Teaching

Data Science Capstone (DATA3888), guest lecturer (2019 - present)

I guest lecturing on ensemble, semi-supervised, and deep learning in unit DATA3888, Data Science Capstone.

Lecture codes
  • Ensemble learning
  • Semi-supervised learning


    • References

    Yang, P.†, Ormerod, J., Liu, W., Ma, C., Zomaya, A., Yang, J. (2018) AdaSampling for positive-unlabeled and label noise learning with bioinformatics applications. IEEE Transactions on Cybernetics, doi:10.1109/TCYB.2018.2816984 [PDF], [Repo]



    Molecular Systems Biology (QBIO2001), lecturer (2018 - present)

    I'm a lecturer of Molecular Systems Biology (QBIO2001) jointly offered by the School of Mathematics and Statistics, and Life and Environmental Sciences.

    Lecture codes
  • Biological network reconstruction and visualisation (html, Rmd)
  • Biological network analysis and visualisation (html, Rmd)


    • References

    Yang, P.†, Zheng, X., Jayaswal, V., Hu, G., Yang, J. & Jothi, R. (2015). Knowledge-based analysis for detecting key signaling events from time-series phosphoproteomics data. PLoS Computational Biology, 11(8), e1004403. [Full Text], [Github Repo], [CRAN R package]



    Computational Statistical Methods (STAT5003), lecturer (2016 - 2018)

    I was the lecturer of Computational Statistical Methods (STAT5003), from 2016 - 2018, offered by the School of Mathematics and Statistics. Find more details regarding this unit here.



    Workshops & Tutorials

    Single Cell Plus, a generic pipeline

    This tutorial introduces a collection of methods and tools our group has developed for analysing single-cell omics data.

    Single Cell Plus toturial
  • Single Cell Plus, BioinfoSummer 2019




    • Phosphoproteomics data analysis using PhosR

    PhosR is an R package designed for phosphoproteomics data analysis. The PhosR repo provides the installation of the package and contains examples and tutorials for common analysis steps performed for phosphoproteomics datasets.

    PhosR tutorials
  • PhosR STAR Protocol
  • PhosR Vignette
  • PhosR BioinfoSummer 2019 tutorial


    • PhosR package repositories
  • PhosR Github Repo
  • PhosR Bioconductor


    • PhosR references

    Kim, H.✢, Kim, T.✢, Hoffman, N., Xiao, D., James, D., Humphrey, S. & Yang, P.† (2021) PhosR enables processing and functional analysis of phosphoproteomic data. Cell Reports, 34(8), 108771. [Full Text]

    Kim, H., Kim, T., Xiao, D. & Yang, P.† (2021) Protocol for the processing and downstream analysis of phosphoproteomic data with PhosR. STAR Protocols, 2(2), 100585. [Full Text]