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Patient Specimen
Sample (PDX or In Vitro Culture)
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Patient ID
356343
Open Patient
Specimen ID
332-R
Open Specimen
Sample ID
J1-PDC
Disease Body Location
Digestive/Gastrointestinal
OncoTree Code
COAD
CTEP SDC Code
10009951 - Adenocarcinoma - colon
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
26 hrs
Sub-culture
Recommendations
Split ratio: 1:4 to 1:5
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
-0.37
Fibroblast qRT-PCR
C2 Corr
-0.48
Fibroblast qRT-PCR
Top Hits
EPCAM,KRT8,KRT19,CD24,KRT18
Images (if available)
In Vitro Images
View
Image Type
Notes
In Vitro Image
Light Microscopy
20x magnification, Passage 21
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:
2.0.2.21.0
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
APC
p.R554*
0.4771
109
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v4.6
APC
p.Q1303*
0.5646
271
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v4.6
ARID4A
p.N724Kfs*2
0.4800
50
Frame_Shift_Ins
Likely Oncogenic
Likely Loss-of-function
v4.6
AXIN2
p.X272_splice
0.4654
260
Splice_Site
Likely Oncogenic
Likely Loss-of-function
v4.6
KLF5
p.S303L
1.0000
259
Missense_Mutation
Likely Oncogenic
Likely Gain-of-function
v4.6
KMT2C
p.Q755*
0.1136
484
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v4.6
KRAS
p.A146T
0.3735
83
Missense_Mutation
Oncogenic
Gain-of-function
v4.6
TCF7L2
p.K468Sfs*23
0.5198
252
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v4.6
TP53
p.T155Pfs*15
1.0000
138
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v4.6
Export
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