PDX Model DetailsJ000105006

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PDX Model Summary

Model Details
Model ID
J000105006
Initial Diagnosis
Squamous cell carcinoma
Final Diagnosis
Squamous cell carcinoma
Stage/Grade
/ Grade:2
Primary Site
Bladder
Sample Site
Bladder
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)
73
Race/Ethnicity
White / Not Hispanic or Latino
Treatment Naïve?
Unknown
Current Smoker/Former Smoker
no data

Engraftment
Host Strain
NOD.Cg-Prkdcscid Il2rgtm1Wjl/SzJ
(aka NSG or NOD Scid gamma)
Sample Type
Surgical resection (fragment)
Engraftment Site
Right Flank

Molecular Data (Engrafted Tumor)

Variants

Gene Expression

Platforms: 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 J000106846 from passage P1 has a TMB score of 3.23
TMB Range
0.0-304.42 (across all JAX PDX models; TMB > 22 is considered high)

Microsatellite Instability
Sample:J000106846 from passage P1     Score:MSI-S

Gene Fusion

 no data

Model Characterization

Histology

 Summary:
PT H&E, 2 samples, no tumor fat only and tumor stained for H&E. P0and both P1 models pathology consistent with squamous cell carcinoma.
Pathologist:
Dr. Regina Gandour-Edwards, University of California, Davis

Patient tumor for PDX model J000105006 stained for H&E. Squamous Cell Carcinoma of Urinary Bladder.
Patient tumor for PDX model J000105006 stained for H&E. Fat only, no tumor.

P0 tumor ID:001 for PDX model J000105006 stained for H&E.
P0 tumor ID:001 for PDX model J000105006 stained for VIMENTIN. Staining was Positive in stroma and in focal (10%) tumor cells.

P0 tumor ID:001 for PDX model J000105006 stained for Ki67. Staining was Positive.
P0 tumor ID:001 for PDX model J000105006 stained for CD45. Staining was negative.

P1 tumor F001 P1 ID006 for PDX model J000105006 stained for H&E.
P1 tumor F001 P1 ID008 for PDX model J000105006 stained for H&E.

P1 tumor F001 P1 ID008 for PDX model J000105006 stained for KI67. Staining was positive

Dosing Studies

Circos Plots

 no data