The DOI matches its Crossref record; 52 of the 52 references it cites were found in a registry or an index.
Interpretation of differential gene expression results of RNA-seq data: review and integration
Open accessAbstract
Differential gene expression (DGE) analysis is one of the most common applications of RNA-sequencing (RNA-seq) data. This process allows for the elucidation of differentially expressed genes across two or more conditions and is widely used in many applications of RNA-seq data analysis. Interpretation of the DGE results can be nonintuitive and time consuming due to the variety of formats based on the tool of choice and the numerous pieces of information provided in these results files. Here we reviewed DGE results analysis from a functional point of view for various visualizations. We also provide an R/Bioconductor package, Visualization of Differential Gene Expression Results using R, which generates information-rich visualizations for the interpretation of DGE results from three widely used tools, Cuffdiff, DESeq2 and edgeR. The implemented functions are also tested on five real-world data sets, consisting of one human, one Malus domestica and three Vitis riparia data sets.
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Cites
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Cited by
Wei, L., Luan, S., Nagai, L. A. E., Su, R., & Zou, Q. (2019) · Bioinformatics · doi:10.1093/bioinformatics/bty824 · Cited by 175
Biomedical data, computational methods and tools for evaluating disease–disease associations
Xiang, J., Zhang, J., Zhao, Y., Wu, F.-X., & Li, M. (2022) · Briefings in Bioinformatics · doi:10.1093/bib/bbac006 · Cited by 49
Metadata
- Authors
- McDermaid, A., Monier, B., Zhao, J., Liu, B., & Ma, Q.
- Venue
- Briefings in Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2018-08-06
- Volume
- 20
- Issue
- 6
- Pages
- 2044-2054
- ISSN
- 1467-5463 (ISSN-L)
- 1477-4054
- OpenAlex
- W2887015436
- Cited by
- 319
- References
- 52
- FWCI
- 4.32
- Type
- journal article
- Language
- en
- Open access
- bronze
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