MicrobesNG is a 5-year, 1.2m BBSRC-funded project to produce a world-leading microbial genome sequencing service and strain archiving resource, which launched at the SGM in March 2015. See the website for further details.
The Cloud Infrastructure for Microbial Genomics (CLIMB) is an 8.4m MRC-funded project to invest in bioinformatics and "big data" capacity building for the UK microbial genomics community. At heart it is four-site (Birmingham, Warwick, Cardiff and Swansea) connected virtual computing infrastructure. It is optimised for specific applications such as microbial genome alignment, de novo assembly and metagenomics. See the website for further details.
The E. coli O104:H4 outbreak in Germany
Nick was involved with the crowd-sourced analysis of genomics data from the Shiga-toxin producing E. coli O104:H4 outbreak in Germany. This outbreak caused more than 4,000 cases of disease and 50 deaths. Nick performed an initial assembly of data from the BGI on the 2nd of June 2011 which helped spark a flurry of crowd-sourced analysis, documented on the Github Wiki. Recently, the BBSRC made a video about this project which can be viewed below.
In his previous role, Nick was responsible for the maintenance and development of the comparative bacterial genomics database, xBASE. Although funding for this project has ceased, he continues to develop the high-throughput sequencing pipeline xBASE-NG to support their local sequencing efforts, as well as the rapid bacterial genome annotation service xBASE Annotation.
In collaboration with Lex Nederbragt, they are developing an open-source repository of sequencing and bioinformatics benchmarking datasets entitled Seqbench.
Nick aims to publish accompanying Github repositories with manuscripts as an aid to extensible and reproducible research, please see Nick's Github page for details.
With James Hadfield, Nick built Omicsmaps.com, a map of high-throughput sequencing instruments.
Professor Nick Loman's talk as part of the Life Sciences in Six event, held at University of Birmingham on 22 November 2016