IB Biology, Chemistry, Environmental Systems and Societies

IB Biology, Chemistry, Environmental Systems and Societies

Cytogenetics lab. Project: ‘Getting the balance right: How do allopolyploids successfully integrate interspecific nuclear and cytoplasmic genomes?’

Supervisors: Assoc Prof. Jennifer Tate, Prof. Murray CoxProject Title: Post whole genome duplication (WGD) changes in Tragopogon (Asteraceae) allopolyploids. Project Description: I studied the potential changes that occur immediately after a Whole Genome Duplication event and how it impacts the plastid and mitochondrial genomes in natural Allopolyploids. I used a mix of genomics/bioinformatics and wet-Lab tools to explore a wide range of properties of allopolyploids and their progenitor… Show more Supervisors: Assoc Prof. Jennifer Tate, Prof. Murray CoxProject Title: Post whole genome duplication (WGD) changes in Tragopogon (Asteraceae) allopolyploids. Project Description: I studied the potential changes that occur immediately after a Whole Genome Duplication event and how it impacts the plastid and mitochondrial genomes in natural Allopolyploids. I used a mix of genomics/bioinformatics and wet-Lab tools to explore a wide range of properties of allopolyploids and their progenitor diploid plant species.Skills Acquired: Experimental Design, Time management, PacBio sequencing and genome assembly (Flye, Canu, MeCat), Comparative genomics analysis, Circos, HPC, LI-COR, UNIX, Shell script, R, Plant growth management, Confocal microscopy, Plant leaf anatomy and physiology. Show less

Biology of cells, Biochemistry, Plant BiologyDetails: I have helped manage and teach labs for these courses. I work with other teaching staff to make sure the students learn the basic experimental and data analysis skills from different subject areas.

Biology, Environmental Systems and Societies, Physics

Biology, Environmental Systems and Societies.

Supervisor: Assoc Prof. Aziz MithaniProject: Stochastic model for variable rates of evolution in metabolic networks with neighbour dependence.Skills Acquired: Java, Applied Probability, Monte Carlo simulations.

Supervisor: Dr. Stewart ShumanProject: Determined the structure and function of trl1 in tRNA splicing in Candida albicans.Skills Acquired: Yeast, Protein crystallization for x-ray crystallography, Protein extraction and purification, SDS-PAGE, Protein function characterisation, TA/digestion cloning, mutagenesis.

Supervisor: Dr. Dirk SchnappingerProject: Developed a human challenge strain of Mycobacterium tuberculosis.Skills Acquired: Bacterial Culture with non-model bacterium, BP/LR cloning, Gene networks and circuits design, Luciferase assay, Promoter design and optimisation.

Supervisor: Dr. Olivier ElementoProject: Analysed whole genome sequence of Diffused Large B-cell Lymphoma patients to identify mutations.Skills Acquired: GATK pipeline for variant calling, UNIX, Shell script, R.

Supervisor: Dr. Danwei Huangfu Project: Introduced a 3xFLAG tag to TET1 endogenous protein in HuESCs using CRISPR-Cas9. Skills Acquired: Human and mice embryonic stem cells, Gene editing using CRISPR-Cas9, Cell culture (Adherent/Suspension).

Supervisor: Dr. Zakir UllahProject: Used fibroblast growth factors (Fgf4, Fgf2) to increase efficiency of iPS cells generation and generation of iPS cells from terminally differentiated polyploid cells.

Supervisor: Prof. Nicolas Salamin Project: Developed an automated pipeline to detect positive selection.

Supervisor: Dr. Muhammad TariqProject: Cloned HCV (3a) genome.