PDX Model DetailsTM00231

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PDX Model Summary

Model Details
Model ID (Previous ID)
TM00231 (LG1197F)
Initial Diagnosis
Lung squamous cell carcinoma
Final Diagnosis
Lung squamous cell carcinoma
Stage/Grade
AJCC IB / 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)
73
Race/Ethnicity
White / Not Hispanic or Latino
Treatment Naïve?
Yes
Current Smoker/Former Smoker
No / Yes

Engraftment
Host Strain
NOD.Cg-Prkdcscid Il2rgtm1Wjl/SzJ
(aka NSG or NOD Scid gamma)
Sample Type
Surgical resection (fragment)
Engraftment Site
no data

Molecular Data (Engrafted Tumor)

Variants

Gene Expression

Platforms: hu133, 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 LG1197F384P0 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:LG1197F384P0 from passage P0     Score:MSI-S

Gene Fusion
Fusion Genes
Sample LG1197F385P0000P1011P2 has fusion genes AC087612.1--TCHH, SMURF2P1--LRRC37B, AC012414.4--AC012414.2, BOLA2B--SMG1P2, CAPN2--CAPN8, TM4SF19--DYNLT2B, PCDHGB2--PCDHGA9, CYTH1--LINC01497, ITGB4--GALK1, XDH--SOS1, BBS7--DNAH8, FAM83G--SLC13A2, TRERF1--C6orf132, TPTEP2--CSNK1E, AC121764.1--WNT5A, TVP23C--CDRT4, NF1--RHOT1, SMBD1P--MUC20P1, FAM117A--MYH8, CAPN8--CAPN2, SVIL--FAM107B, AC105177.1--LINC00536, EVI5--PARM1, FOXN2--GNAL, AC010185.1--CMAS

Model Characterization

Histology

 Summary:
P1 pathology consistent with squamous cell carcinoma.
Pathologist:
Dr. Regina Gandour-Edwards, University of California, Davis for P1.

Patient tumor for PDX model TM00231.
P0 tumor #382 for PDX model TM00231.

P0 tumor #382 for PDX model TM00231; TTF1 marker
P0 tumor #382 for PDX model TM00231; p63 marker

P0 tumor #382 for PDX model TM00231; CK7 marker
P0 tumor #382 for PDX model TM00231; CK5 marker

P1 tumor F385 P1 005 for PDX model TM00231 stained for H&E.
P1 tumor F385 P1 005 for PDX model TM00231 stained for AE1AE3. Staining was positive.

P1 tumor F385 P1 005 for PDX model TM00231 stained for Ki67. Staining was positive.
P1 tumor F385 P1 005 for PDX model TM00231 stained for CD45. Staining was negative.

Dosing Studies

Circos Plots

 no data