Transcriptomic data analysis
Transcriptomics is the analysis of the RNA transcripts produced by the genome under different biotic and abiotic situations. This identifies the genes and pathways that are expressed in response to different conditions, providing a link between the genome and proteome.
What do we offer?
Exploring RNA sequencing data using tailor-made pipelines that are reproducible and robust to accurately identify transcriptional differences. Transcriptomes are analysed using a combination of in-house developed and publicly available tools to effectively assemble and align RNA sequence reads. This can be done for samples with or without a reference genome. Differential expression is determined at a gene or transcript level and potential differentially expressed molecular or metabolic pathways are highlighted through gene enrichment analysis. Our in-house analytic pipeline, toRNAdo, is a Nextflow based pipeline that allows fast scaling processing on different cloud technologies (e.g. Google Cloud, Amazon AWS). The fully automated toRNAdo provides a final output as well as a QC report based on the MultiQC tool. Due to the modular nature of the MultiQC tool, modifications can be made for seamless adaption to a range of biological data, such as variant calling data.
On top of this, we design and implement web-based reporting interfaces that allow clients easy and interactive exploration of large transcriptomic datasets and the results of differential gene expression or pathway analysis.