Rice SNP-seek database update: new SNPs, indels, and queries

  title={Rice SNP-seek database update: new SNPs, indels, and queries},
  author={L. Mansueto and Roven Rommel Fuentes and F. N. Borja and Jeffery Detras and Juan Miguel Abriol-Santos and Dmytro Chebotarov and Millicent D Sanciangco and Kevin Palis and D. Copetti and A. Poliakov and I. Dubchak and V. Solovyev and R. Wing and R. Hamilton and R. Mauleon and Kenneth L. McNally and N. Alexandrov},
  journal={Nucleic Acids Research},
  pages={D1075 - D1081}
  • L. Mansueto, Roven Rommel Fuentes, +14 authors N. Alexandrov
  • Published 2017
  • Biology, Computer Science, Medicine
  • Nucleic Acids Research
  • We describe updates to the Rice SNP-Seek Database since its first release. We ran a new SNP-calling pipeline followed by filtering that resulted in complete, base, filtered and core SNP datasets. Besides the Nipponbare reference genome, the pipeline was run on genome assemblies of IR 64, 93-11, DJ 123 and Kasalath. New genotype query and display features are added for reference assemblies, SNP datasets and indels. JBrowse now displays BAM, VCF and other annotation tracks, the additional genome… CONTINUE READING
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