Datasets

The following datasets were analyzed in GenGIS: A geospatial information system for genomic data (Parks et al., Genome Res., 2009):

• GOS dataset: taxonomic diversity of Atlanatic seaboard sites from the Global Ocean Sampling expedition.

• HIV-1 dataset: geographic distribution of non-recombinant HIV-1 subtypes in Africa

• ISEA mtDNA dataset: phylogenetic distribution of mtDNA haplogroup E, using hypervariable segment I (HVS-I) sequences from Southeast Asia.

The following datasets were analyzed in Tracking the evolution and geographic spread of Influenza A (Parks et al., PLoS Currents: Influenza, submitted Aug. 25, 2009):

• H1N1 S-OIV dataset: metadata and phylogenetic trees for 203 complete S-OIV sequences obtained from the NCBI Influenza Virus Resource on Aug. 11, 2009.
• Stream video showing the temporal and geographic spread of neuraminidase site N248D.
  • Python script used to create the above video (requires the H1N1 S-OIV dataset along with a world map).
• Stream video showing the geophylogeny of the S-OIV 2009 Influenza outbreak.
  • Python script used to create the above video (requires the H1N1 S-OIV dataset along with a world map).