Free workshop alert! "RNA-seq: Functional Enrichment Analysis" with Kezia Gitareja and Renee Papaluca (University of Melbourne)
• Learn functional enrichment analysis on RNA-seq data using R packages like clusterProfiler, STRINGdb, and RegEnrich
• Gain insights through pathways/network analysis
• Learn functional enrichment analysis on RNA-seq data using R packages like clusterProfiler, STRINGdb, and RegEnrich
• Gain insights through pathways/network analysis
RNA-seq: Functional Enrichment Analysis
This workshop aims to provide participants with the skills to perform functional enrichment analysis on RNA-seq data.
www.eventbrite.com
November 4, 2025 at 11:00 PM
Free workshop alert! "RNA-seq: Functional Enrichment Analysis" with Kezia Gitareja and Renee Papaluca (University of Melbourne)
• Learn functional enrichment analysis on RNA-seq data using R packages like clusterProfiler, STRINGdb, and RegEnrich
• Gain insights through pathways/network analysis
• Learn functional enrichment analysis on RNA-seq data using R packages like clusterProfiler, STRINGdb, and RegEnrich
• Gain insights through pathways/network analysis
Using clusterProfiler to characterize multiomics data www.nature.com/articles/s41...
Using clusterProfiler to characterize multiomics data - Nature Protocols
clusterProfiler is a tool for characterizing and visualizing omics data. The example procedures show integration of metabolomics and metagenomics analyses, characterization of transcription factors an...
www.nature.com
January 13, 2025 at 5:27 PM
Using clusterProfiler to characterize multiomics data www.nature.com/articles/s41...
ClusterProfiler is a software package for characterizing and interpreting omics data. Functional enrichment can be achieved using either over-representation or gene set enrichment analyses; it supports the use of a variety of databases, e.g., Gene Ontology and Kyoto Encyclopedia of Genes and Genomes
Using clusterProfiler to characterize multiomics data
Nature Protocols - clusterProfiler is a tool for characterizing and visualizing omics data. The example procedures show integration of metabolomics and metagenomics analyses, characterization of...
rdcu.be
October 8, 2025 at 8:20 AM
ClusterProfiler is a software package for characterizing and interpreting omics data. Functional enrichment can be achieved using either over-representation or gene set enrichment analyses; it supports the use of a variety of databases, e.g., Gene Ontology and Kyoto Encyclopedia of Genes and Genomes
Authors published a paper in #BioRxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #methodsmatter
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #methodsmatter
Single-Cell Transcriptomics Reveals Dynamic Microglial States and Neural-Immune Networks in Human Diabetic Retinopathy
www.biorxiv.org
February 13, 2025 at 12:24 AM
Authors published a paper in #BioRxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #methodsmatter
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #methodsmatter
Seems like some of my workhorse R packages for this type of analysis (clusterProfiler) don’t use metabolite IDs, and most R packages I’ve found (eg, metaboanalyst, fella, etc) are focused on ORA or just kinda weird imo… any suggestions appreciated!
October 20, 2023 at 9:42 PM
Seems like some of my workhorse R packages for this type of analysis (clusterProfiler) don’t use metabolite IDs, and most R packages I’ve found (eg, metaboanalyst, fella, etc) are focused on ORA or just kinda weird imo… any suggestions appreciated!
Authors published a paper in #BioRxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #reproducibility
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #reproducibility
www.biorxiv.org
March 17, 2025 at 12:00 PM
Authors published a paper in #BioRxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #reproducibility
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #RRID #reproducibility
January 24, 2025 at 9:00 PM
New in @theinnovation.bsky.social! Thirteen years of clusterProfiler.
This article provides a comprehensive review of the 13-year developmental trajectory of the research team in advancing #clusterProfiler. Read more
doi.org/10.1016/j.xi...
#bioinformatics #genomics #lifesciences
This article provides a comprehensive review of the 13-year developmental trajectory of the research team in advancing #clusterProfiler. Read more
doi.org/10.1016/j.xi...
#bioinformatics #genomics #lifesciences
December 8, 2024 at 5:06 AM
New in @theinnovation.bsky.social! Thirteen years of clusterProfiler.
This article provides a comprehensive review of the 13-year developmental trajectory of the research team in advancing #clusterProfiler. Read more
doi.org/10.1016/j.xi...
#bioinformatics #genomics #lifesciences
This article provides a comprehensive review of the 13-year developmental trajectory of the research team in advancing #clusterProfiler. Read more
doi.org/10.1016/j.xi...
#bioinformatics #genomics #lifesciences
Authors published a paper in Biorxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #RRID
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #RRID
www.biorxiv.org
July 26, 2025 at 12:00 PM
Authors published a paper in Biorxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #RRID
SciScore made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #STMpublishing #RRID
오늘의 R 일기: clusterProfiler 패키지 구동에 성공하였다.
July 13, 2023 at 9:33 AM
오늘의 R 일기: clusterProfiler 패키지 구동에 성공하였다.
Thirteen years of clusterProfiler. www.cell.com/the-innovati...
December 8, 2024 at 8:26 AM
Thirteen years of clusterProfiler. www.cell.com/the-innovati...
Besides basic #RProgramming ( #tidyverse · #ggplot2 · #DESeq2 · #GEOquery · #org.Hs.eg.db · #clusterProfiler · #DoubletFinder · #EnhancedVolcano · #celldex · #pheatmap · #SingleR · #pathview) for #RNASeq · advanced packges #Seurat · #SeuratExtend · #monocle3 open new insight into #SingleCellAnalysis
November 28, 2024 at 4:10 PM
Besides basic #RProgramming ( #tidyverse · #ggplot2 · #DESeq2 · #GEOquery · #org.Hs.eg.db · #clusterProfiler · #DoubletFinder · #EnhancedVolcano · #celldex · #pheatmap · #SingleR · #pathview) for #RNASeq · advanced packges #Seurat · #SeuratExtend · #monocle3 open new insight into #SingleCellAnalysis
Authors published a paper in #BioRxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #methodsmatter #RRID
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #methodsmatter #RRID
MAIT cell deficiency exacerbates neuroinflammation in P301S human tau transgenic mice
www.biorxiv.org
February 10, 2025 at 9:12 PM
Authors published a paper in #BioRxiv, they used clusterProfiler in the study. Including #RRIDs will make this less ambiguous.
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #methodsmatter #RRID
SciScore.com made a table with this resource, see “Automated Services” module (download as csv, xml or #jats) #methodsmatter #RRID
Using clusterProfiler to characterize multiomics data www.nature.com/articles/s41... 🧬🖥️
Using clusterProfiler to characterize multiomics data - Nature Protocols
clusterProfiler is a tool for characterizing and visualizing omics data. The example procedures show integration of metabolomics and metagenomics analyses, characterization of transcription factors an...
www.nature.com
July 31, 2024 at 8:44 PM
Using clusterProfiler to characterize multiomics data www.nature.com/articles/s41... 🧬🖥️
Besides learning #BASH, I explored #R packages such as #tidyverse, #ggplot2, #DESeq2, #GEOquery, #org.Hs.eg.db, #clusterProfiler, #EnhancedVolcano, #celldex, #pheatmap, and #pathview, which open doors to further exploration of #RNASeq data. #Bioinformatics #RProgramming #Linux
January 14, 2025 at 5:50 PM
Besides learning #BASH, I explored #R packages such as #tidyverse, #ggplot2, #DESeq2, #GEOquery, #org.Hs.eg.db, #clusterProfiler, #EnhancedVolcano, #celldex, #pheatmap, and #pathview, which open doors to further exploration of #RNASeq data. #Bioinformatics #RProgramming #Linux
🎯Best of Best @theinnovation.bsky.social
Thirteen years of clusterProfiler
"Over 13 years of development, we have seen clusterProfiler applied to explore individual development, molecular mechanisms of diseases, and drug mechanisms of action."
www.cell.com/the-innovati...
Thirteen years of clusterProfiler
"Over 13 years of development, we have seen clusterProfiler applied to explore individual development, molecular mechanisms of diseases, and drug mechanisms of action."
www.cell.com/the-innovati...
Thirteen years of clusterProfiler
When the human genome was fully sequenced in 2003, research focus shifted to functional genomics, particularly the spatiotemporal expression of genes, which is crucial for understanding organism development, functional regulation, and disease mechanisms. A key step in this process is uncovering the biological pathways involved. The first bioinformatics tool for analyzing biological pathways using Gene Ontology (GO) was GO::TermFinder, a Perl module published in 2004 that implemented the over-representation analysis method.
www.cell.com
December 8, 2024 at 2:31 AM
🎯Best of Best @theinnovation.bsky.social
Thirteen years of clusterProfiler
"Over 13 years of development, we have seen clusterProfiler applied to explore individual development, molecular mechanisms of diseases, and drug mechanisms of action."
www.cell.com/the-innovati...
Thirteen years of clusterProfiler
"Over 13 years of development, we have seen clusterProfiler applied to explore individual development, molecular mechanisms of diseases, and drug mechanisms of action."
www.cell.com/the-innovati...
Clusterprofiler printed a citation whenever the library was loaded. I see no issue with this. It would help to also create a file upload able to citation managers to make things super easy.
November 18, 2024 at 3:55 PM
Clusterprofiler printed a citation whenever the library was loaded. I see no issue with this. It would help to also create a file upload able to citation managers to make things super easy.
Take a look at visualisations from the clusterProfiler R package - yulab-smu.top/biomedical-k...
📖 Introduction | Biomedical Knowledge Mining using GOSemSim and clusterProfiler
Biomedical knowledge mining using GOSemSim and clusterProfiler.
yulab-smu.top
February 9, 2025 at 2:14 AM
Take a look at visualisations from the clusterProfiler R package - yulab-smu.top/biomedical-k...
I see. There is {legendry}, {rstatix} and {tidyheatmaps}.
Maybe {clusterProfiler}, if you are working with gene expression data.
Maybe {clusterProfiler}, if you are working with gene expression data.
February 7, 2025 at 5:36 PM
I see. There is {legendry}, {rstatix} and {tidyheatmaps}.
Maybe {clusterProfiler}, if you are working with gene expression data.
Maybe {clusterProfiler}, if you are working with gene expression data.