April 30, 2024Computational and Structural Biotechnology JournalOpen Access

Challenges and opportunities in processing NanoString nCounter data

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Authors

JCJarosław ChilimoniukMedical University of Białystok AEAnna ErolMedical University of Białystok SRStefan RödigerBrandenburg University of Technology Cottbus-Senftenberg

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Implication

Methodological evaluation reviews eleven R packages for NanoString nCounter data analysis across five workflow stages, highlighting optimal pipelines for mRNA and miRNA research.

Key Points

NanoString nCounter analysis lacks standardized pipelines despite platform benefits in profiling mRNA and miRNA expression without amplification.
Comparative evaluation of eleven specialized R packages maps software tools across a five-step workflow from quality control to differential expression.
Establishing standardized processing pipelines across diverse R packages may resolve analytical bottlenecks and improve reproducibility in transcriptomics.

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Chilimoniuk et al. (2024) studied this question.

synapsesocial.com/papers/68e6ca8ab6db643587648cd8 https://doi.org/10.1016/j.csbj.2024.04.061

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Implication

Methodological evaluation reviews eleven R packages for NanoString nCounter data analysis across five workflow stages, highlighting optimal pipelines for mRNA and miRNA research.

Challenges and opportunities in processing NanoString nCounter data

Discussion

Member takes

Implication

Key Points

Cite This Study

Challenges and opportunities in processing NanoString nCounter data

Discussion

Member takes

Implication

Key Points

Cite This Study

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