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Patient ID
414838
Open Patient
Specimen ID
212-R
Open Specimen
Sample ID
J2-PDC
Disease Body Location
Breast
OncoTree Code
IDC
CTEP SDC Code
10006190 - Invasive breast carcinoma
PDM Type
PDC: Mixed Tumor Culture
Required Media
Breast #2
Culture Origin
PDX-Derived Organoid
FACS
Characterization
mMHC-, hHLA+, mCD9-, hCD9+; hEpCAM+, hCD90-, hCD24+
Growth Properties
Adherent Monolayer
Proliferation Rate
in Complete Media
43 hrs
Sub-culture
Recommendations
Split ratio: 1:4 to 1:5
Culture Derivation
Prepared from a PDX-derived organoid culture. 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
Not Determined
Fibroblast qRT-PCR
C1 Corr
-0.22
Fibroblast qRT-PCR
C2 Corr
-0.22
Fibroblast qRT-PCR
Top Hits
KRT19,KRT17,CD24,KRT7,KRT16
Images (if available)
In Vitro Images
View
Image Type
Notes
In Vitro Image
Light Microscopy
20x magnification, Passage 20
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:
2.0.4.51.0
Whole Exome FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
2.0.4.51.0
RNASeq FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
2.0.2.21.0
RNASeq Transcripts per Million (TPM; *.RSEM.genes.results and *.RSEM.isoforms.results tab-delimited text file)
Download RSEM (genes)
Download RSEM (isoforms)
Ver:
2.0.2.21.0
OncoKB Gene Panel
View
Hugo
Symbol
HGVS Protein
Change
Variant Allele
Frequency
Total
Reads
Variant
Class
Oncogenicity
Predicted
Functional Effect
OncoKB
Version
CARD11
p.R423W
0.3298
470
Missense_Mutation
Likely Oncogenic
Unknown
v7.1
TP53
p.G266V
1.0000
69
Missense_Mutation
Likely Oncogenic
Likely Loss-of-function
v7.1
CHD4
p.E139del
0.0780
372
In_Frame_Del
Inconclusive
Inconclusive
v7.1
Export
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