Virus discovery and epidemic tracing from high throughput metagenomic sequencing

Rezultaty

GUI Epidemiological analysis tools for pilot study
Epidemiological tracing tool
GUI entire platform for pilot study

GUI entire platform for pilot study

Virome comparison tool
Report on use of HPM for NGS data analysis
Pan-viral typing tool
NGS assembly tool
Classification tool
Phylogenetic analysis method for reticulation
GUI NGS assembly tool for pilot study
GUI Virome comparison tools for pilot study
GUI Pan-viral typing tool for pilot study

Colloquium
Plan for the dissemination and exploitation of results
Report pilot studies
Training module NGS data analysis

Publikacje

Phylogenetic analysis as a forensic tool in HIV transmission investigations

Autorzy: Ana B. Abecasis, Marta Pingarilho, Anne-Mieke Vandamme
Opublikowane w: AIDS, 2018, Strona(/y) 1, ISSN 0269-9370
Wydawca: Lippincott Williams & Wilkins Ltd.
DOI: 10.1097/QAD.0000000000001728

SpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes

Autorzy: Filip Bielejec, Guy Baele, Bram Vrancken, Marc A. Suchard, Andrew Rambaut, Philippe Lemey
Opublikowane w: Molecular Biology and Evolution, Numer 33/8, 2016, Strona(/y) 2167-2169, ISSN 0737-4038
Wydawca: Oxford University Press
DOI: 10.1093/molbev/msw082

Virus genomes reveal factors that spread and sustained the Ebola epidemic

Autorzy: Gytis Dudas, Luiz Max Carvalho, Trevor Bedford, Andrew J. Tatem, Guy Baele, Nuno R. Faria, Daniel J. Park, Jason T. Ladner, Armando Arias, Danny Asogun, Filip Bielejec, Sarah L. Caddy, Matthew Cotten, Jonathan D’Ambrozio, Simon Dellicour, Antonino Di Caro, Joseph W. Diclaro, Sophie Duraffour, Michael J. Elmore, Lawrence S. Fakoli, Ousmane Faye, Merle L. Gilbert, Sahr M. Gevao, Stephen Gire, Adri
Opublikowane w: Nature, Numer 544/7650, 2017, Strona(/y) 309-315, ISSN 0028-0836
Wydawca: Nature Publishing Group
DOI: 10.1038/nature22040

The multi-faceted dynamics of HIV-1 transmission in Northern Alberta: A combined analysis of virus genetic and public health data

Autorzy: B. Vrancken, D. Adachi, M. Benedet, A. Singh, R. Read, S. Shafran, G.D. Taylor, K. Simmonds, C. Sikora, P. Lemey, C.L. Charlton, J.W. Tang
Opublikowane w: Infection, Genetics and Evolution, Numer 52, 2017, Strona(/y) 100-105, ISSN 1567-1348
Wydawca: Elsevier BV
DOI: 10.1016/j.meegid.2017.04.005

Challenges in the analysis of viral metagenomes

Autorzy: Rebecca Rose, Bede Constantinides, Avraam Tapinos, David L Robertson, Mattia Prosperi
Opublikowane w: Virus Evolution, Numer 2/2, 2016, Strona(/y) vew022, ISSN 2057-1577
Wydawca: Oxford Journals
DOI: 10.1093/ve/vew022

Visual programming for next-generation sequencing data analytics

Autorzy: Franco Milicchio, Rebecca Rose, Jiang Bian, Jae Min, Mattia Prosperi
Opublikowane w: BioData Mining, Numer 9/1, 2016, ISSN 1756-0381
Wydawca: BioMed Central
DOI: 10.1186/s13040-016-0095-3

Genome Sequences of a Novel Vietnamese Bat Bunyavirus

Autorzy: Bas B. Oude Munnink, My V. T. Phan, Lia van der Hoek, Paul Kellam, Matthew Cotten
Opublikowane w: Genome Announcements, Numer 4/6, 2016, Strona(/y) e01366-16, ISSN 2169-8287
Wydawca: Genome Announcements
DOI: 10.1128/genomeA.01366-16

Rezultaty

Publikacje

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