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Patient ID
885512
Open Patient
Specimen ID
296-R
Open Specimen
Sample ID
J2-PDC
Disease Body Location
Breast
OncoTree Code
MMBC
CTEP SDC Code
10006190 - Invasive breast carcinoma
PDM Type
PDC: Mixed Tumor Culture
Required Media
Complete DMEM/F12
Culture Origin
PDX Fragment
FACS
Characterization
mMHC-, hHLA+; mCD9-, hCD9+; hEpCAM-, hCD90-; hCD24+
Growth Properties
Adherent Monolayer
Proliferation Rate
in Complete Media
52 hrs
Sub-culture
Recommendations
Split ratio: 1:4 to 1:5
Culture Derivation
Isolated from passage 1 PDX material. 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
0.51
Fibroblast qRT-PCR
C2 Corr
0.48
Fibroblast qRT-PCR
Top Hits
VIM,KRT7,KRT5,FN1,CD24
Images (if available)
In Vitro Images
View
Image Type
Notes
In Vitro Image
Light Microscopy
20x magnification, Passage 20
Spheroid Culture
20X magnification, Passage 8
Xenograft from In Vitro Culture
20X image of cell culture-derived xenograft; Implantation Site: Mammary Fat Pad
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:
2.0.2.16.0
RNASeq Transcripts per Million (TPM; *.RSEM.genes.results and *.RSEM.isoforms.results tab-delimited text file)
Download RSEM (genes)
Download RSEM (isoforms)
Ver:
2.0.2.16.0
OncoKB Gene Panel
View
Hugo
Symbol
HGVS Protein
Change
Variant Allele
Frequency
Total
Reads
Variant
Class
Oncogenicity
Predicted
Functional Effect
OncoKB
Version
KMT2C
p.R2028*
1.0000
274
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v3.14
KMT2D
p.Q3845*
0.5210
334
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v3.14
RB1
p.S565*
1.0000
66
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v3.14
STK11
p.G251D
0.9958
481
Missense_Mutation
Likely Oncogenic
Unknown
v3.14
TP53
p.I195T
0.9962
530
Missense_Mutation
Likely Oncogenic
Likely Loss-of-function
v3.14
Export
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