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Related Concept Videos

MicroRNAs01:22

MicroRNAs

MicroRNA (miRNA) are short, regulatory RNA transcribed from introns (non-coding regions of a gene) or intergenic regions (stretches of DNA present between genes). Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself, forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After the pre-miRNA...
MicroRNAs01:22

MicroRNAs

MicroRNA (miRNA) are short, regulatory RNA transcribed from introns—non-coding regions of a gene—or intergenic regions—stretches of DNA present between genes. Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After the pre-miRNA ends...
DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Profiling of Pre-micro RNAs and microRNAs using Quantitative Real-time PCR (qPCR) Arrays
10:58

Profiling of Pre-micro RNAs and microRNAs using Quantitative Real-time PCR (qPCR) Arrays

Published on: December 3, 2010

Data submission and quality in microarray-based microRNA profiling.

Kenneth W Witwer1

  • 1Department of Molecular and Comparative Pathobiology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. kwitwer1@jhmi.edu

Clinical Chemistry
|January 30, 2013
PubMed
Summary
This summary is machine-generated.

Most microarray-based microRNA (miRNA) studies lack data submission and MIAME compliance, indicating potential issues with study quality and reproducibility. Improving data sharing is crucial for scientific validation and robust conclusions.

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Area of Science:

  • Genomics and Bioinformatics
  • Molecular Biology
  • Biomedical Research

Background:

  • Public data sharing is crucial in the omics era for scientific validation and reproducibility.
  • Minimum Information About a Microarray Experiment (MIAME) standards are widely adopted by journals for data transparency.
  • Ensuring compliance with data submission guidelines is essential for the integrity of published research.

Purpose of the Study:

  • To assess the extent of data submission and MIAME compliance in microarray-based microRNA (miRNA) profiling studies.
  • To evaluate the relationship between data submission practices and study quality.
  • To identify potential impacts of non-compliance on research conclusions.

Main Methods:

  • Reviewed 127 articles with miRNA profiling published between July 2011 and April 2012.
  • Analyzed data submission rates and MIAME compliance across high-impact and other journals.
  • Assessed study quality metrics and reanalyzed data for non-compliant articles.

Main Results:

  • Less than 40% of articles reported data submission, with nearly 75% being MIAME noncompliant.
  • Articles with full data submission demonstrated significantly higher quality metrics.
  • Reanalysis of non-compliant data sometimes undermined published conclusions, leading to one retraction.

Conclusions:

  • Reluctance to share data correlates with lower study quality in miRNA array investigations.
  • Most miRNA array studies may be underpowered or compromised by inadequate reporting and data submission.
  • Adherence to MIAME standards and robust data sharing are vital for reliable scientific findings.