Analysis of long read data from the minION, with application to malaria (Masters option available)

Analysis of long read data from the minION, with application to malaria (Masters option available)

Project details

This project will develop pipelines and analysis methods for a new type of long-read sequencing technology, minION data, which can be done via a desktop computer. 

The student will be based in the Bahlo lab, but collaborate closely with other labs working on minION data at the Institute, in particular the Ritchie lab. Data are currently being generated in collaboration with the Barry lab with a focus on the population genomics of two malaria parasites, P. vivax and P. falciparum. Several labs at the Institute are already working with this type of data. 

Candidates must have an interest in bioinformatics and genomics plus strong programming skills in R and python or perl. A major in a quantitative discipline such as statistics, or computing and a strong interest in genomics and genomic technologies would be ideal.

 

About our research group

The Bahlo lab is a bioinformatics lab located in the Population Health and Immunity division, consisting of 12 staff and students, including two PhD students and one Masters student.

We have a strong interest in statistical and population genomics and transcriptomics with a concurrent interest in relevant statistical methods, working in close collaboration with a variety of genetic and clinical collaborators, both in malaria and neurological diseases. The Bahlo lab has been working on malaria genomic data, including whole genome sequencing data for several years. A special interest is the detection of genetically related malaria isolates, a method pioneered by the Bahlo lab (Henden et al, BioRxiv, 2016), which will also be applied to minION data and extended to include additional information that the long read data gives.

 

Researchers:

Professor Melanie Bahlo

Melanie Bahlo
Professor
Melanie
Bahlo
Joint Division Head

Project Type: