This example shows findings from a cytogenetic assessment of EGFR gene copy number amplification with the purpose of determining the diagnostic status of patients with non-small cell lung cancer. In this example, the findings are generated using fluorescence in situ hybridization (FISH) methodology and semi-quantitative microscopic assessment by a pathologist. Microscopic assessments are then summarized to a diagnostic status using a specific algorithm represented in GFANMTH.
Units need to be confirmed. Should we have a value for chromosome. GENSR is this applicable or needed (e.g., for exon)
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Row
STUDYID
DOMAIN
USUBJID
GFSEQ
GFREFID
GFTESTCD
GFTEST
GFTSTDTL
GFORRES
GFORRESU
GFSTRESC
GFSTRESN
GFSTRESU
GFCHROM
GFSYM
GFSYMTYP
GFGENSR
GFSTAT
GFREASND
GFNAM
GFSPEC
GFMETHOD
GFANMETH
VISITNUM
VISIT
VISITDY
GFDTC
GFDY
1
ABC0023
GF
AB23-001
1
45785-01
CPNUMAMP
Copy Number Amplification
COPY NUMBER RATIO
1.1
1.1
1.1
EGFR
GENE WITH PROTEIN PRODUCT
ACME GENOMICS LABS
DNA
FISH
-1
SCREENING
-2
6/21/2023
-1
2
ABC0023
GF
AB23-001
2
45785-01
CPNUMAMP
Copy Number Amplification
DETECTION
NEGATIVE
NEGATIVE
EGFR
GENE WITH PROTEIN PRODUCT
ACME GENOMICS LABS
DNA
FISH
COLORADO SCORING METHOD FOR EGFR GENE AMPLIFICATION 2009 ALGORITHM