This course provides comprehensive end-to-end training on how to perform and analyse data from long-read single-cell RNA-seq experiments.
Consisting of a mixture of conceptual and methodological lectures and hands-on bioinformatics sessions, we will provide an overview of the current long-read methods for single-cell experiments, data processing, through to data interpretation and presentation - including best practice and tips as learned first-hand by Earlham Institute’s faculty.
What will I learn?
- Detailed overview of single-cell long-read sequencing technologies
- Optimal method selection across diverse experimental applications
- Best practices in experimental design and data management
- End-to-end workflow for generating, processing, and interpreting long-read RNA-seq data - specifically in the context of single-cell experiments, including:
- Quality control,
- Mapping,
- Annotation,
- Quantification,
- Dataset Integration,
- Single Cell Clustering and Annotation,
- Data Visualisation.
Who is this training for?
Researchers who are new to and are involved in design or delivery of project(s) centred around single-cell long-read sequencing. We particularly encourage those in the grant application or experimental design stages.
Course prerequisites
You should already have:
- Understanding of the key conceptual differences between bulk RNA-seq and single-cell RNA-seq
- Basic familiarity with laboratory methods commonly used in single-cell research, including cell isolation, cDNA generation, and library preparation workflows (e.g. 10x Genomics)
- Basic understanding of key molecular biology concepts underpinning scRNA-seq, including mRNA capture, reverse transcription, the role of cell barcodes, and unique molecular identifiers (UMIs)
- Basic familiarity with key concepts in standard (i.e. short-read) scRNA-seq data analysis, including the structure of single-cell gene expression data and common quality control metrics.
Registrants will be granted access to our pre-requisite materials nearer to the event to ensure all participants are familiar with the above concepts.
Review of these pre-requisite materials MUST be completed before the course takes place. It is anticipated that this should require no longer than 4 hours and does not need to be completed all at once.
