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GUANIN: an all-in-one GUi-driven analyzer for NanoString interactive normalization.

Julián Montoto-Louzao1,2,3, Alberto Gómez-Carballa1,2,3, Xabier Bello1,2,3

  • 1Unidade de Xenética, Instituto de Ciencias Forenses, Facultade de Medicina, Universidade de Santiago de Compostela, and Genética de Poblaciones en Biomedicina (GenPoB) Research Group, Instituto de Investigación Sanitaria (IDIS), Hospital Clínico Universitario de Santiago (SERGAS), 15706, Santiago de Compostela, Spain.

Bioinformatics (Oxford, England)
|July 25, 2024
PubMed
Summary
This summary is machine-generated.

GUANIN is a new tool that simplifies NanoString gene expression data normalization using a graphical interface. It offers flexible reference gene selection and outperforms existing methods for accurate preprocessing without programming knowledge.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Existing NanoString normalization tools primarily focus on technical aspects, lacking flexibility for experiment-specific content normalization.
  • Content normalization is crucial for NanoString data preprocessing but currently requires multiple tools and advanced data management skills.

Purpose of the Study:

  • To present GUANIN, a comprehensive and user-friendly tool for content normalization of NanoString gene expression data.
  • To provide researchers with a flexible and integrated solution for preprocessing NanoString data, addressing limitations of current methods.

Main Methods:

  • GUANIN integrates established and novel methods for content normalization, offering extensive options for reference gene selection and evaluation.
  • The tool allows the use of endogenous gene subsets as reference genes, mitigating issues with traditional housekeeping gene selection.
  • A user-friendly Graphical User Interface (GUI) facilitates interaction with the data preprocessing workflow without requiring programming expertise.

Main Results:

  • GUANIN provides a straightforward and experiment-specific normalization approach with configurable parameters and suggested defaults.
  • The tool generates informative output files that support iterative refinement of the normalization process.
  • Performance evaluations indicate that GUANIN matches or surpasses existing normalization methods.

Conclusions:

  • GUANIN offers a powerful, flexible, and accessible solution for NanoString data content normalization.
  • The tool empowers researchers to perform complex data preprocessing with ease, improving the accuracy and reliability of gene expression analysis.