PDX Model DetailsTM00091

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PDX Model Summary

Model Details
Model ID (Previous ID)
TM00091 (BR0901F)
Initial Diagnosis
Invasive ductal carcinoma
Final Diagnosis
Invasive ductal carcinoma
Stage/Grade
AJCC IIB / 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)
45
Race/Ethnicity
White / Not Hispanic or Latino
Treatment Naïve?
No
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: RNA_Seq, 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 BR0901F433P0 from passage P0 has a TMB score of 4.85
Sample BR0901F433P3 from passage P3 has a TMB score of 7.27
TMB Range
0.0-304.42 (across all JAX PDX models; TMB > 22 is considered high)

Microsatellite Instability
Sample:BR0901F433P0 from passage P0     Score:MSI-S
Sample:BR0901F433P3 from passage P3     Score:MSI-S

Gene Fusion

 no data

Model Characterization

Histology

 Summary:
P1, P4 pathology consistent with breast carcinoma. P2 pathology consistent with poorly differentiated carcinoma. P3 pathology consistent with carcinoma.
Pathologist:
Dr. Regina Gandour-Edwards, University of California, Davis

P1 tumor F433 P0014 for PDX model TM00091 stained for AR. Staining was negative.
P1 tumor F433 P0014 for PDX model TM00091 stained for ER. Staining was negative.

P1 tumor F433 P0014 for PDX model TM00091 stained for ERBB2 (HER2). Staining was negative.
P1 tumor F433 P0014 for PDX model TM00091 stained for PR. Staining was negative.

P2 tumor F433 ID013 for PDX model TM00091 stained for H&E.
P2 tumor F433 ID013 for PDX model TM00091 stained for AE1AE3. Staining was positive.

P2 tumor F433 ID013 for PDX model TM00091 stained for AR. Staining was negative.
P2 tumor F433 ID013 for PDX model TM00091 stained for CD45. Staining was negative.

P2 tumor F433 ID013 for PDX model TM00091 stained for ER(SP1). Staining was negative.
P2 tumor F433 ID013 for PDX model TM00091 stained for ERBB2 (HER2). Staining was negative.v

P2 tumor F433 ID013 for PDX model TM00091 stained for Ki67. Staining was positive.
P2 tumor F433 ID013 for PDX model TM00091 stained for PR. Staining was negative.

P3 tumor F433 ID020 for PDX model TM00091 stained for H&E.
P3 tumor F433 ID020 for PDX model TM00091 stained for AE1AE3. Staining was positive.

P3 tumor F433 ID020 for PDX model TM00091 stained for AR. Staining was negative.
P3 tumor F433 ID020 for PDX model TM00091 stained for CD45. Staining was negative.

P3 tumor F433 ID020 for PDX model TM00091 stained for ER. Staining was negative.
P3 tumor F433 ID020 for PDX model TM00091 stained for ERBB2 (HER2). Staining was negative.

P3 tumor F433 ID020 for PDX model TM00091 stained for Ki67. Staining was positive.
P3 tumor F433 ID020 for PDX model TM00091 stained for PR. Staining was negative.

P4 tumor F433 ID001 for PDX model TM00091 stained for H&E.
P4 tumor F433 ID001 for PDX model TM00091 stained for AE1AE3. Staining was positive.

P4 tumor F433 ID001 for PDX model TM00091 stained for CD45. Staining was negative.

Dosing Studies

Circos Plots

Circos plot for P0 tumor #433 from PDX model TM00091 (aka, BR0901F)