Around the genome: particularities of the circular mitochondrial DNA
IPATIMUP – Instituto de Patologia e Imunologia Molecular da Universidade do Porto –
Mitochondrial DNA (mtDNA) studies were always instrumental in phylogenetic inferences, namely in the field of human population genetics, allowing to placing the root of the human tree in East Africa, about 200,000 years ago. The success is such that sequencing efforts led already to the publication of more than 4,300 complete human mtDNAs (each ~16,600bp) and more than 7,600 complete eukaryote mtDNA genomes on GenBank. But if some of its characteristics make analyses easier and straightforward, such as the absence of recombination, other demands some conceptual modifications. One of these is the circularity of the molecule which renders common alignment algorithms and informatics tools, developed for linear molecules, not suitable for automatic alignment of many circular mtDNA genomes. Furthermore, the high heterogeneity in mutational rates between the two main regions in mtDNA (control and coding regions) and even between positions inside regions (namely between first/second and third codon positions) questions the validity of attributing the same weights to substitutions and the same gap penalties all over the molecule. The development and implementation of efficient cyclic algorithm is now crucial to retrieving most information from the huge amount of sequencing data being accumulated for mtDNA.
Date: 2008-May-29 Time: 16:30:00 Room: 336
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Workshop “Metabolism and mathematical models: Two for a tango” – 2nd Edition
Title: Workshop Metabolism and mathematical models: Two for a tango – 2nd Edition
Dates: October 25-26, 2022
Location: This workshop will be held in a virtual way
The topic of this workshop is metabolism in general, with a special focus, although not exclusive, on parasitology. Besides an exploration of the biological, biochemical and biomedical aspects, the workshop will also aim at presenting some of the mathematical modelling, algorithmic theory and software development that have become crucial to explore such aspects.
This workshop is being organised in the context of two projects, both with the Inria European Team Erable. One of the projects involves a partnership with the University of São Paulo (USP), in São Paulo, Brazil, more specifically the Institute of Mathematics and Statistics (IME) and the Institute of Biomedical Sciences – Inria Associated Team Capoeira – and the other involves the Inesc-ID/IST in Portugal, ETH in Zürich and EMBL in Heidelberg – H2020 Twinning Project Olissipo.
The workshop is open to all members of these two projects but also, importantly, to the community in general.
The program and more details are available here.