The MRC Consortium for Microbial Bioinformatics Fellowship 1

Lead Research Organisation: Swansea University
Department Name: Institute of Life Science Medical School

Abstract

Abstracts are not currently available in GtR for all funded research. This is normally because the abstract was not required at the time of proposal submission, but may be because it included sensitive information such as personal details.

Publications

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Arning N (2021) Machine learning to predict the source of campylobacteriosis using whole genome data. in PLoS genetics

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Berthenet E (2018) A GWAS on Helicobacter pylori strains points to genetic variants associated with gastric cancer risk. in BMC biology

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Berthenet E (2019) Source attribution of Campylobacter jejuni shows variable importance of chicken and ruminants reservoirs in non-invasive and invasive French clinical isolates. in Scientific reports

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Calland JK (2021) Quantifying bacterial evolution in the wild: A birthday problem for Campylobacter lineages. in PLoS genetics

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Cao Q (2015) Progressive genomic convergence of two Helicobacter pylori strains during mixed infection of a patient with chronic gastritis. in Gut

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Cui Y (2020) The landscape of coadaptation in Vibrio parahaemolyticus. in eLife

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Cui Y (2015) Epidemic Clones, Oceanic Gene Pools, and Eco-LD in the Free Living Marine Pathogen Vibrio parahaemolyticus. in Molecular biology and evolution

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Falush D (2016) Bacterial genomics: Microbial GWAS coming of age. in Nature microbiology

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Harris LG (2016) Biofilm Morphotypes and Population Structure among Staphylococcus epidermidis from Commensal and Clinical Samples. in PloS one

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Hellenthal G (2016) The Kalash Genetic Isolate? The Evidence for Recent Admixture. in American journal of human genetics

 
Title OrderedPainting 
Description Uses chromosome painting to measure relative recombination rates in different parts of the bacterial genome 
Type Of Technology Software 
Year Produced 2014 
Open Source License? Yes  
Impact Allows identification of regions in bacteria that recombine frequently 
URL https://github.com/bioprojects/orderedPainting
 
Title fineRADstructure 
Description Allows running of chromosome painting software on RadSeq data 
Type Of Technology Software 
Year Produced 2016 
Open Source License? Yes  
Impact Opens up fine scale population structure inference to new communities. 
URL https://github.com/millanek/fineRADstructure
 
Title metapalette 
Description A program for metagenomic taxonomic profiling 
Type Of Technology Software 
Year Produced 2016 
Open Source License? Yes  
Impact Makes it possible to assign metagenomic taxa flexibly at any taxonomic level. 
URL https://github.com/dkoslicki/MetaPalette