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Nucleic acids research
01 08, 2019;47 (D1): D793-D800.

iDog: an integrated resource for domestic dogs and wild canids.

Bixia Tang, Qing Zhou, Lili Dong, Wulue Li, Xiangquan Zhang, Li Lan, Shuang Zhai, Jingfa Xiao, Zhang Zhang, Yiming Bao, Ya-Ping Zhang, Guo-Dong Wang, Wenming Zhao
Author Information
  1. Bixia Tang: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  2. Qing Zhou: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  3. Lili Dong: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  4. Wulue Li: University of Chinese Academy of Sciences, Beijing 100049, China.
  5. Xiangquan Zhang: University of Chinese Academy of Sciences, Beijing 100049, China.
  6. Li Lan: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  7. Shuang Zhai: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  8. Jingfa Xiao: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  9. Zhang Zhang: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  10. Yiming Bao: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
  11. Ya-Ping Zhang: University of Chinese Academy of Sciences, Beijing 100049, China.
  12. Guo-Dong Wang: University of Chinese Academy of Sciences, Beijing 100049, China.
  13. Wenming Zhao: BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.
PMID: 30371881 DOI: 10.1093/nar/gky1041

Abstract

The domestic dog (Canis lupus familiaris) is indisputably one of man's best friends. It is also a fundamental model for many heritable human diseases. Here, we present iDog (http://bigd.big.ac.cn/idog), the first integrated resource dedicated to domestic dogs and wild canids. It incorporates a variety of omics data, including genome sequences assemblies for dhole and wolf, genomic variations extracted from hundreds of dog/wolf whole genomes, phenotype/disease traits curated from dog research communities and public resources, gene expression profiles derived from published RNA-Seq data, gene ontology for functional annotation, homolog gene information for multiple organisms and disease-related literature. Additionally, iDog integrates sequence alignment tools for data analyses and a genome browser for data visualization. iDog will not only benefit the global dog research community, but also provide access to a user-friendly consolidation of dog information to a large number of dog enthusiasts.

References

  1. Nucleic Acids Res. 2003 Jan 1;31(1):275-7 [PMID: 12520001]
  2. Brief Bioinform. 2013 Mar;14(2):162-71 [PMID: 23376193]
  3. Nat Commun. 2017 Jul 18;8:16082 [PMID: 28719574]
  4. Trends Genet. 2007 Nov;23(11):557-67 [PMID: 17963975]
  5. Nature. 2005 Dec 8;438(7069):803-19 [PMID: 16341006]
  6. Curr Protoc Bioinformatics. 2010 Sep;Chapter 9:Unit 9.12 [PMID: 20836076]
  7. Science. 2018 Jul 06;361(6397):81-85 [PMID: 29976825]
  8. PLoS Genet. 2005 Nov;1(5):e58 [PMID: 16311623]
  9. Curr Biol. 2015 Jun 1;25(11):1515-9 [PMID: 26004765]
  10. Mamm Genome. 2004 Jun;15(6):503-6 [PMID: 15181542]
  11. Nucleic Acids Res. 2015 Jan;43(Database issue):D777-83 [PMID: 25404132]
  12. PLoS Genet. 2014 Jan;10(1):e1004016 [PMID: 24453982]
  13. Genome Res. 2011 Aug;21(8):1294-305 [PMID: 21566151]
  14. Science. 2016 Jun 3;352(6290):1228-31 [PMID: 27257259]
  15. Nat Rev Genet. 2017 Dec;18(12):705-720 [PMID: 28944780]
  16. Natl Sci Rev. 2019 Jan;6(1):110-122 [PMID: 34694297]
  17. Nucleic Acids Res. 2013 Jul;41(Web Server issue):W29-33 [PMID: 23609542]
  18. Nucleic Acids Res. 2015 Jan;43(Database issue):D789-98 [PMID: 25428349]
  19. Heredity (Edinb). 2014 Apr;112(4):428-42 [PMID: 24346500]
  20. Genome Biol. 2016 Jun 06;17(1):122 [PMID: 27268795]
  21. Cell Res. 2016 Jan;26(1):21-33 [PMID: 26667385]
  22. Can Vet J. 1998 Nov;39(11):686-7 [PMID: 9818134]
  23. Nature. 2013 Mar 21;495(7441):360-4 [PMID: 23354050]
  24. Nucleic Acids Res. 2017 May 5;45(8):e57 [PMID: 28053114]
  25. Genome Res. 2014 Aug;24(8):1308-15 [PMID: 24721644]
  26. Nucleic Acids Res. 2017 Jan 4;45(D1):D18-D24 [PMID: 27899658]
  27. Nucleic Acids Res. 2017 Jan 4;45(D1):D158-D169 [PMID: 27899622]
  28. Cancer Epidemiol Biomarkers Prev. 2007 Nov;16(11):2181-3 [PMID: 17982116]
  29. BMC Bioinformatics. 2011 Aug 04;12:323 [PMID: 21816040]
  30. Skelet Muscle. 2018 May 29;8(1):16 [PMID: 29843823]
  31. Anim Genet. 2016 Oct;47(5):519-27 [PMID: 27324307]
  32. Genomics Proteomics Bioinformatics. 2017 Feb;15(1):14-18 [PMID: 28387199]
  33. Mol Biol Evol. 2009 Dec;26(12):2849-64 [PMID: 19723671]
  34. Nat Rev Genet. 2008 Sep;9(9):713-25 [PMID: 18714291]
  35. Genome Res. 2009 Sep;19(9):1630-8 [PMID: 19570905]
  36. Nucleic Acids Res. 2018 Jan 4;46(D1):D754-D761 [PMID: 29155950]
  37. Sci Rep. 2018 Sep 7;8(1):13444 [PMID: 30194329]
  38. Science. 2002 Nov 22;298(5598):1610-3 [PMID: 12446907]
  39. Nat Methods. 2015 Apr;12(4):357-60 [PMID: 25751142]
  40. PLoS Genet. 2013;9(12):e1003984 [PMID: 24348265]
  41. Nucleic Acids Res. 2017 Jan 4;45(D1):D331-D338 [PMID: 27899567]
  42. Proc Natl Acad Sci U S A. 2015 Nov 3;112(44):13639-44 [PMID: 26483491]
  43. Nucleic Acids Res. 2018 Jan 4;46(D1):D14-D20 [PMID: 29036542]
  44. Database (Oxford). 2011 Jul 23;2011:bar030 [PMID: 21785142]
  45. Nucleic Acids Res. 2018 Jan 4;46(D1):D8-D13 [PMID: 29140470]

MeSH Term

Animals
Databases, Genetic
Dogs
Genome
Genomics
Humans
Molecular Sequence Annotation
Phylogeny
RNA-Seq
Software
Wolves
Journal Article Research Support, Non-U.S. Gov't

Links to CNCB-NGDC Resources

Database Commons: DBC006049 (iDOG)

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