title: Evaluation of quantitative miRNA expression platforms in the microRNA quality control (miRQC) study.
abstract: MicroRNAs are important negative regulators of protein-coding gene expression and have been studied intensively over the past years. Several measurement platforms have been developed to determine relative miRNA abundance in biological samples using different technologies such as small RNA sequencing, reverse transcription-quantitative PCR (RT-qPCR) and (microarray) hybridization. In this study, we systematically compared 12 commercially available platforms for analysis of microRNA expression. We measured an identical set of 20 standardized positive and negative control samples, including human universal reference RNA, human brain RNA and titrations thereof, human serum samples and synthetic spikes from microRNA family members with varying homology. We developed robust quality metrics to objectively assess platform performance in terms of reproducibility, sensitivity, accuracy, specificity and concordance of differential expression. The results indicate that each method has its strengths and weaknesses, which help to guide informed selection of a quantitative microRNA gene expression platform for particular study goals.
authors: Center for Medical Genetics, Ghent University, Ghent, Belgium.
authors: Pieter
authors: P
authors: Mestdagh
authors: Novartis Institutes of Biomedical Research, Basel, Switzerland.
authors: Nicole
authors: N
authors: Hartmann
authors: Novartis Institutes of Biomedical Research, Basel, Switzerland.
authors: Lukas
authors: L
authors: Baeriswyl
authors: Exiqon, Vedbaek, Denmark.
authors: Ditte
authors: 0000000170453118
authors: D
authors: Andreasen
authors: Life Technologies, South San Francisco, California, USA.
authors: Nathalie
authors: N
authors: Bernard
authors: Life Technologies, South San Francisco, California, USA.
authors: Caifu
authors: C
authors: Chen
authors: Quanta Biosciences, Inc., Gaithersburg, Maryland, USA.
authors: David
authors: D
authors: Cheo
authors: Agilent Technologies, Inc., Santa Clara, California, USA.
authors: Petula
authors: P
authors: D'Andrade
authors: Affymetrix, Santa Clara, California, USA.
authors: Mike
authors: M
authors: DeMayo
authors: NanoString Technologies, Seattle, Washington, USA.
authors: Lucas
authors: L
authors: Dennis
authors: WaferGen, San Francisco, California, USA.
authors: Stefaan
authors: S
authors: Derveaux
authors: Quanta Biosciences, Inc., Gaithersburg, Maryland, USA.
authors: Yun
authors: Y
authors: Feng
authors: Agilent Technologies, Inc., Santa Clara, California, USA.
authors: Stephanie
authors: S
authors: Fulmer-Smentek
authors: Miltenyi Biotec, Bergisch Gladbach, Germany.
authors: Bernhard
authors: B
authors: Gerstmayer
authors: Affymetrix, Santa Clara, California, USA.
authors: Julia
authors: J
authors: Gouffon
authors: NanoString Technologies, Seattle, Washington, USA.
authors: Chris
authors: C
authors: Grimley
authors: Qiagen, Fredrick, Maryland, USA.
authors: Eric
authors: E
authors: Lader
authors: Life Technologies, South San Francisco, California, USA.
authors: Kathy Y
authors: KY
authors: Lee
authors: Illumina, Hayward, California, USA.
authors: Shujun
authors: S
authors: Luo
authors: Exiqon, Vedbaek, Denmark.
authors: Peter
authors: P
authors: Mouritzen
authors: Strand Life Sciences, Bangalore, India.
authors: Aishwarya
authors: A
authors: Narayanan
authors: Life Technologies, South San Francisco, California, USA.
authors: Sunali
authors: S
authors: Patel
authors: Miltenyi Biotec, Bergisch Gladbach, Germany.
authors: Sabine
authors: S
authors: Peiffer
authors: Miltenyi Biotec, Bergisch Gladbach, Germany.
authors: Silvia
authors: S
authors: Rüberg
authors: Illumina, Hayward, California, USA.
authors: Gary
authors: G
authors: Schroth
authors: Quanta Biosciences, Inc., Gaithersburg, Maryland, USA.
authors: Dave
authors: D
authors: Schuster
authors: Qiagen, Fredrick, Maryland, USA.
authors: Jonathan M
authors: JM
authors: Shaffer
authors: Life Technologies, South San Francisco, California, USA.
authors: Elliot J
authors: EJ
authors: Shelton
authors: WaferGen, San Francisco, California, USA.
authors: Scott
authors: S
authors: Silveria
authors: Life Technologies, South San Francisco, California, USA.
authors: Umberto
authors: U
authors: Ulmanella
authors: Strand Life Sciences, Bangalore, India.
authors: Vamsi
authors: V
authors: Veeramachaneni
authors: Novartis Institutes of Biomedical Research, Basel, Switzerland.
authors: Frank
authors: F
authors: Staedtler
authors: Novartis Institutes of Biomedical Research, Basel, Switzerland.
authors: Thomas
authors: T
authors: Peters
authors: Center for Applied Genomics, The Children's Hospital of Philadelphia, Philadelphia, USA.
authors: Toumy
authors: T
authors: Guettouche
authors: Life Technologies, South San Francisco, California, USA.
authors: Linda
authors: L
authors: Wong
authors: Center for Medical Genetics, Ghent University, Ghent, Belgium.
authors: Jo
authors: 0000000162740184
authors: J
authors: Vandesompele
mesh_terms: D035683:MicroRNAs / Q000235:genetics*; D011786:Quality Control; D015203:Reproducibility of Results
chemical_list: D035683:MicroRNAs