GSE124158 ( miRNA )

bone and soft tissue sarcomas ( bone )

A serum miRNA classifier diagnoses bone and soft tissue sarcomas across various histological subtypes

Cancer : 892 / Control : 275

Mean and standard deviation (SD) of the 5% trimmed signals of the negative controls were calculated. Signals of miRNAs over mean+2SD of the negative controls were subtracted with the mean of the negative controls. The undetected signal was replaced with the value that was the least signal intensity on each DNA chip minus 0.1 in log2 scale followed by quantile normalization.

A serum miRNA combination could be a powerful classifier for the detection of patients with bone and soft tissue sarcomas.

Total 892 patients with bone and soft tissue tumors, including malignant, intermediate, and benign tumors, were included. Furthermore, serum samples of 275 healthy controls and 240 patients with other cancers were used as references for the analyses.

Asano N, Matsuzaki J, Ichikawa M, Kawauchi J et al. A serum microRNA classifier for the diagnosis of sarcomas of various histological subtypes. Nat Commun 2019 Mar 21;10(1):1299. PMID: 30898996

Total RNA was extracted each from 300uL serum samples using 3D-Gene® RNA extraction reagent from liquid sample kit (Toray Industries, Inc.). Total RNA was also obtained from the FFPE sections using the Arcturus® Paradise® Extraction and Isolation kit (Life Technologies) in accordance with the manufacturer's instructions.

total RNA

Cy5

miRNA was labeled using 3D-Gene® miRNA Labeling kit in accordance with the manufacturer's instructions.

Hybridized for 16 h at 32 ºC with rotary shaker (250 rpm). Hybridization buffer and washing protocol was attached in the 3D-Gene® miRNA oligo chip kit.

3D-Gene Scanner (Toray Industries, Inc.) was used for scanning. Images were quantified using Extraction version 2.0.0.6 (Toray Industries, Inc.).