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List of works by Nicola De Maio

A Daily-Updated Database and Tools for Comprehensive SARS-CoV-2 Mutation-Annotated Trees

publication published on 01 December 2021

A phylodynamic workflow to rapidly gain insights into the dispersal history and dynamics of SARS-CoV-2 lineages

scientific article published on 09 May 2020

A phylogenetic approach for weighting genetic sequences

scientific article published on 28 May 2021

Accounting for spatial sampling patterns in Bayesian phylogeography

scientific article published on 01 December 2021

BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis

scientific article published on 08 April 2019

Bayesian reconstruction of transmission within outbreaks using genomic variants

scientific article published on 18 April 2018

Combining genomics and epidemiology to analyse bi-directional transmission of in a multi-host system

scientific article published on 17 December 2019

Community-like genome in single cells of the sulfur bacterium Achromatium oxaliferum.

scientific article published on 6 September 2017

Comparison of long-read sequencing technologies in the hybrid assembly of complex bacterial genomes

scientific article published on 30 August 2019

Covert dissemination of carbapenemase-producing Klebsiella pneumoniae (KPC) in a successfully controlled outbreak: long- and short-read whole-genome sequencing demonstrate multiple genetic modes of transmission. ⬇️

scientific article published on 7 August 2017

Estimating empirical codon hidden Markov models

scientific article published on 27 November 2012

Evolutionary History of the Global Emergence of the Escherichia coli Epidemic Clone ST131

scientific article published on 22 March 2016

Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism-calling pipelines

scientific article published on 01 February 2020

Genomic reconstruction of the SARS-CoV-2 epidemic in England

scientific article

Linking great apes genome evolution across time scales using polymorphism-aware phylogenetic models.

scientific article published on August 2013

New Routes to Phylogeography: A Bayesian Structured Coalescent Approximation

scientific article published on 12 August 2015

Pneumococcal capsule synthesis locus cps as evolutionary hotspot with potential to generate novel serotypes by recombination.

scientific article published on 08 June 2017

PoMo: An Allele Frequency-Based Approach for Species Tree Estimation

scientific article

PoPoolation: a toolbox for population genetic analysis of next generation sequencing data from pooled individuals

scientific article

Reproductive and post-reproductive life history of wild-caught Drosophila melanogaster under laboratory conditions.

scientific article

Reversible polymorphism-aware phylogenetic models and their application to tree inference.

scientific article published on 29 July 2016

SCOTTI: Efficient Reconstruction of Transmission within Outbreaks with the Structured Coalescent ⬇️

scientific article

Sampling bias and model choice in continuous phylogeography: Getting lost on a random walk

scientific article published on 06 January 2021

SimBac: simulation of whole bacterial genomes with homologous recombination

scientific article published on January 2016

Stability of SARS-CoV-2 phylogenies

scientific article published on 18 November 2020

The Bacterial Sequential Markov Coalescent

scientific article

Two Distinct Patterns of Clostridium Difficile Diversity Across Europe Indicates Contrasting Routes of Spread ⬇️

scientific article published on 6 April 2018

Variation in thermal performance and reaction norms among populations of Drosophila melanogaster

scientific article published on 26 August 2013

phastSim: Efficient simulation of sequence evolution for pandemic-scale datasets

scientific article published on 29 April 2022

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