Population Biology (PopBio)

PopBio is part of our ongoing efforts to integrate genomic, phenotypic and population data for traits such as insecticide resistance or genetic variation with microsatellites and SNPs. How to query, browse and visualize the data? There are three options:

  1. With a map that includes data tables and plots. The tutorial below has insecticide resistance (IR) as use case. In addition to IR other three map 'views' are available, sample queries for all are available bellow. More views are under development.
  2. With the site Search, tutorial below. Follow this link for a basic/introductory Search tutorial and follow this link for a tutorial of Advanced Search with PopBio as a use case
  3. With the Sample Explorer. Follow this link for a tutorial.

PopBio data is available for download and export. Raw and processed data, including images, plots or screen shots, can be used in presentations or publications with proper citations.

Map sample queries

Samples

Insecticide Resistance

Abundance

Genotypes

Search sample queries

Start typing the query terms in the Search box, and in the Filter Results box filter by Population Biology Domain. Specific filter for each case are provided below.

  • Anopheles AND kenya. Filter with sample (sub-domain) > Anopheles merus (species) > false (has abundance data). Export download.
  • Culex. Filter with sample genotype (sub-domain) > Culex quinquefasciatus (species) >microsatellite (genotype class) > MCQ33 (genotype name). Export download.
  • Type the wild card '*'. Filter with Population Biology > sample phenotype (sub-domain) > infection status (phenotype class). Export download.
  • Type the wild card '*'. Filter with sample (sub-domain) > Aedes albopictus (species) > true (has abundance data). Export download.
  • Aedes AND resistance. Filter with sample phenotype (sub-domain) > Aedes aegypti (species) > deltamethrin, permethrin, lambda-cyalothrin, cyfluthrin, cypermethrin (insecticide). Export download.
  • Anopheles. Filter with sample phenotype (sub-domain) > Anopheles hinesorum, Anopheles arabiensis (species) > VBP0000155, VBP0000158 (project/experiment) > blood meal identification (phenotype class). Export download.

If you want to discuss any issues raised in this tutorial then please contact the help desk.

PopBio overview, March 2018

PopBio insecticide resistance view, March 2018

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