hi.nextflu.org

HI.nextflu / H3N2 / 3y

Real-time tracking of seasonal influenza. Virus evolution in humans. HI distance from focus. Click (repeatedly) on a branch to zoom. Input mutations as position amino acid, i.e. 159Y. Clades as clade name, i.e. 3c2.a. And add locations as /AS. By default, positions are interpreted as residues in HA1. You can specify the subunit as HA2:18V. Alternatively, simply click on variable positions in the graph below. For help with the nextflu interface or watch the tutorial video below. In the color by. To select...

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HI.nextflu / H3N2 / 3y | hi.nextflu.org Reviews

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Real-time tracking of seasonal influenza. Virus evolution in humans. HI distance from focus. Click (repeatedly) on a branch to zoom. Input mutations as position amino acid, i.e. 159Y. Clades as clade name, i.e. 3c2.a. And add locations as /AS. By default, positions are interpreted as residues in HA1. You can specify the subunit as HA2:18V. Alternatively, simply click on variable positions in the graph below. For help with the nextflu interface or watch the tutorial video below. In the color by. To select...

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2 virus

3 resolution

4 methods

5 reports

6 phylogeny

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9 antigenic advance

10 epitope mutations

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HI.nextflu / H3N2 / 3y | hi.nextflu.org Reviews

https://hi.nextflu.org

Real-time tracking of seasonal influenza. Virus evolution in humans. HI distance from focus. Click (repeatedly) on a branch to zoom. Input mutations as position amino acid, i.e. 159Y. Clades as clade name, i.e. 3c2.a. And add locations as /AS. By default, positions are interpreted as residues in HA1. You can specify the subunit as HA2:18V. Alternatively, simply click on variable positions in the graph below. For help with the nextflu interface or watch the tutorial video below. In the color by. To select...

INTERNAL PAGES

hi.nextflu.org

1

nextflu / methods

http://hi.nextflu.org/methods

Real-time tracking of seasonal influenza. Virus evolution in humans. All source code is publicly available. And the exact steps of the nextflu algorithms are detailed in the processing pipeline files: H3N2 process.py. And Yam process.py. Here we give an overview of these methods. Broadly, nextflu. Contains two separate functions, the augur. Pipeline that processes FASTA sequence data and compiles JSON files, and auspice. Visualization package that displays these results in the browser. Sun et al, 2013.

2

HI.nextflu / H1N1pdm / 6y

http://hi.nextflu.org/H1N1pdm

Real-time tracking of seasonal influenza. Virus evolution in humans. HI distance from focus. Click (repeatedly) on a branch to zoom. Input mutations as position amino acid, i.e. 159Y. Clades as clade name, i.e. 3c2.a. And add locations as /AS. By default, positions are interpreted as residues in HA1. You can specify the subunit as HA2:18V. Alternatively, simply click on variable positions in the graph below. For help with the nextflu interface or watch the tutorial video below. In the color by. To select...

3

nextflu / help

http://hi.nextflu.org/help

Real-time tracking of seasonal influenza. Virus evolution in humans. The date slider allows exploration of viruses isolations through time. Color tree by epitope evolution. Are based on HA structure and exposed residues. Multiple recent mutations at epitope sites have been suggested. To be predictive for strains dominating future seasons. Color tree by evolution outside epitopes. Mutations outside of the epitopes (see above) - termed non-epitope sites. Color tree by evolution at the receptor binding site.

4

Seasonal influenza circulation patterns and future projections

http://hi.nextflu.org/reports/sep-2015

Real-time tracking of seasonal influenza. Virus evolution in humans. Seasonal influenza circulation patterns and future projections. September 16, 2015. This is not meant as a comprehensive report, but is instead intended as particular observations that we've made that may be of relevance. Please also note that observed patterns reflect the GISAID database and may not be entirely representative of underlying dynamics. Summarizing data from recent reports by the WHO CC London. Thus, 3c2.a and 3c3....We ob...

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HI.nextflu / Vic / 6y

http://hi.nextflu.org/Vic

Real-time tracking of seasonal influenza. Virus evolution in humans. HI distance from focus. Click (repeatedly) on a branch to zoom. Input mutations as position amino acid, i.e. 159Y. Clades as clade name, i.e. 3c2.a. And add locations as /AS. By default, positions are interpreted as residues in HA1. You can specify the subunit as HA2:18V. Alternatively, simply click on variable positions in the graph below. For help with the nextflu interface or watch the tutorial video below. In the color by. To select...

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http://bedford.io/blog

Zika sequencing in Brazil (or Trevor does fieldwork). 10 Jun 2016 by trvrb. I'm at the Rio airport now, heading home after 9 days in Brazil as part of the ground team of the ZiBRA project. As part of the team, I traveled from Natal to Recife along the northeastern coast collecting clinical samples for mobile Zika genome sequencing and analysis. This has been an illuminating experience and I'm grateful to Nick. And the rest of the team. For inviting me to be part of this. The RT diagnostic is particularly...

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Evolution, population genetics, and infectious diseases. The wide spread use of antibiotic has lead to evolution and spread of bacteria resistant to drugs. Multi-resistant strains tend to circulate in hospitals with a high density of people on antibiotic therapy. Treatment options are running out for some of the most resistant strains. To limit the spread and emergence of such variants, we need to understand the conditions under which resistance evolves, and how we can avoid or delay it. Who took on the ...

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hi.nextflu.org

HI.nextflu / H3N2 / 3y

Real-time tracking of seasonal influenza. Virus evolution in humans. HI distance from focus. Click (repeatedly) on a branch to zoom. Input mutations as position amino acid, i.e. 159Y. Clades as clade name, i.e. 3c2.a. And add locations as /AS. By default, positions are interpreted as residues in HA1. You can specify the subunit as HA2:18V. Alternatively, simply click on variable positions in the graph below. For help with the nextflu interface or watch the tutorial video below. In the color by. To select...

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