Nabil-Fareed Alikhan
Senior Bioinformatician
Nabil-Fareed is a Senior Bioinformatician at the Centre for Genomic Pathogen Surveillance. Nabil-Fareed has over a decade of research experience, with bioinformatics and research positions at the University of Warwick and Quadram Institute Bioscience. He holds a PhD from the University of Queensland, Australia. Nabil-Fareed’s research interests include the population genetics and pathogenesis of enteric pathogens, including Salmonella and E. coli.
During the COVID-19 pandemic, Nabil-Fareed was involved in building the bioinformatics infrastructure for his organisation’s participation in the national COVID-19 genome sequencing (COG-UK). Through the infrastructure he developed and ran, they released more than 80,000 SARS-CoV-2 genomes. These data, along with genomes across the UK have been presented in technical briefings to the UK government.
Nabil-Fareed is an avid software developer and writes software to assist research in microbial genomics, he has co-authored bioinformatics software such as GrapeTree, EnteroBase and BRIG.
Recent publications
Naming the unnamed: over 65,000 Candidatus names for unnamed Archaea and Bacteria in the Genome Taxonomy Database.
Journal article
Pallen MJ. et al, (2022), International journal of systematic and evolutionary microbiology, 72
Replacement of the Alpha variant of SARS-CoV-2 by the Delta variant in Lebanon between April and June 2021.
Journal article
Merhi G. et al, (2022), Microbial genomics, 8
Dynamics of Salmonella enterica and antimicrobial resistance in the Brazilian poultry industry and global impacts on public health.
Journal article
Alikhan N-F. et al, (2022), PLoS genetics, 18
Future-proofing and maximizing the utility of metadata: The PHA4GE SARS-CoV-2 contextual data specification package.
Journal article
Griffiths EJ. et al, (2022), GigaScience, 11
Clinical Performance of Direct RT-PCR Testing of Raw Saliva for Detection of SARS-CoV-2 in Symptomatic and Asymptomatic Individuals
Preprint
Castillo-Bravo R. et al, (2022)