Bioinformatics Scientist MRes Apprenticeship

Apprenticeship Course Homepage

Module One - Bioinformatics Methods

1. RNASeq Submission file
2. RNASeq Genome file
3. RNASeq Dataset

Data
https://figshare.com/s/109c4c53b42a65e6e74d

Methodology

https://combine-lab.github.io/salmon/getting_started/

Patro, R., Duggal, G., Love, M. I., Irizarry, R. A., & Kingsford, C. (2017). Salmon provides fast and bias-aware quantification of transcript expression. Nature Methods

For calculating differential gene expression online

http://bioinformatics.sdstate.edu/idep/

Ge, S.X., Son, E.W. & Yao, R. iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data. BMC Bioinformatics 19, 534 (2018). https://doi.org/10.1186/s12859-018-2486-6

Module Two - Introduction to Statistics

1. Test datasets
2. Guide to SPSS
2. Assessment datasets (Q1 and Q2)

Module Three - Programming in Python

1. Multi-fasta file

Module Four - Programming in R

1. Test datasets