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Project #15884
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#15884 : Setup of bioinformatic pipelines for paleo(meta)genomics
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Name of Applicant : Nicolás RASCOVAN
Date of application : 06-10-2020
Unit : Department of Genomes and Genetics
Location : Yersin Building (24), 2nd floor, office 06/07
Phone : 0782780375
@ Mail : nicolas.rascovan@pasteur.fr

Project context and summary :

Paleo(meta)genomics is an emerging and rapidly growing field where most is yet to be done. In most cases, it consists in the analysis of ancient DNA high-throughput sequencing data obtained from archaeological material or historical samples, and the goal is to retrieve and interpret the genomic information from species that from the past (microbial, eukaryotic, etc.) It combines tools borrowed from different fields, such as genomics, computational biology, microbial ecology, phylogenetics, population genetics, etc. However, at the moment there are no well-established tools for the analysis of this type of data. Hence, each lab must develop custom solutions, combining existing tools or developing new ones to meet the goals of their research programs. As a recently established lab, the microbial paleogenomics unit will spend the upcoming months setting up diverse pipelines and analysis tools for the different projects that will be developed in the coming years, many of which have been already used but need to be re-written in an understandable languaje and structure.


Related team publications :
Rascovan, N et al. (2019) “Emergence and spread of basal lineages of Y. pestis during the Neolithic decline”. Cell doi.org/10.1016/j.cell.2018.11.005
Warinner, C. et al. A Robust Framework for Microbial Archaeology. Annual review of genomics and human genetics 18, 321-356, doi:10.1146/annurev-genom-091416-035526 (2017)
Bos, K. I. et al. Paleomicrobiology: Diagnosis and Evolution of Ancient Pathogens. Annual review of microbiology 73, 639-666, doi:10.1146/annurev-micro-090817-062436 (2019)
Service Delivery
Project Manager : damien.mornico@pasteur.fr
Status : In Progress


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