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Biased sampling confounds machine learning prediction of antimicrobial resistance | 10.1101/2025.01.07.631773 | 2025-01-10 |
Progress and Prospects for a Nucleic Acid Screening Test Set | 10.1089/apb.2023.0033 | 2024-09-01 |
Developing a Common Global Baseline for Nucleic Acid Synthesis Screening | 10.1089/apb.2023.0034 | 2024-06-01 |
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Beyond Biosecurity by Taxonomic Lists: Lessons, Challenges, and Opportunities | 10.1089/hs.2022.0109 | 2023-10-19 |
Ten simple rules for the sharing of bacterial genotype—Phenotype data on antimicrobial resistance | 10.1371/journal.pcbi.1011129 | 2023-06-22 |
Gauge your phage: benchmarking of bacteriophage identification tools in metagenomic sequencing data | 10.1186/s40168-023-01533-x | 2023-04-21 |
Safety by Design: Biosafety and Biosecurity in the Age of Synthetic Genomics | 10.1016/j.isci.2023.106165 | 2023-02 |
Rapid Genomic Characterization and Global Surveillance of Klebsiella Using Pathogenwatch | 10.1093/cid/ciab784 | 2021-12-01 |
Rapid Genomic Characterization and Global Surveillance of Klebsiella Using Pathogenwatch | 10.1101/2021.06.22.448967 | 2021-06-22 |
Gauge your phage: Benchmarking of bacteriophage identification tools in metagenomic sequencing data | 10.1101/2021.04.12.438782 | 2021-04-12 |
Increased power from conditional bacterial genome-wide association identifies macrolide resistance mutations in Neisseria gonorrhoeae | 10.1038/s41467-020-19250-6 | 2020-10-23 |
Improved Prediction of Bacterial Genotype-Phenotype Associations Using Interpretable Pangenome-Spanning Regressions | 10.1101/852426 | 2020-08-25 |
Adaptation to the cervical environment is associated with increased antibiotic susceptibility in Neisseria gonorrhoeae | 10.1038/s41467-020-17980-1 | 2020-08-17 |
Evolution of Salmonella enterica serotype Typhimurium driven by anthropogenic selection and niche adaptation | 10.1371/journal.pgen.1008850 | 2020-06-08 |
Computer says … | 10.1111/1740-9713.01404 | 2020-06 |
Lean, mean, learning machines | 10.1038/s41579-020-0357-4 | 2020 |
Whole-genome sequencing as part of national and international surveillance programmes for antimicrobial resistance: A roadmap | 10.1136/bmjgh-2019-002244 | 2020 |
Contrasting approaches to genome-wide association studies impact the detection of resistance mechanisms in Staphylococcus aureus | 10.1101/758144 | 2019-09-04 |
Evaluation of parameters affecting performance and reliability of machine learning-based antibiotic susceptibility testing from whole genome sequencing data | 10.1371/journal.pcbi.1007349 | 2019-09-03 |
We are falling behind on TB elimination targets: can whole-genome sequencing guide our efforts? | 10.1136/thoraxjnl-2019-213098 | 2019-09 |
Tracing outbreaks with machine learning | 10.1038/s41579-019-0153-1 | 2019-05 |
Convergent regulatory evolution and loss of flight in paleognathous birds | 10.1126/science.aat7244 | 2019-04-05 |
An African Salmonella Typhimurium ST313 sublineage with extensive drug-resistance and signatures of host adaptation | 10.1038/s41467-019-11844-z | 2019 |
Genomic correlates of extraintestinal infection are linked with changes in cell morphology in Campylobacter jejuni | 10.1099/mgen.0.000251 | 2019 |
Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis | 10.1038/s41467-019-09976-3 | 2019 |
Machine learning identifies signatures of host adaptation in the bacterial pathogen Salmonella enterica | 10.1371/journal.pgen.1007333 | 2018-05-08 |
Breaking the code of antibiotic resistance | 10.1038/nrmicro.2018.33 | 2018 |
Genomic, Transcriptomic, and Phenotypic Analyses of
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Why so narrow: Distribution of anti-sense regulated, type I toxin-antitoxin systems compared with type II and type III systems | 10.1080/15476286.2016.1272747 | 2017 |
A profile-based method for identifying functional divergence of orthologous genes in bacterial genomes | 10.1093/bioinformatics/btw518 | 2016 |
Robust Identification of Noncoding RNA from Transcriptomes Requires Phylogenetically-Informed Sampling | 10.1371/journal.pcbi.1003907 | 2014 |