Skip to Content
Contact PDMR
|
PDMR Database User Guide
Home
Patient
Patient Specimen
Sample (PDX or In Vitro Culture)
Distribution Lots
Genomic Analysis
Reports
Search
Sample
Cancel
Patient ID
562452
Open Patient
Specimen ID
108-R
Open Specimen
Sample ID
J1-PDC
Disease Body Location
Breast
OncoTree Code
IDC
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
Loosely Attached Cells
Proliferation Rate
in Complete Media
52 hrs
Sub-culture
Recommendations
Split ratio: 1:3 to 1:4. Matrigel-coated flasks only - spin suspensions cells down in media before discarding and add to enzymatically dissociated cells.
Culture Derivation
Prepared from passage 2 PDX material. Determined to be a tumor by FACS analysis, QRT-PCR, cell morphology, and positive tumorigenicity.
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
0.03
Fibroblast qRT-PCR
C2 Corr
-0.03
Fibroblast qRT-PCR
Top Hits
CD24,KRT19,KRT7,KRT16,KRT8
Images (if available)
In Vitro Images
View
Image Type
Notes
In Vitro Image
Light Microscopy
20x magnification, Passage 23
Spheroid Culture
20x magnification, Passage 11
Xenograft from In Vitro Culture
20x image of cell culture-derived xenograft
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
ERBB2
p.I654V
0.2299
274
Missense_Mutation
Inconclusive
Inconclusive
v4.20
Export
1 - 1