João André Carriço

75 Seguidores

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The focus of my research are the data management and data analysis aspects related to microbial typing and microbiological questions in general. I've been involved in setting up online databases for EU Framework projects - http://euris.itqb.unl.pt and http://previs.itqb.unl.pt- and a online website for identification of the SCCmec type in Staphylococcus spp. - www.ccrbtyping.net. I've also implemented a website where users can compare partitions with known and well studied metrics - http://www.comparingpartitions.info. Currently I'm interested in 'in silico' population simulations a as a way to interpret data from sequence based typing methods and the development of new algorithms w...

ngs genomics microbial typing bioinformatics epidemiology ontologies microbiology partition concordance coefficients statistics clinical microbiology software pipelines hts api data analysis high throuput sequencing infectious diseases linked data database virulence factor phylogenetics next generation sequencing asm2015

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João André Carriço

Presentaciones

Eccmid meet the expert 2015

How to compare typing techniques:do’s and Don’t’s

Integrating phylogenetic inference and metadata visualization for NGS data

NGSonto and TyPon

Choosing the Right Microbial Typing Method: A Quantitative Approach

ECCMID 2016 - How to build actionable virulome databases

Computational Resources In Infectious Disease

Common languages in genomic epidemiology: from ontologies to algorithms

Making Use of NGS Data: From Reads to Trees and Annotations

Comparing Typing Methods : Do's and Don't's

Genomic Epidemiology: How High Throughput Sequencing changed our view on bacterial strain similarity

Software Pipelines: The Good, The Bad and The Ugly

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Engaging learning experiences

GenomeQuest -- The Bioinformatics Bottleneck

SNP Calling & Outbreak Reconstruction in a Monomorphic Pathogen