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Last Database Update
2020-03-29
MTB 3.0
 
HelpHelp and Documentation PDX Model Details
Model Details
Model ID:TM00090 Previous ID:BR0744F
Primary Site:Breast Initial Diagnosis:breast metaplastic carcinoma Final Diagnosis:breast metaplastic carcinoma
Tumor Site:Breast Tumor Type:Primary Malignancy Stage / Grade:AJCC IV / Grade:3
Patient
Sex:Female Age:43 Race / Ethnicity:White / Not Hispanic or Latino
Treatment Naive:Yes
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 8.08
TMB Range:0.81-305.22  (across all JAX PDX models)
TMB > 22 is considered high.
Microsatellite Instability Help
Sample:BR0744F098P0     Score:MSI-S
Variant Summary Help

Gene Expression Help Platforms:RNA_Seq, hg10st, 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:
Moderate concordance of tumor morphologic features between patient tumor and P0 tumor. P2 is consistent with high grade breast carcinoma.
Pathologist:
Dr. Regina Gandour-Edwards, University of California, Davis

Patient tumor for PDX model TM00090. Sheets of epithelial cells in a pseudoglandular pattern with abundant bluish mucin in the intercellular spaces.

P0 tumor #098 for PDX model TM00090. Sheets of epithelial cells in with abundant bluish mucin in the intercellular spaces.

P0 tumor #098 for PDX model TM00090; IHC for PR

P0 tumor #098 for PDX model TM00090; IHC for ER

P2 tumor F098 ID0111 for PDX model TM00090 stained for H&E.
Circos Plots:

Circos Plot for P0 tumor #097 from PDX Model TM00090 (aka, BR0744F)

Circos plot for P0 tumor #098 from TM00090 (aka, BR0744F)
Dosing Studies: