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Patient ID
118821
Open Patient
Specimen ID
072-R
Open Specimen
Sample ID
J1-PDC
Disease Body Location
Genitourinary
OncoTree Code
CCRCC
CTEP SDC Code
10009251 - RCC, clear cell adenocarcinoma
PDM Type
PDC: Mixed Tumor Culture
Required Media
Complete DMEM/F12
Culture Origin
Patient Tissue
FACS
Characterization
mMHC-, hHLA+; mCD9-, hCD9+; hEpCAM+, hCD90+; hCD24+
Growth Properties
Adherent Monolayer
Proliferation Rate
in Complete Media
60 hrs
Sub-culture
Recommendations
Split ratio: 1:3 to 1:4
Culture Derivation
Isolated from a patient resection. Determined to be a tumor by FACS analysis, QRT-PCR, and cell morphology
Tumorigenic in
NSG Mice
Yes
No
Spheroid Growth
Yes
No
Spheroid Growth
Notes
Soft Agar Growth
Yes
No
Soft Agar
Growth Notes
Fibroblast qRT-PCR
C1 Corr
0.35
Fibroblast qRT-PCR
C2 Corr
0.24
Fibroblast qRT-PCR
Top Hits
VIM,CD24,LOX,KRT18,KRT8
Images (if available)
In Vitro Images
View
Image Type
Notes
In Vitro Image
Light Microscopy
20x magnification, Passage 20
Spheroid Culture
20X magnification, Passage 9
Export
Genomic Analysis
External Genetic Analysis Data
A data file is available if a Download link is displayed:
Somatic Mutations Associated with Cancer (*.vcf and *.maf)
Whole Exome Sequencing (*.vcf)
Download
Ver:
2.0.2.51.0
Whole Exome FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
2.0.2.51.0
RNASeq FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
2.0.2.14.0
RNASeq Transcripts per Million (TPM; *.RSEM.genes.results and *.RSEM.isoforms.results tab-delimited text file)
Download RSEM (genes)
Download RSEM (isoforms)
Ver:
2.0.2.14.0
OncoKB Gene Panel
View
Hugo
Symbol
HGVS Protein
Change
Variant Allele
Frequency
Total
Reads
Variant
Class
Oncogenicity
Predicted
Functional Effect
OncoKB
Version
ARID1A
p.L970Mfs*2
0.4444
477
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v3.19
KDM5C
p.Q628*
0.9699
133
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v3.19
SETD2
p.V212Afs*22
1.0000
93
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v3.19
SETD2
p.P211Afs*22
0.9583
48
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v3.19
VHL
p.I75Tfs*84
0.9829
117
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v3.19
Export
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