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BMC Bioinformatics|September 19, 2021
Fast and exact quantification of motif occurrences in biological sequencesMattia Prosperi, Simone Marini, Christina Boucher
Proceedings. IEEE International Conference on Healthcare Informatics|September 23, 2024
An average-case efficient two-stage algorithm for enumerating all longest common substrings of minimum length <math></math> between genome pairsMattia Prosperi, Simone Marini, Christina Boucher
Artificial Intelligence in Medicine|July 9, 2022
Assessing putative bias in prediction of anti-microbial resistance from real-world genotyping data under explicit causal assumptionsMattia Prosperi, Christina Boucher, Jiang Bian, et al.
Frontiers in Microbiology|March 24, 2023
The <i>K</i>-mer antibiotic resistance gene variant analyzer (KARGVA)Simone Marini, Christina Boucher, Noelle Noyes, et al.
Frontiers in Bioengineering and Biotechnology|November 3, 2022
KARGAMobile: Android app for portable, real-time, easily interpretable analysis of antibiotic resistance genes <i>via</i> nanopore sequencingAlexander Barquero, Simone Marini, Christina Boucher, et al.
Bioinformatics (Oxford, England)|July 15, 2025
Leveraging large language models to predict antibiotic resistance in Mycobacterium tuberculosisConrad Testagrose, Sakshi Pandey, Mohammadali Serajian, et al.
Briefings in Bioinformatics|February 25, 2022
Towards routine employment of computational tools for antimicrobial resistance determination via high-throughput sequencingSimone Marini, Rodrigo A Mora, Christina Boucher, et al.
... IEEE-EMBS International Conference on Biomedical and Health Informatics. IEEE-EMBS International Conference on Biomedical and Health Informatics|August 27, 2021
KARGA: Multi-platform Toolkit for <i>k</i>-mer-based Antibiotic Resistance Gene Analysis of High-throughput Sequencing DataMattia Prosperi, Simone Marini
Frontiers in Genetics|February 8, 2021
Exploring Prediction of Antimicrobial Resistance Based on Protein Solvent Accessibility VariationSimone Marini, Marco Oliva, Ilya B Slizovskiy, et al.
Bioinformatics (Oxford, England)|June 28, 2024
Scalable de novo classification of antibiotic resistance of Mycobacterium tuberculosisMohammadali Serajian, Simone Marini, Jarno N Alanko, et al.
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