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
779769
Open Patient
Specimen ID
127-R
Open Specimen
Sample ID
VS0DY7
Disease Body Location
Digestive/Gastrointestinal
OncoTree Code
READ
CTEP SDC Code
10038045 - Adenocarcinoma - rectum
PDM Type
PDX
Tissue Type
Resection
Patient/Originating
Specimen
Yes
No
Passage of this Sample
1
Sample
Notes
Pathology Data (if available)
Pathology Data
View
Tumor
Grade
Tumor
Content
Necrosis
Stromal
Inflammatory
Cells
Low Magnification Image
High Magnification Image
Intermediate grade or moderately differentiated
25%
%
75%
2+ (Moderate)
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:
2.0.1.50.0
Whole Exome FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
1.2
RNASeq FASTQ (*.FASTQ.gz; for paired-end sequence, download both files)
Download Read1 FASTQ
Download Read2 FASTQ
Ver:
1.2
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
APC
p.R805*
1.0000
118
Nonsense_Mutation
Likely Oncogenic
Likely Loss-of-function
v3.14
ATM
p.F858L
0.2941
255
Missense_Mutation
Likely Neutral
Likely Neutral
v3.14
ERCC2
p.X459_splice
0.6721
247
Splice_Site
Likely Oncogenic
Likely Loss-of-function
v3.14
KRAS
p.A146T
0.6932
88
Missense_Mutation
Oncogenic
Gain-of-function
v3.14
PIK3R1
p.S171Pfs*6
0.4771
371
Frame_Shift_Del
Likely Oncogenic
Likely Loss-of-function
v3.14
TP53
p.R273H
1.0000
57
Missense_Mutation
Oncogenic
Loss-of-function
v3.14
Export
1 - 6