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Patient Specimen
Sample (PDX or In Vitro Culture)
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Patient ID
521955
Open Patient
Specimen ID
158-R6
Open Specimen
Sample ID
V4-organoid
Disease Body Location
Digestive/Gastrointestinal
OncoTree Code
PAAD
CTEP SDC Code
10052747 - Adenocarcinoma - pancreas
PDM Type
Organoid Culture
Required Media
Panc
Culture Origin
PDX Fragment
FACS
Characterization
mMHC-, hHLA+, mCD9-, hCD9+, hCD90-, hEpCAM+, hCD24+
Growth Properties
Organoids
Proliferation Rate
in Complete Media
NA
Sub-culture
Recommendations
1 Frozen Stock Vial can be used to generate: 2 wells in a 24-well plate
Culture Derivation
Derived from passage 0 PDX material
Tumorigenic in
NSG Mice
Yes
No
Spheroid Growth
Yes
No
Spheroid Growth
Notes
NA
Soft Agar Growth
Yes
No
Soft Agar
Growth Notes
NA
Fibroblast qRT-PCR
C1 Corr
-0.47
Fibroblast qRT-PCR
C2 Corr
-0.45
Fibroblast qRT-PCR
Top Hits
KRT8, KRT18, KRT19, KRT7, KRT20
Images (if available)
In Vitro Images
View
Image Type
Notes
In Vitro Image
Light Microscopy
Image of total well, bar shows1 mm size Passage 11 , 7 days in culture
Light Microscopy
Magnified image – note 500μm bar Passage 11, 7 days in culture
Organoid H&E
10x image of embedded Patient-derived organoids
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:
2.0.1.51.0
Whole Exome FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
2.0.1.51.0
RNASeq FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
2.0.1.4.0
RNASeq Transcripts per Million (TPM; *.RSEM.genes.results and *.RSEM.isoforms.results tab-delimited text file)
Download RSEM (genes)
Download RSEM (isoforms)
Ver:
2.0.1.4.0
OncoKB Gene Panel
View
Hugo
Symbol
HGVS Protein
Change
Variant Allele
Frequency
Total
Reads
Variant
Class
Oncogenicity
Predicted
Functional Effect
OncoKB
Version
KRAS
p.G12D
0.6705
176
Missense_Mutation
Oncogenic
Gain-of-function
v3.14
TP53
p.R158Sfs*8
0.9908
109
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v3.14
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