clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

By Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing‐Yu He. Omics, 2012

30,116 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/e0daf5cfb6cb35b1602a6a34b798ac179b40cb33

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

1. Li Zhan
2. Martina Kutmon
3. Meijun Chen
4. Wenli Tang
5. Chris T. A. Evelo
6. Tianzhi Wu
7. Erqiang Hu
8. Zehan Dai

Citations in the corpus

• Spatiotemporal analysis of human intestinal development at single-cell resolution (2021, methodology): “7.1 Flowjo https://Flowjo.com Illumina bcl2fastq version 2.20.0.422 Illumina https://Illumina.com fastQC version 0.11.9 Babraham Institute https://www.bioinformatics.babraham.ac. uk/projects/fastqc/ Cellranger version 3.1.0 10x Genomics https://support.10xgenomics.com/ single-cell-gene-expression/so”
• WikiPathways: connecting communities (2020, methodology): “A number of R packages and online tools that perform enrichment analysis have incorporated WikiPathways into their methods and vignette examples, including g:Profiler (39), clusterProfiler (40), rSEA (41), Enrichr (42), IMPaLa (43) and WebGestalt (44).”
• COVID-19 immune features revealed by a large-scale single-cell transcriptome atlas (2021, positive): “Based on these genes, enriched GO termswere then acquired for each group of cells using R package clusterProfiler (Yu et al., 2012) following the default parameters.”
• Tumor Microenvironment Characterization in Gastric Cancer Identifies Prognostic and Immunotherapeutically Relevant Gene Signatures (2019, methodology): “Next, the clusterProfiler R package (32) was adopted to annotate gene patterns.”