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Patient Tumour & Clinical details PDX & PDXBiomarker details
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With gene expression Without gene expression Mutation & CNV Plot
Summary



PDX model details

PDX ID 272R
Host Strain(and Source) NSG
Source: Monash University
Host Strain Immune system Humanized NO
Host Type Testosterone supplemented
Graft Site Renal
Current Generation
(* indicates number of generations grown in Castrate host)
 11
Average PDX Generation Time (days +/- SEM) 189 ± 32
Tumour preparation Tumor solid
Tumour Characterization Technology Histology, IHC, STR profiling, targeted DNA sequencing, RNAseq
Tumour confirmed not to be of Mouse/EBV origin Yes; negative for CD45 and/or positive for human CK8/18 and/or human mitochondria by IHC
Passage QA performed Routine QA every 2-3 passages
Associated meta data
PDX model availability Yes (fixed, frozen)
Governance restriction for distribution Available to investigators with appropriate ethics approvals, approved EOI from MURAL committee, and material transfer agreements
Pubmed ID 34413304
Markers 272R
AR Y
PSA Y
PSMA Y
NE Y
ERG N
This heatmap displays the call type of curated CNVs in the presented samples.
This heatmap displays the call type of CNVs in commonly occurred samples.

PDX ID Gene Symbol CNV Log2 CNV Copy CNV Call Experiments name Platform Reference genome
272R MSH2 -11.1116 0.000903868 homdel MURAL Prostate Cancer PDX collection Targeted GARVAN Panel hg19
272R CDKN1B -1.01536 0.98941 loss MURAL Prostate Cancer PDX collection Targeted GARVAN Panel hg19
272R MSH2 -1.01119 0.992274 loss MURAL Prostate Cancer PDX collection Targeted GARVAN Panel hg19
272R MYC 0.811972 3.51122 gain MURAL Prostate Cancer PDX collection Targeted GARVAN Panel hg19
272R CHD7 1.02403 4.06718 gain MURAL Prostate Cancer PDX collection Targeted GARVAN Panel hg19
272R MYC 1.02403 4.06718 gain MURAL Prostate Cancer PDX collection Targeted GARVAN Panel hg19

Clinical Information

Sample Number 272R
Sample Site Prostate
Sample source Radical prostatectomy
Pathology Tumour Diagnosis Adenocarcinoma
Gleason Score 9
Primary Gleason Score 4
Secondary Gleason Score 5
Tertiary Gleason Score None
ISUP Grade Group 5
Tumour Grade pT3bN1
D'Amico Risk Classification 7
Tumour Volume (in cc) 20.2
Treatment Prior to Specimen Collection None

Patient Information

Patient Number 272
Sex Male
Diagnosis Prostate Cancer
PSA at diagnosis (ng/mL) 9.2
Consent to share data

Patient Tumour Collection (Current Model)
Tumour sample ID 272R
Patient Age (binned in 5 year age groups) 70-74
This heatmap displays the mutations of curated sequence variants.
Download The Mut plot is not shown
PDX ID Gene Symbol Depth ALT_FREQ Consequence Exon GnomAD_AF CADD_PHRED Clinvar_clnsig Platform Experiments Name Reference Library Type Instrument Type
272R BCORL1 592 0.94 frameshift_variant '12/12 . . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R DMD 106 0.91 frameshift_variant '40/79 . 34 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R BAX 171 0.8 frameshift_variant '3/5 0.0001061 23.8 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R PRKDC 725 0.69 missense_variant '29/87 . 26.6 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R NKX3-1 2365 0.67 inframe_deletion '2/2 . . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R LTBP4 243 0.56 missense_variant '11/34 0.0001098 28 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R MET 455 0.53 stop_gained '21/21 1.22E-05 38 Uncertain_significance Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R RNF43 1135 0.52 frameshift_variant '8/9 0 . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R WNT4 1047 0.51 missense_variant '2/5 . 33 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R SOX9 641 0.51 missense_variant '3/3 . 27.1 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R SMAD2 361 0.51 frameshift_variant '11/11 . . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R CYP2D6 411 0.5 missense_variant '2/9 1.59E-05 29.1 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R OGDH 399 0.5 missense_variant '7/23 . 33 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R RXRG 303 0.5 missense_variant '3/10 4.48E-05 25.9 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R LRP2 297 0.5 missense_variant '46/79 . 24.2 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R NOTCH3 206 0.49 missense_variant '33/33 1.24E-05 29.1 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R MTOR 399 0.49 missense_variant '42/58 . 29.8 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R FANCA 995 0.48 missense_variant '26/43 8.22E-06 23.2 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R FGFR4 1026 0.48 missense_variant '16/18 . 29.1 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R TRIM33 667 0.48 missense_variant '11/20 3.66E-05 27 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R SPEN 1306 0.48 frameshift_variant '11/15 . . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R CACNA1H 218 0.47 missense_variant '32/35 1.79E-05 25.5 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R PDGFRB 855 0.47 missense_variant '13/23 4.18E-06 24.8 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R PBRM1 129 0.47 frameshift_variant '9/30 0 . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R ZFHX3 1259 0.46 frameshift_variant '9/10 . . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R CAPN1 263 0.46 missense_variant '17/21 4.47E-05 32 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R CAPN1 263 0.46 missense_variant '17/21 4.47E-05 32 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R AKT3 345 0.44 missense_variant '14/14 . 32 Pathogenic/Likely_pathogenic Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R ZFHX3 1265 0.43 frameshift_variant '9/10 . . - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R CACNA1H 175 0.42 missense_variant '9/35 2.76E-05 22.9 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500
272R ABL1 1551 0.34 missense_variant '11/11 1.63E-05 29.8 - Targeted GARVAN Panel MURAL Prostate Cancer PDX collection hg19 paired Illumina HiSeq 2500