PhD thesis

Author

Nils Eling

Title

Quantifying expression variability in single-cell RNA sequencing data

How to compile this thesis

Clone this thesis into a local folder using:

clone https://github.com/nilseling/Thesis.git

To compile the thesis, change to the Thesis folder and use latexmk:

cd Thesis
latexmk -pdf main.tex

Where to access this thesis

The pdf version of this thesis can be accessed here: https://www.repository.cam.ac.uk/handle/1810/291806

How to cite this thesis

The work presented in this thesis has been done by me in collaboration with the persons listed in each section. When using to information of this thesis, please cite the associated papers:

Introduction: Challenges in measuring and understanding biological noise.

Nils Eling*, Michael D. Morgan*, John C. Marioni*, Challenges in measuring and understanding biological noise., Nature Reviews Genetics, 2019

Chapter 2: Aging increases cell-to-cell transcriptional variability upon immune stimulation

Celia P. Martinez-Jimenez*, Nils Eling*, Hung-Chang Chen, Catalina A. Vallejos, Aleksandra Kolodziejczyk, Frances Connor, Lovorka Stojic, Tim F. Rayner, Michael J. T. Stubbington, Sarah A. Teichmann, Maike de la Roche, John C. Marioni, Duncan T. Odom. Ageing increases cell-to-cell transcriptional variability upon immune stimulation. Science, 1436: 1433-1436, 2017, (* equal contributions)

Chapter 3: Correcting the Mean-Variance Dependency for Differential Variability Testing Using Single-Cell RNA Sequencing Data

Nils Eling, Arianne C. Richard, Sylvia Richardson, John C. Marioni, Catalina A. Vallejos. Correcting the Mean-Variance Dependency for Differential Variability Testing Using Single-Cell RNA Sequencing Data. Cell Systems, 7: 284-294, 2018

Chapter 4: Staged developmental mapping and X chromosome transcriptional dynamics during mouse spermatogenesis

Christina Ernst*, Nils Eling*, Celia P. Martinez-Jimenez, John C. Marioni, Duncan T. Odom. Staged developmental mapping and X chromosome transcriptional dynamics during mouse spermatogenesis. Nature Communications, 10, 2019, (* equal contributions)

The figures in the introduction are my own work. When using or adapting them, please cite this thesis as follows:

Eling, N. (2019). Quantifying expression variability in single-cell RNA sequencing data

Acknowlegments

• Krishna Kumar - Original CUED PhD thesis template