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Database (Oxford). 2015 Aug 19;2015. doi: 10.1093/database/bav079. Print 2015.

FlyVar: a database for genetic variation in Drosophila melanogaster.

Database : the journal of biological databases and curation

Fei Wang, Lichun Jiang, Yong Chen, Nele A Haelterman, Hugo J Bellen, Rui Chen

Affiliations

  1. Shanghai Key Lab of Intelligent Information Processing, School of Computer Science and Technology, Fudan University, Shanghai, China; [email protected].
  2. Human Genome Sequencing Center, Department of Molecular and Human Genetics, and.
  3. Shanghai Key Lab of Intelligent Information Processing, School of Computer Science and Technology, Fudan University, Shanghai, China;
  4. Program in Developmental Biology, Baylor College of Medicine, Houston, TX, USA;
  5. Department of Molecular and Human Genetics, and Program in Developmental Biology, Baylor College of Medicine, Houston, TX, USA; Howard Hughes Medical Institute.
  6. Human Genome Sequencing Center, Department of Molecular and Human Genetics, and [email protected].

PMID: 26289428 PMCID: PMC4541374 DOI: 10.1093/database/bav079

Abstract

FlyVar is a publicly and freely available platform that addresses the increasing need of next generation sequencing data analysis in the Drosophila research community. It is composed of three parts. First, a database that contains 5.94 million DNA polymorphisms found in Drosophila melanogaster derived from whole genome shotgun sequencing of 612 genomes of D. melanogaster. In addition, a list of 1094 dispensable genes has been identified. Second, a graphical user interface (GUI) has been implemented to allow easy and flexible queries of the database. Third, a set of interactive online tools enables filtering and annotation of genomic sequences obtained from individual D. melanogaster strains to identify candidate mutations. FlyVar permits the analysis of next generation sequencing data without the need of extensive computational training or resources. Database URL: www.iipl.fudan.edu.cn/FlyVar.

© The Author(s) 2015. Published by Oxford University Press.

References

  1. Science. 2010 Dec 24;330(6012):1775-87 - PubMed
  2. Bioinformatics. 2005 Sep 1;21 Suppl 2:ii26-30 - PubMed
  3. Hum Mutat. 2012 Apr;33(4):599-608 - PubMed
  4. Mol Ecol. 2012 Oct;21(19):4748-69 - PubMed
  5. Genetics. 1978 Apr;88(4):723-42 - PubMed
  6. Science. 2012 Feb 17;335(6070):823-8 - PubMed
  7. Nature. 2012 Nov 1;491(7422):56-65 - PubMed
  8. Nature. 1992 Apr 9;356(6369):519-20 - PubMed
  9. Genome Res. 2001 Jun;11(6):1100-13 - PubMed
  10. Genome Res. 2014 Oct;24(10):1707-18 - PubMed
  11. Nat Methods. 2008 Apr;5(4):323-9 - PubMed
  12. Genetics. 2009 May;182(1):25-32 - PubMed
  13. Nat Genet. 2001 Dec;29(4):475-81 - PubMed
  14. Nature. 2012 Feb 9;482(7384):173-8 - PubMed
  15. Science. 2007 Jun 15;316(5831):1586-91 - PubMed
  16. Evolution. 2012 Nov;66(11):3390-403 - PubMed
  17. Genome Dyn. 2007;3:101-18 - PubMed
  18. Genetics. 2011 Jan;187(1):245-60 - PubMed
  19. Nucleic Acids Res. 2009 Jan;37(Database issue):D567-70 - PubMed
  20. J Med Genet. 1971 Dec;8(4):444-52 - PubMed
  21. N Engl J Med. 2013 Oct 17;369(16):1502-11 - PubMed
  22. Nucleic Acids Res. 2015 Jan;43(Database issue):D690-7 - PubMed
  23. Genetics. 2012 Oct;192(2):533-98 - PubMed
  24. Nucleic Acids Res. 2010 Sep;38(16):e164 - PubMed
  25. Genome Res. 2014 Jul;24(7):1193-208 - PubMed

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