Tags: FISH, EGFR, Cytogenetic, cytogenetics

This example is currently in draft.

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.

Rows 1, 5:Show the total number of centromere probe signals in the nuclei of the counted cells associated with the location represented in variable GFGENLOC for chromosome 7.
Rows 2, 6:Show the total number of EGFR probe signals in the nuclei of the counted cells.
Rows 3, 7:Show the calculated ratio of the EGFR probe signals to centromere probe signals.
Rows 4, 8:Show the EGFR amplification status of the sample according to the 2009 Colorado Scoring Method for EGFR Gene Amplification Algorithm.

gf.xpt

gf.xpt

RowSTUDYIDDOMAINUSUBJIDGFSEQGFREFIDGFTESTCDGFTESTGFTSTDTLGFORRESGFORRESUGFSTRESCGFSTRESNGFSTRESUGFCHROMGFSYMGFSYMTYPGFGENLOCGFNAMGFSPECGFMETHODGFANMETHVISITNUMVISITVISITDYGFDTCGFDY
1ABC0023GFAB23-001145785-01CPNUMAMPCopy Number AmplificationCENTROMERE SIGNALS147

/50 Cells

147147/50 Cells7

7p11.1-q11.1ACME GENOMICS LABSDNAFISH
-1SCREENING-12023-06-21-2
2ABC0023GFAB23-001245785-01CPNUMAMPCopy Number AmplificationGENOME-SPECIFIC TARGET SIGNALS166

/50 Cells

166166/50 Cells7EGFRGENE WITH PROTEIN PRODUCT
ACME GENOMICS LABSDNAFISH
-1SCREENING-12023-06-21-2
3ABC0023GFAB23-001345785-01CPNUMAMPCopy Number AmplificationCOPY NUMBER RATIO1.1
1.11.1
7EGFRGENE WITH PROTEIN PRODUCT
ACME GENOMICS LABSDNAFISH
-1SCREENING-12023-06-21-2
4ABC0023GFAB23-001445785-01CPNUMAMPCopy Number AmplificationDETECTIONNEGATIVE
NEGATIVE

7EGFRGENE WITH PROTEIN PRODUCT
ACME GENOMICS LABSDNAFISHCOLORADO SCORING METHOD FOR EGFR GENE AMPLIFICATION 2009 ALGORITHM-1SCREENING-12023-06-21-2
5ABC0023GFAB23-002178678-01CPNUMAMPCopy Number AmplificationCENTROMERE SIGNALS165

/50 Cells

165165

/50 Cells

7

7p11.1-q11.1ACME GENOMICS LABSDNAFISH
-1SCREENING-12023-06-28-1
6ABC0023GFAB23-002278678-01CPNUMAMPCopy Number AmplificationGENOME-SPECIFIC TARGET SIGNALS208

/50 Cells

208208

/50 Cells

7EGFRGENE WITH PROTEIN PRODUCT
ACME GENOMICS LABSDNAFISH
-1SCREENING-12023-06-28-1
7ABC0023GFAB23-002378678-01CPNUMAMPCopy Number AmplificationCOPY NUMBER RATIO1.3
1.31.3
7EGFRGENE WITH PROTEIN PRODUCT
ACME GENOMICS LABSDNAFISH
-1SCREENING-12023-06-28-1
8ABC0023GFAB23-002478678-01CPNUMAMPCopy Number AmplificationDETECTIONPOSITIVE
POSITIVEPOSITIVE
7EGFRGENE WITH PROTEIN PRODUCT
ACME GENOMICS LABSDNAFISHCOLORADO SCORING METHOD FOR EGFR GENE AMPLIFICATION 2009 ALGORITHM-1SCREENING-12023-06-28-1
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