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We're pleased to announce the release of mosquito genome variation data from phase 3 of the Anopheles gambiae 1000 Genomes project (Ag1000G).
http://bit.ly/2ZoARE8
Some highlights and further info in this thread...
http://bit.ly/2ZoARE8
Some highlights and further info in this thread...
The data release includes single nucleotide polymorphism (SNP) calls from Illumina deep whole-genome sequencing of 2,784 wild-caught mosquitoes from 19 countries, & 297 individuals from 15 lab crosses. 3 mosquito species are represented: An. gambiae, An. coluzzii & An. arabiensis
Mosquito specimens were contributed to Ag1000G phase 3 by 26 independent research studies. More information about the members of the Ag1000G Consortium who contributed these specimens, their research, and the collection methods used, is available here:
https://storage.googleapis.com/vo_agam_release/v3/ag1000g-phase3-contributing-studies.pdf
https://storage.googleapis.com/vo_agam_release/v3/ag1000g-phase3-contributing-studies.pdf
Data from Ag1000G phase 3 are available from Google Cloud and can be accessed via free cloud computing services like MyBinder and Google Colab. All data can also be downloaded from public archives. A user guide is available here:
https://malariagen.github.io/vector-data/ag3/intro.html
https://malariagen.github.io/vector-data/ag3/intro.html
In Ag1000G phase 3 we find 95,071,535 segregating SNPs passing all quality filters, of which 38% are multiallelic. Further info on sequencing, variant calling and QC methods is available here:
https://storage.googleapis.com/vo_agam_release/v3/ag1000g-phase3-snp-calling-methods.pdf
https://storage.googleapis.com/vo_agam_release/v3/ag1000g-phase3-snp-calling-methods.pdf
This is the first installment of data from Ag1000G phase 3. Data on copy number variation and haplotypes are in production and will follow later this year. Please follow us here @malariagenomics if you'd like to stay in touch.
