Data from: Global circulation patterns of seasonal influenza viruses vary with antigenic drift

Bedford T, Riley S, Barr IG, Broor S, Chadha M, Cox NJ, Daniels RS, Gunasekaran CP, Hurt AC, Kelso A, Klimov A, Lewis NS, Li X, McCauley JW, Odagiri T, Potdar V, Rambaut A, Shu Y, Skepner E, Smith DJ, Suchard MA, Tashiro M, Wang D, Xu X, Lemey P, Russell CA

Date Published: June 2, 2015

DOI: http://dx.doi.org/10.5061/dryad.pc641

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title Phylogeographic tree sample for H1N1
Downloaded 36 times
Description BEAST .trees file for geo-tagged locations for H1N1
Download h1_large_geo.trees (23.00 Mb)
Details View File Details
Title Phylogeographic tree sample for H3N2
Downloaded 18 times
Description BEAST .trees file for geo-tagged locations for H3N2
Download h3_large_geo.trees (43.40 Mb)
Details View File Details
Title Phylogeographic tree sample for Vic
Downloaded 11 times
Description BEAST .trees file for geo-tagged locations for Vic
Download vic_large_geo.trees (21.60 Mb)
Details View File Details
Title Phylogeographic tree sample for Yam
Downloaded 12 times
Description BEAST .trees file for geo-tagged locations for Yam
Download yam_large_geo.trees (15.64 Mb)
Details View File Details
Title Phylogeographic H1N1 control file
Downloaded 29 times
Description BEAST .xml file to run phylogeographic analysis for H1N1. Requires "h1_large_sample.trees" as input.
Download h1_large_geo.xml (195.9 Kb)
Details View File Details
Title Phylogeographic H3N2 control file
Downloaded 10 times
Description BEAST .xml file to run phylogeographic analysis for H3N2. Requires "h3_large_sample.trees" as input.
Download h3_large_geo.xml (361.3 Kb)
Details View File Details
Title Phylogeographic Vic control file
Downloaded 5 times
Description BEAST .xml file to run phylogeographic analysis for Vic. Requires "vic_large_sample.trees" as input.
Download vic_large_geo.xml (183.3 Kb)
Details View File Details
Title Phylogeographic Yam control file
Downloaded 8 times
Description BEAST .xml file to run phylogeographic analysis for Yam. Requires "yam_large_sample.trees" as input.
Download yam_large_geo.xml (134.6 Kb)
Details View File Details
Title Tree sample for H1N1
Downloaded 8 times
Description BEAST .trees file for H1N1
Download h1_large_sample.trees (10.15 Mb)
Details View File Details
Title Tree sample for H3N2
Downloaded 7 times
Description BEAST .trees file for H3N2
Download h3_large_sample.trees (17.23 Mb)
Details View File Details
Title Tree sample for Vic
Downloaded 9 times
Description BEAST .trees file for Vic
Download vic_large_sample.trees (9.400 Mb)
Details View File Details
Title Tree sample for Yam
Downloaded 9 times
Description BEAST .trees file for Yam
Download yam_large_sample.trees (6.805 Mb)
Details View File Details
Title Phylogenetic H1N1 control file
Downloaded 11 times
Description BEAST .xml file to run phylogenetic analysis for H1N1.
Download h1_large_tree.xml (4.165 Mb)
Details View File Details
Title Phylogenetic H3N2 control file
Downloaded 7 times
Description BEAST .xml file to run phylogenetic analysis for H3N2.
Download h3_large_tree.xml (7.708 Mb)
Details View File Details
Title Phylogenetic Vic control file
Downloaded 5 times
Description BEAST .xml file to run phylogenetic analysis for Vic.
Download vic_large_tree.xml (4.005 Mb)
Details View File Details
Title Phylogenetic Yam control file
Downloaded 7 times
Description BEAST .xml file to run phylogenetic analysis for Yam.
Download yam_large_tree.xml (2.908 Mb)
Details View File Details
Title Sequence data and metadata for H1N1
Downloaded 11 times
Description Geographic, temporal and sequence data for H1N1.
Download h1_large.tsv (3.834 Mb)
Details View File Details
Title Sequence data and metadata for H3N2
Downloaded 8 times
Description Geographic, temporal and sequence data for H3N2.
Download h3_large.tsv (7.179 Mb)
Details View File Details
Title Sequence data and metadata for Vic
Downloaded 5 times
Description Geographic, temporal and sequence data for Vic.
Download vic_large.tsv (3.693 Mb)
Details View File Details
Title Sequence data and metadata for Yam
Downloaded 6 times
Description Geographic, temporal and sequence data for Yam.
Download yam_large.tsv (2.684 Mb)
Details View File Details
Title Strain table
Downloaded 10 times
Description All strains used in the study, along with IRD accession numbers and geographic and temporal metadata.
Download strain_table.tsv (990.9 Kb)
Details View File Details
Title Virus isolations by age
Downloaded 8 times
Description Virus isolations by the Melbourne WHO Collaborating Centre for Reference and Research on Influenza tagged with virus type (H3, H1, B) and subject age. Used to generate Extended Data Figure 5b.
Download melb_isolations.tsv (217.5 Kb)
Details View File Details
Title Vic antigenic data
Downloaded 12 times
Description HI table for B/Vic used to generate Extended Data Figure 5a.
Download vic_antigenic_data.txt (30.09 Kb)
Details View File Details

When using this data, please cite the original publication:

Bedford T, Riley S, Barr IG, Broor S, Chadha M, Cox NJ, Daniels RS, Gunasekaran CP, Hurt AC, Kelso A, Klimov A, Lewis NS, Li X, McCauley JW, Odagiri T, Potdar V, Rambaut A, Shu Y, Skepner E, Smith DJ, Suchard MA, Tashiro M, Wang D, Xu X, Lemey P, Russell CA (2015) Global circulation patterns of seasonal influenza viruses vary with antigenic drift. Nature 523(7559): 217-220. http://dx.doi.org/10.1038/nature14460

Additionally, please cite the Dryad data package:

Bedford T, Riley S, Barr IG, Broor S, Chadha M, Cox NJ, Daniels RS, Gunasekaran CP, Hurt AC, Kelso A, Klimov A, Lewis NS, Li X, McCauley JW, Odagiri T, Potdar V, Rambaut A, Shu Y, Skepner E, Smith DJ, Suchard MA, Tashiro M, Wang D, Xu X, Lemey P, Russell CA (2015) Data from: Global circulation patterns of seasonal influenza viruses vary with antigenic drift. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.pc641
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: