Yeast Illumina data

gistfile1.txt

- Skelley et al 2013:
  - paper: http://genome.cshlp.org/content/23/9/1496.long
  - ena: http://www.ebi.ac.uk/ena/data/view/SRP018005 (includes RNA-seq)
  - 22 diverse Scer strains
  
- Bergstrom et al 2014
  - paper: https://academic.oup.com/mbe/article-lookup/doi/10.1093/molbev/msu037
  - SGRP2 
  - 19 Scer
  - 22 Spar
  - no accession in paper
  - complete dataset of raw reads at Sanger FTP site: ftp://ftp.sanger.ac.uk/pub/users/dmc/yeast/SGRP2/input/strains/
 
- Almeida et al 2015
  - paper: http://onlinelibrary.wiley.com/doi/10.1111/mec.13341/abstract
  - ena: http://www.ebi.ac.uk/ena/data/view/ERP008522
  - 99 Scer strains mainly form European oaks

- Strope et al 2015
  - paper: http://genome.cshlp.org/content/25/5/762.long
  - ena: http://www.ebi.ac.uk/ena/data/view/SRA072302
  - 93 Scer strains from various sources

- Song et al 2015:
  - paper: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0120671
  - ena: http://www.ebi.ac.uk/ena/data/view/SRP046161
  - 25 commonly used Scer strains

- Barbosa et al 2016
  - paper: https://academic.oup.com/gbe/article-lookup/doi/10.1093/gbe/evv263
  - ena: http://www.ebi.ac.uk/ena/data/view/ERP013106
  - 28 Scer strains from Brazil

- Borneman et al 2016
  - paper: http://www.g3journal.org/content/6/4/957.long
  - ena: http://www.ebi.ac.uk/ena/data/view/SRP066835
  - 212 Scer wine and beer strains
 
- Zhu et al 2016
  - paper: http://www.g3journal.org/content/6/4/957.long
  - ena: http://www.ebi.ac.uk/ena/data/view/SRP072079
  - 145 unsporulated Scer clinical strains

- Gayvskiy et al 2016
  - paper: https://academic.oup.com/femsyr/article-lookup/doi/10.1093/femsyr/fow091
  - ena: http://www.ebi.ac.uk/ena/data/view/SRP042301
  - 52 Scer wine strains from New Zealand
 
- Goncalves et al 2016
  - paper: http://www.sciencedirect.com/science/article/pii/S0960982216309848
  - ena: http://www.ebi.ac.uk/ena/data/view/ERP014888
  - 39 Scer beer strains from Europe

- Gallone et al 2016
  - paper: http://www.sciencedirect.com/science/article/pii/S0092867416310716
  - ena: http://www.ebi.ac.uk/ena/data/view/SRP109074
  - 157 Scer beer strains from around the world

- Yue et al 2016
  - paper: https://www.nature.com/ng/journal/v49/n6/full/ng.3847.html 
  - ena: http://www.ebi.ac.uk/ena/data/view/SRP083098
  - SGRP3
  - 7 Scer
  - 6 Spar
  
- Istace et al (2017)
  - paper: https://academic.oup.com/gigascience/article-lookup/doi/10.1093/gigascience/giw018
  - ena: http://www.ebi.ac.uk/ena/data/view/ERP016443 (Minion data is also included in this project)
  - 22 Scer strains