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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

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This process involves analyzing complex genetic data and may take a moment.




PDX model details

PDX ID 287R
Host Strain(and Source) NSG
Source: Monash University
Host Strain Immune system Humanized NO
Host Type Testosterone supplemented
Graft Site Subcutaneous
Current Generation
(* indicates number of generations grown in Castrate host)
 28
Average PDX Generation Time (days +/- SEM) 57 ± 4
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 or cryopreserved tissue)
Governance restriction for distribution Available to investigators with appropriate ethics approvals, approved EOI from MURAL committee, and material transfer agreements
Pubmed ID 34413304
Markers 287R
AR Y
PSA Y
PSMA Y
NE N
ERG Y
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
287R SETD2 -0.980 1.014 Loss MURAL Prostate Cancer PDX collection Targeted Twist Panel hg19
287R RB1 -0.946 1.038 Loss MURAL Prostate Cancer PDX collection Targeted Twist Panel hg19
287R FANCD2 -1.008 0.995 Loss MURAL Prostate Cancer PDX collection Targeted Twist Panel hg19
287R CDKN1B -0.982 1.013 Loss MURAL Prostate Cancer PDX collection Targeted Twist Panel hg19

Clinical Information

Sample Number 287R
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 8
Tumour Volume (in cc) 23.8
Treatment Prior to Specimen Collection None

Patient Information

Patient Number 287
Sex Male
Diagnosis Prostate Cancer
PSA at diagnosis (ng/mL) 13.1
Consent to share data Yes, subject to ethical review

Patient Tumour Collection (Current Model)
Tumour sample ID 287R
Patient Age (binned in 5 year age groups) 65-69
This heatmap displays the mutations of curated sequence variants.
Download Plot
The Mut plot is not shown
PDX ID Gene Symbol Total Read Depth Alternate Frequency Consequence Exon GnomAD AF CADD PHRED score ClinVar significance Platform Experiments Name Reference Library Type Instrument Type
287R RB1 195 1.0 Stop gained '11/27 . 36 Pathogenic Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R SETD2 250 1.0 Missense variant '20/21 . 30 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R SETD2 250 1.0 Missense variant '20/21 . 30 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R MSH2 289 0.97 Frameshift variant,splice region variant '3/16 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R CDKN1B 274 0.97 Frameshift variant '1/3 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R ZMYM3 275 0.87 Frameshift variant '2/25 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R LTBP4 494 0.52 Missense variant '16/34 . 25.3 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R JAK3 509 0.52 Missense variant '3/24 1.24E-05 23.4 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R SETDB1 455 0.52 Missense variant '13/22 . 32 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R TP53 425 0.52 Missense variant '4/11 4.88E-05 15.05 Uncertain significance Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R KCNA5 488 0.51 Missense variant '1/1 8.13E-06 9.002 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R NOTCH3 520 0.51 Missense variant '5/33 0.0001954 23.4 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R NCOR1 424 0.5 Missense variant '46/46 . 33 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R NCOR1 424 0.5 Missense variant '46/46 . 33 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R CTNNB1 573 0.49 Missense variant '3/15 . 25.7 Conflicting interpretations of pathogenicity, other Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R LRP1B 430 0.49 Missense variant '18/91 . 15.91 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R AXL 388 0.49 Missense variant '19/20 8.12E-06 32 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R JAK3 336 0.49 Missense variant '2/24 0.0005797 23.1 Uncertain significance Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R MRE11A 483 0.49 Missense variant '11/20 1.22E-05 23.6 Uncertain significance Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R IGF2R 536 0.49 Missense variant '25/48 2.03E-05 33 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R LTBP4 390 0.48 Missense variant '25/34 4.91E-05 24.7 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R EPHB2 482 0.48 Missense variant '12/16 . 26.3 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R ERF 574 0.48 Frameshift variant '4/4 4.13E-06 . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R UBR4 510 0.48 Missense variant '100/106 . 34 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R PRKDC 474 0.48 Frameshift variant '6/87 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R CDK12 397 0.48 Frameshift variant '14/14 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R PRDM1 519 0.47 Frameshift variant '5/7 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R PTCH1 424 0.47 Frameshift variant '22/24 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R WNK2 459 0.47 Missense variant '2/30 0.0001138 25.3 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R SKI 462 0.47 Missense variant '5/7 . 15.85 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R APC 585 0.47 Missense variant '16/16 1.22E-05 25.8 Uncertain significance Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R LRP1B 530 0.47 Missense variant '80/91 8.17E-06 33 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R RAD50 526 0.47 Frameshift variant '13/25 0.0001362 . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R LHFPL3 468 0.47 Missense variant '1/5 0.0007676 29.4 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R KMT2A 505 0.47 Frameshift variant '27/36 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R KMT2C 548 0.46 Missense variant '56/59 . 29 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R PTPN11 563 0.46 Missense variant '9/16 0.0001909 22 Benign Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R TSC1 581 0.45 Missense variant '17/23 . 33 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R BAX 516 0.45 Frameshift variant '3/5 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R XIRP2 648 0.44 Frameshift variant '9/11 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R LHX3 438 0.43 Missense variant '3/6 4.22E-06 29.9 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R FANCM 471 0.42 Frameshift variant '14/23 3.01E-05 . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R FAM155A 410 0.42 Missense variant '1/3 . 26.2 - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R BLM 507 0.42 Frameshift variant '19/22 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R PRKDC 486 0.42 Inframe deletion '81/87 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R CCAR2 428 0.41 Frameshift variant '12/21 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500
287R MAN1A1 474 0.41 Frameshift variant '11/13 . . - Targeted Twist Panel MURAL Prostate Cancer PDX collection hg19 paired NextSeq 500