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Table 1 Concordance of the two BC signatures, and gene expression, between matched FFPE and FF samples. Gene Expression refers to individual gene measurements, for which values in the table are medians over all genes. The combination of protocol (NEW vs OLD) and data summarization of mapped counts (UMI groups vs reads). Bold font indicates higher value for given signature

From: Targeted RNAseq assay incorporating unique molecular identifiers for improved quantification of gene expression signatures and transcribed mutation fraction in fixed tumor samples

Signature

Protocol

CCC

CCC

low CI

CCC

high CI

Rho

Bias

Scale

Location

PIK3CA

OLD_reads

0.861

0.680

0.943

0.946

0.910

0.729

0.313

NEW_reads

0.980

0.934

0.994

0.984

0.995

0.956

0.089

NEW_UMIs

0.982

0.941

0.994

0.985

0.996

0.950

0.072

SET_ERPR

OLD_reads

0.956

0.871

0.985

0.968

0.987

0.881

0.103

NEW_reads

0.901

0.764

0.960

0.984

0.916

0.953

−0.425

NEW_UMIs

0.901

0.766

0.960

0.985

0.915

0.977

−0.432

Gene Expression

OLD_reads

0.785

0.888

0.907

0.967

0.018

NEW_reads

0.911

0.977

0.951

0.997

−0.015

NEW_UMIs

0.921

0.966

0.958

1.019

−0.027