Minulee Kodituwakku
- Researched AIM22 protein.
- Researched PDC mechanism.
- Researched phosphatase and kinases.
- Researched PDC deficiency.
- Developed hypotheses and aims.
- Researched yeast with lipoic acid diet experimental methods.
- Wrote hypothesis section.
- Designed and wrote lipoic acid diet yeast experiment (experiment 3).
- Wrote conclusion section.
Billy Chen
- Researched proteins involved in Diabetes.
- Researched NFU1 protein.
- Researched PDC deficiency.
- Researched lipoic acid metabolism and mechanism of lipoylation.
- Researched function of target proteins.
- Helped with interdisciplinary components.
- Designed and wrote PDC deficiency in yeast experiment (experiment 1).
- Formatted references section.
Alex Tan
- Ran Clauset-Newman-Moore algorithm.
- Analysed common nodes across multiple iterations of Louvain.
- Optimised Python implementation using multithreading.
- Implemented the 'reduced graph'.
- Created plots to visualise reduced graphs.
- Created betweenness vs degree centrality plot to find bottlenecks.
- Analysed shortest paths between pairs of nodes.
- Analysed common neighbours among nodes.
- Created Laplacian plot for spectral clustering.
- Wrote mathematical experimental methods with Gas-pard and Rezwan.
Ewan Macfarlane
- Worked on finding which community specified proteins were assigned to.
- Worked on generating plots of the two relevant subgraphs.
- Spectral Clustering Methods.
- Conducted initial protein knockout procedure.
- Collaborated with Ally on interdisciplinary components.
- Worked with Rezwan to design visuals and layout of the web pages.
- Collaborated on conclusions section.
Ally Birrell
- Researched PDC deficiency.
- Researched lipoic acid metabolism.
- Researched DLAT protein.
- Researched mouse models of PDC deficiency.
- Researched lipoic acid supplementation in mice.
- Edited hypothesis section.
- Wrote biochemistry section of background information.
- Collaborated with Ewan on interdisciplinary components.
- Edited biochemistry experimental overview.
- Designed and wrote mouse model experiment (experiment 4).
- Recorded and edited meeting minutes.
Gaspard Pairault
- Worked on Louvain algorithm on G to learn about PDH Complex and Enzymes.
- Compared the degree of specific proteins.
- Created new subgraphs based on result from Louvain algorithm.
- Ran nested Louvain algorithm on new subgraphs and interpretation of results.
- Statistical analysis of Degree and Centrality using standard and eigenvector methods.
- Plotting of results using histogram from Matplotlib.
- Wrote mathematical experimental methods with Alex and Rezwan.
- Collaborated on conclusions section.
Fiona Wang
- Researched current PDC deficiency treatments.
- Researched potential target proteins.
- Researched lipoic acid pathway and major proteins involved.
- Found yeast homologs for target proteins.
- Researched LIAS protein.
- Researched protein knockout and pulldown experiments in yeast.
- Researched mutagenesis of target proteins in human cells.
- Wrote biochemistry experiment overview.
- Designed and wrote yeast cell pulldown experiment (experiment 1).
- Designed and wrote human cell experiment (experiment 2).
Rezwanul Mustafa
- Worked on Data Cleaning and Preprocessing.
- Initial Community Finding Algorithm (Louvain).
- Ran Louvain algorithm.
- Searched for specific proteins in the Louvain community.
- Analysed the kinase using Leiden.
- Analysed common nodes across multiple iterations of Louvain and Leiden.
- Created plot of eigenvalue vs degree centrality.
- Wrote code to remove essential proteins and rename proteins.
- Created and wrote the HTML files for the portfolio website.
- Created and wrote the CSS code for the portfolio website.
- Linked the webpages with Bootstrap to create responsive and hand-held device friendly view of the webpages.
- Worked with Ewan to design visuals and layout of the web pages.
- Wrote mathematical experimental methods with Gaspard and Alex.
- Wrote maths section of background information.