Guangchuang Yu

Research interests

Publications

• Using clusterProfiler to characterize multiomics data

  Nature Protocols · 2024 · 10.1038/s41596-024-01020-z

• Thirteen years of clusterProfiler

  The Innovation · 2024 · 10.1016/j.xinn.2024.100722

• MicrobiotaProcess: A comprehensive R package for deep mining microbiome

  The Innovation · 2023 · 10.1016/j.xinn.2023.100388

• Exploring Epigenomic Datasets by ChIPseeker

  Current Protocols · 2022 · 10.1002/cpz1.585

• Ggtree : A serialized data object for visualization of a phylogenetic tree and annotation data

  iMeta · 2022 · 10.1002/imt2.56

• ggmsa: a visual exploration tool for multiple sequence alignment and associated data

  Briefings in Bioinformatics · 2022 · 10.1093/bib/bbac222

• Data Integration, Manipulation and Visualization of Phylogenetic Trees

  · 2022 · 10.1201/9781003279242

• IOBR: Multi-Omics Immuno-Oncology Biological Research to Decode Tumor Microenvironment and Signatures

  Frontiers in Immunology · 2021 · 10.3389/fimmu.2021.687975

• clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

  The Innovation · 2021 · https://doi.org/10.1016/j.xinn.2021.100141

• Use ggbreak to Effectively Utilize Plotting Space to Deal With Large Datasets and Outliers

  Frontiers in Genetics · 2021 · 10.3389/fgene.2021.774846

• ggtreeExtra: Compact Visualization of Richly Annotated Phylogenetic Data

  Molecular Biology and Evolution · 2021 · 10.1093/molbev/msab166

• ggVennDiagram: An Intuitive, Easy-to-Use, and Highly Customizable R Package to Generate Venn Diagram

  Frontiers in Genetics · 2021 · 10.3389/fgene.2021.706907

• RIdeogram : drawing SVG graphics to visualize and map genome-wide data on the idiograms

  PeerJ Computer Science · 2020 · 10.7717/peerj-cs.251

• Using ggtree to Visualize Data on Tree‐Like Structures

  Current Protocols in Bioinformatics · 2020 · 10.1002/cpbi.96

• Gene Ontology Semantic Similarity Analysis Using GOSemSim

  Methods in molecular biology · 2020 · 10.1007/978-1-0716-0301-7_11

• Gut microbiota and metabolite alterations associated with reduced bone mineral density or bone metabolic indexes in postmenopausal osteoporosis

  Aging · 2020 · 10.18632/aging.103168

• Treeio: An R Package for Phylogenetic Tree Input and Output with Richly Annotated and Associated Data

  Molecular Biology and Evolution · 2019 · https://doi.org/10.1093/molbev/msz240

• Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree

  Molecular Biology and Evolution · 2018 · https://doi.org/10.1093/molbev/msy194

• ggtree : an r package for visualization and annotation of phylogenetic trees with their covariates and other associated data

  Methods in Ecology and Evolution · 2016 · https://doi.org/10.1111/2041-210x.12628

• ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization

  Bioinformatics · 2015 · https://doi.org/10.1093/bioinformatics/btv145

• ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization

  Molecular BioSystems · 2015 · https://doi.org/10.1039/c5mb00663e

• DOSE: an R/Bioconductor package for disease ontology semantic and enrichment analysis

  Bioinformatics · 2014 · 10.1093/bioinformatics/btu684

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

  OMICS A Journal of Integrative Biology · 2012 · https://doi.org/10.1089/omi.2011.0118

• GOSemSim: an R package for measuring semantic similarity among GO terms and gene products

  Bioinformatics · 2010 · 10.1093/bioinformatics/btq064

Current projects

No projects listed.