinoma. P2 pathology consistent with squamous cell carcinoma. Tumor was 60% necrotic.
Pathologist:
Dr. Regina Gandour-Edwards, University of California, Davis. P2 images done by Dr. Dorina Gui, University of California, Davis.

Patient tumor for PDX model TM00208. Sheets of highly pleomorphic, undifferentiated cells .	P0 tumor #1381 for PDX model TM00208. Sheets of pleomorphic cells with squamous differentiation.
P2 tumor F1381 ID012 for PDX model TM00208 stained for H&E.	P2 tumor F1381 ID012 for PDX model TM00208 stained for AE1AE3. Staining was positive.
P2 tumor F1381 ID012 for PDX model TM00208 stained for CD45. Staining was negative.	P2 tumor F1381 ID012 for PDX model TM00208 stained for Ki67. Staining was positive.