20 Result(s)

Article

PowerBacGWAS: a computational pipeline to perform power calculations for bacterial genome-wide association studies

Genome-wide association studies (GWAS) are increasingly being applied to investigate the genetic basis of bacterial traits. However, approaches to perform power calculations for bacterial GWAS are limited. Her...

Francesc Coll, Theodore Gouliouris, Sebastian Bruchmann… in Communications Biology (2022)

Article

Correction to: The impacts of agricultural and urban land-use changes on plant and bird biodiversity in Costa Rica (1986–2014)

Andrea Montero, Joan Marull, Enric Tello, Claudio Cattaneo… in Regional Environmental Change (2021)

Article

Mathematical modelling for antibiotic resistance control policy: do we know enough?

Antibiotics remain the cornerstone of modern medicine. Yet there exists an inherent dilemma in their use: we are able to prevent harm by administering antibiotic treatment as necessary to both humans and anima...

Gwenan M. Knight, Nicholas G. Davies, Caroline Colijn… in BMC Infectious Diseases (2019)

Article

Author Correction: Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis

In the version of this article initially published, the URL listed for TubercuList was incorrect. The correct URL is https://mycobrowser.epfl.ch/. The error has been corrected in the HTML and PDF versions of t...

Francesc Coll, Jody Phelan, Grant A. Hill-Cawthorne, Mridul B. Nair… in Nature Genetics (2018)

Article

Evolution of mobile genetic element composition in an epidemic methicillin-resistant Staphylococcus aureus: temporal changes correlated with frequent loss and gain events

Horizontal transfer of mobile genetic elements (MGEs) that carry virulence and antimicrobial resistance genes mediates the evolution of methicillin-resistant Staphylococcus aureus, and the emergence of new MRSA c...

Dorota Jamrozy, Francesc Coll, Alison E. Mather, Simon R. Harris… in BMC Genomics (2017)

Article

Genomic surveillance reveals low prevalence of livestock-associated methicillin-resistant Staphylococcus aureus in the East of England

Livestock-associated methicillin-resistant Staphylococcus aureus (LA-MRSA) is an emerging problem in many parts of the world. LA-MRSA has been isolated previously from animals and humans in the United Kingdom (UK...

Ewan M. Harrison, Francesc Coll, Michelle S. Toleman, Beth Blane… in Scientific Reports (2017)

Article

Transmission of methicillin-resistant Staphylococcus aureus in long-term care facilities and their related healthcare networks

Long-term care facilities (LTCF) are potential reservoirs for methicillin-resistant Staphylococcus aureus (MRSA), control of which may reduce MRSA transmission and infection elsewhere in the healthcare system. Wh...

Ewan M. Harrison, Catherine Ludden, Hayley J. Brodrick, Beth Blane… in Genome Medicine (2016)

Article

Mycobacterium tuberculosis whole genome sequencing and protein structure modelling provides insights into anti-tuberculosis drug resistance

Combating the spread of drug resistant tuberculosis is a global health priority. Whole genome association studies are being applied to identify genetic determinants of resistance to anti-tuberculosis drugs. Pr...

Jody Phelan, Francesc Coll, Ruth McNerney, David B. Ascher… in BMC Medicine (2016)

Article

Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages

Approximately 10 % of the Mycobacterium tuberculosis genome is made up of two families of genes that are poorly characterized due to their high GC content and highly repetitive nature. The PE and PPE families are...

Jody E. Phelan, Francesc Coll, Indra Bergval, Richard M. Anthony… in BMC Genomics (2016)

Article

Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations

Although Bacillus Calmette-Guérin (BCG) vaccines against tuberculosis have been available for more than 90 years, their effectiveness has been hindered by variable protective efficacy and a lack of lasting mem...

Abdallah M. Abdallah, Grant A. Hill-Cawthorne, Thomas D. Otto… in Scientific Reports (2015)

Article

Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences

Mycobacterium tuberculosis drug resistance (DR) challenges effective tuberculosis disease control. Current molecular tests examine limited numbers of mutations, and although whole genome sequenci...

Francesc Coll, Ruth McNerney, Mark D Preston… in Genome Medicine (2015)

Article

PhyTB: Phylogenetic tree visualisation and sample positioning for M. tuberculosis

Phylogenetic-based classification of M. tuberculosis and other bacterial genomes is a core analysis for studying evolutionary hypotheses, disease outbreaks and transmission events. Whole genome sequencing is prov...

Ernest D Benavente, Francesc Coll, Nick Furnham, Ruth McNerney… in BMC Bioinformatics (2015)

Article

Unraveling Mycobacterium tuberculosis genomic diversity and evolution in Lisbon, Portugal, a highly drug resistant setting

Multidrug- (MDR) and extensively drug resistant (XDR) tuberculosis (TB) presents a challenge to disease control and elimination goals. In Lisbon, Portugal, specific and successful XDR-TB strains have been foun...

João Perdigão, Hugo Silva, Diana Machado, Rita Macedo, Fernando Maltez… in BMC Genomics (2014)

Article

A robust SNP barcode for ty** Mycobacterium tuberculosis complex strains

Strain-specific genomic diversity in the Mycobacterium tuberculosis complex (MTBC) is an important factor in pathogenesis that may affect virulence, transmissibility, host response and emergence of drug resistanc...

Francesc Coll, Ruth McNerney, José Afonso Guerra-Assunção… in Nature Communications (2014)