Tag Archives: bioconductor

5′-end sequencing assays, and Cap Analysis of Gene Expression (CAGE) in particular, have been instrumental in studying transcriptional regulation. 5′-end methods provide genome-wide maps of...

RNA-seq, wherein RNA transcripts expressed in a sample are sequenced and quantified, has become a widely used technique to study disease and development. With RNA-seq, transcription abundance can be measured, differential expression genes...

Researchers from University of Lausanne have developed BgeeDB, a collection of functions to import into R re-annotated, quality-controlled and reprocessed expression data available in the Bgee database. This includes data from thousands of...

Data exploration is critical to the comprehension of large biological datasets obtained by high-throughput assays such as sequencing. Interactive exploration fosters the generation of novel data-driven hypotheses...

Clustering of genes and/or samples is a common task in gene expression analysis. The goals in clustering can vary, but an important scenario is that of...

The analysis of modular gene co-expression networks is a well-established method commonly used for discovering the systems-level functionality of genes. In addition, these studies provide a basis for the discovery of clinically relevant molecular pathways underlying different diseases and conditions. ...

Gene set enrichment analysis is a popular approach for prioritising the biological processes perturbed in genomic datasets. The Bioconductor project hosts over 80 software packages capable of gene set...

Bioinformatics publications typically include complex software workflows that are difficult to describe in a manuscript. University of Washington, Tacoma researchers describe and demonstrate the use of interactive software notebooks to document and distribute bioinformatics research. They provide a user-friendly tool, ...

Speaker – Davide Risso Start Date: October 27, 2017 End Date: October 27, 2017 Time: 5:00 pm To 7:00 pm Location: 430 East 67th Street – Room RRL-116 Website: http://bit.ly/2kWIQqF Description: In this hands-on workshop I will show you how ...

Transcriptome analysis is the determination of differentially expressed genes across experimental conditions. For this, the next-generation sequencing of RNA (RNA-seq) is an increasingly cost-effective technology for the analysis of transcriptomes with several advantages over gene expression microarrays, such as its ...