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RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research

RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research

RNA-Seq is a method for profiling transcription using high-throughput sequencing and is an important component of many research projects that wish to study transcript isoforms, condition specific expression, and transcriptional structure. The methods, tools, and technologies employed to perform RNA-Seq ...

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Visualization of nucleotide substitutions in the (micro)transcriptome

Visualization of nucleotide substitutions in the (micro)transcriptome

RNA-related applications of the next-generation sequencing (NGS) technologies require context-specific interpretations: e.g., sequence mismatches may indicate sites of RNA editing, or uneven read coverage often points to mature form of microRNA. Existing visualization tools traditionally show RNA molecules in two ...

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shRNA-seq data analysis with edgeR

shRNA-seq data analysis with edgeR

Pooled short hairpin RNA sequencing (shRNA-seq) screens are becoming increasingly popular in functional genomics research, and there is a need to establish optimal analysis tools to handle such data. This open-source shRNA processing pipeline in edgeR provides a complete analysis ...

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