PDX Model DetailsTM01007

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PDX Model Summary

Model Details
Model ID (Previous ID)
TM01007 (PA1333F)
Initial Diagnosis
Pancreatic adenocarcinoma
Final Diagnosis
Pancreatic adenocarcinoma
Stage/Grade
Not Specified / Grade:2
Model Status
Active Available - PDX Resource Gold Standard
Primary Site
Pancreas
Sample Site
Pancreas
Tumor Type
Primary Malignancy

Patient
Sex
Female
Age (at time of tissue collection)
81
Race/Ethnicity
White / Not Reported
Treatment Naïve?
Yes
Current Smoker/Former Smoker
Unknown / Unknown

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

 Data Links:

Sample:PA1333F087P0199P1 from passage:P1 Platform:CTP Derived Data  Raw data 1  Raw data 2 


Gene Expression

 Data Links:

Sample:PA1333F087P0 from passage:P0 Platform:RNA_Seq Derived Data  Raw data 1  Raw data 2 


Sample:PA1333F087P0199P1 from passage:P1 Platform:RNA_Seq Derived Data  Raw data 1  Raw data 2 


Sample:PA1333F087P0199P1 from passage:P1 Platform:stRNA_Seq Derived Data  Raw data 1  Raw data 2 


Platforms: RNA_Seq, stRNA_Seq

Hatched bars indicate genes with expression levels determined to be mildly affected by alignment calculations. Details.

Gene CNV

no CNV data

CNV Plots

no CNV plots

Tumor Mutation Burden
Sample PA1333F087P0199P1 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:PA1333F087P0199P1 from passage P1     Score:MSI-S

Gene Fusion
Fusion Genes
Sample PA1333F087P0199P1 has fusion genes ODAD2P1--AL355493.1, PDXDC1--NPIPB14P, PPP1R21--STON1, RBFOX1--ASNS, TMEM265--PHKG2, TTLL3--CPNE9, CAPN1--CAPN2, NOS1AP--C1orf226, ZNF772--AC004076.1, POLR2J2--AC004951.2, BOLA2B--SMG1P2, LINC00476--SLC35D2, CAPN2--CAPN8, GOLGB1--IQCB1, LINC01169--SMAD6, GON4L--AL353807.5, CRYZL2P--SEC16B, AC097488.1--SEC16B, OR51S1--TP53I11, SRC--MANBAL, ZSWIM6--PART1, AC004923.1--ENPP7P7, LAMC2--AL354953.1, MT-ND4--MT-ND2, TVP23C--CDRT4, POLR2J2--UPK3BL1, RBM14--RBM4B, AL079338.1--PSORS1C3, SPIRE1--PTPN2, AP000347.1--ASLP1, SEPTIN7P2--PSPH, KANSL1--ARL17A, ARFGEF3--PDE7B, KCNMB3--GNB4, BRPF3--ETV7, ARHGEF5--OR2A7, AC004967.1--AC079781.5, AC010273.3--LINC02198, MRPL10--SKAP1, RAB11FIP5--FBXO41, SLC29A1--HSP90AB3P, TMOD3--SCG3, SLC30A7--AC093157.2, PCDHGB1--PCDHGA9
Sample PA1333F087P0 has fusion genes PDXDC1--NPIPB14P, AC138409.2--AP000346.2, TTLL3--CPNE9, CAPN1--CAPN2, BOLA2B--SMG1P6, SMURF2P1--LRRC37B, LINC00476--SLC35D2, CRYZL2P--SEC16B, ZSWIM6--PART1, POLR2J3--UPK3BL1, LAMC2--AL354953.1, AC064807.1--AC064807.2, NSF--LRRC37A3, AP000347.1--ASLP1, FCSK--WWP2, SEPTIN7P2--PSPH, KANSL1--ARL17A, ARFGEF3--PDE7B, BRPF3--ETV7, CCL15--CCL14, AC004967.1--AC079781.5, ZCCHC7--Y_RNA, MRPL10--SKAP1, PCDHGB1--PCDHGA12, TMOD3--SCG3

Model Characterization

Histology

 Summary:
P1 pathology consistent with ductal adenocarcinoma. P2 pathology consistent with adenocarcinoma.
Pathologist:
Dr. Regina Gandour-Edwards, University of California, Davis

Patient tumor for PDX model TM01007 stained for H&E.
P1 tumor F087 ID196 for PDX model TM01007 stained for H&E.

P1 tumor F087 ID196 for PDX model TM01007 stained for AE1AE3. Staining was positive.
P1 tumor F087 ID196 for PDX model TM01007 stained for CD45. Staining was negative.

P2 tumor F87 ID013 for PDX model TM01007 stained for H&E.
P2 tumor F87 ID012 for PDX model TM01007 stained for H&E.

P2 tumor F87 ID014 for PDX model TM01007 stained for H&E.
P2 tumor F87 ID015 for PDX model TM01007 stained for H&E.

P2 tumor F87 ID013 for PDX model TM01007 stained for AE1/AE3. Staining was positive.
P2 tumor F87 ID012 for PDX model TM01007 stained for AE1/AE3. Staining was positive.

P2 tumor F87 ID014 for PDX model TM01007 stained for AE1AE3. Staining was positive.
P2 tumor F87 ID015 for PDX model TM01007 stained for AE1AE3. Staining was positive.

P2 tumor F87 ID013 for PDX model TM01007 stained for CD45. Staining was negative.
P2 tumor F87 ID012 for PDX model TM01007 stained for CD45. Staining was negative.

P2 tumor F87 ID014 for PDX model TM01007 stained for CD45. Staining was negative.
P2 tumor F87 ID015 for PDX model TM01007 stained for CD45. Staining was negative.

P2 tumor F87 ID013 for PDX model TM01007 stained for Ki67. Staining was positive.
P2 tumor F87 ID012 for PDX model TM01007 stained for Ki67. Staining was positive.

P2 tumor F87 ID014 for PDX model TM01007 stained for Ki67. Staining was positive.
P2 tumor F87 ID015 for PDX model TM01007 stained for Ki67. Staining was positive.

Dosing Studies

 no data

Circos Plots

 no data