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Last Database Update
2020-03-29
MTB 3.0
 
HelpHelp and Documentation PDX Model Details
Model Details
Model ID:TM00091 Previous ID:BR0901F
Primary Site:Breast Initial Diagnosis:invasive ductal carcinoma Final Diagnosis:invasive ductal carcinoma
Tumor Site:Breast Tumor Type:Primary Malignancy Stage / Grade:AJCC IIB / Grade:3
Patient
Sex:Female Age:45 Race / Ethnicity:White / Not Hispanic or Latino
Treatment Naive:No
Engraftment Host
Strain:NOD.Cg-Prkdcscid Il2rgtm1Wjl/SzJ
(aka NSG or NOD Scid gamma)
Implantation Site: Sample Type:Surgical resection (fragment)
Tumor Mutation Burden
Sample from passage P0 has a TMB score of 5.66
Sample from passage P3 has a TMB score of 7.27
TMB Range:0.81-305.22  (across all JAX PDX models)
TMB > 22 is considered high.
Microsatellite Instability Help
Sample:BR0901F433P3     Score:MSI-S
Sample:BR0901FPT     Score:MSI-S
Sample:BR0901F433P0     Score:MSI-S
Variant Summary Help

Gene Expression Help Platforms:RNA_Seq, hu133, stRNA_Seq
Hatched bars indicate genes with expression levels determined to be mildly affected by alignment calculations. Details.
Gene CNV Help
CNV Plots Help
Model Characterization
Histology: Summary:
High grade breast carcinoma, excellent fidelity through P4. P1 pathology consistent with breast 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.

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.
Circos Plots:

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