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The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.

MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity

Wang, Y., Tang, H., DeBarry, J. D., Tan, X., Li, J., Wang, X., Lee, T.-h., Jin, H., Marler, B., Guo, H., Kissinger, J. C., Paterson, A. H.·2012·Nucleic Acids Research
DOI 10.1093/nar/gkr1293PMC PMC3326336
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  • The physical position of homologs offers a second line of evidence that can help overcome challenges posed by WGDs, tandem arrays, heterozygous-duplicated regions, and other genomic complexities.

    “The physical position of homologs offers a second line of evidence that can help overcome challenges posed by WGDs, tandem arrays, heterozygous-duplicated regions, and other genomic complexities (Drillon et al., 2020; Haug-Baltzell et al., 2017; Wang et al., 2012).”

    From GENESPACE tracks regions of interest and gene copy number variation across multiple genomes (2022) · cites this paper as Wang et al., 2012

    The Methods section, “Classification of duplicate gene origins,” uses chromosome order and collinear position to distinguish tandem from WGD/segmental duplicates, supporting the value of homolog position for those complexities. The passages do not address heterozygous-duplicated regions or show that positional evidence overcomes that challenge; page numbers were unavailable in our copy. (LLM, conf=0.86)

    Experimental — accuracy not yet measured

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Research works printed but not linked: 68

  1. Coghlan, 2005, Trends in genetics : TIG, 21, 673, 10.1016/j.tig.2005.09.009 · DOI
  2. 2004, Science, 304, 304, 10.1126/science.1095781 · DOI
  3. 2007, Genome Research, 17, 1254, 10.1101/gr.6316407 · DOI · Paper page
  4. 2009, PNAS, 106, 14908, 10.1073/pnas.0902350106 · DOI
  5. Bowers, 2003, Nature; Physical Science (London), 422, 433, 10.1038/nature01521 · DOI
  6. 2008, Genome Research, 18, 1582, 10.1101/gr.080119.108 · DOI
  7. Otto, 2000, Annual review of genetics, 34, 401, 10.1146/annurev.genet.34.1.401 · DOI · Paper page
  8. Ranz, 2001, Genome Research, 11, 230, 10.1101/gr.162901 · DOI
  9. Bourque, 2004, Genome Research, 14, 507, 10.1101/gr.1975204 · DOI
  10. 2011, Molecular Biology and Evolution, 28, 2855, 10.1093/molbev/msr103 · DOI
  11. Vandepoele, 2002, Genome Research, 12, 1792, 10.1101/gr.400202 · DOI
  12. Luc, 2003, Computational biology and chemistry, 27, 59, 10.1016/S1476-9271(02)00097-X · DOI
  13. 2003, Genome Research, 13, 999, 10.1101/gr.814403 · DOI
  14. 2009, Bioinformatics, 25, 571, 10.1093/bioinformatics/btp027 · DOI
  15. 2004, Bioinformatics, 20, 3643, 10.1093/bioinformatics/bth397 · DOI · Paper page
  16. Wang, 2006, BMC bioinformatics [electronic resource], 7, 447, 10.1186/1471-2105-7-447 · DOI
  17. 2008, Genome Research, 18, 1944, 10.1101/gr.080978.108 · DOI
  18. Soderlund, 2006, Genome Research, 16, 1159, 10.1101/gr.5396706 · DOI
  19. Calabrese, 2003, Bioinformatics, 19, i74, 10.1093/bioinformatics/btg1008 · DOI
  20. Rodelsperger, 2010, 5, e8861, 10.1371/journal.pone.0008861 · DOI
  21. Tang, 2008, Science, 320, 486, 10.1126/science.1153917 · DOI
  22. Abrouk, 2010, Trends in plant science, 15, 479, 10.1016/j.tplants.2010.06.001 · DOI
  23. Jun, 2009, BMC genomics [electronic resource], 10, 630, 10.1186/1471-2164-10-630 · DOI · Paper page
  24. Casneuf, 2006, Genome biology, 7, R13, 10.1186/gb-2006-7-2-r13 · DOI
  25. Freeling, 2009, Annual review of plant biology, 60, 433, 10.1146/annurev.arplant.043008.092122 · DOI
  26. Cai, 2011, BMC bioinformatics [electronic resource], 12, 79, 10.1186/1471-2105-12-79 · DOI
  27. 2011, The Plant Cell Online, 23, 27, 10.1105/tpc.110.080622 · DOI · Paper page
  28. 2009, Genome Research, 19, 1026, 10.1101/gr.087288.108 · DOI
  29. 2008, Plant Physiology, 148, 1772, 10.1104/pp.108.124867 · DOI
  30. 2009, Molecular Biology and Evolution, 26, 1651, 10.1093/molbev/msp076 · DOI
  31. Lin, 2010, BMC genomics [electronic resource], 11, 395, 10.1186/1471-2164-11-395 · DOI
  32. Lin, 2011, Genomics, 97, 313, 10.1016/j.ygeno.2011.02.007 · DOI
  33. 2010, PNAS, 107, 472, 10.1073/pnas.0908007107 · DOI
  34. Wang, 2011, 6, e28150, 10.1371/journal.pone.0028150 · DOI
  35. Paterson, 2009, Nature; Physical Science (London), 457, 551, 10.1038/nature07723 · DOI
  36. 2010, Molecular Biology and Evolution, 27, 2651, 10.1093/molbev/msq156 · DOI
  37. 2010, Journal of Experimental Botany, 61, 3689, 10.1093/jxb/erq180 · DOI
  38. 2008, The Plant Cell Online, 20, 2484, 10.1105/tpc.108.060335 · DOI
  39. 2009, The Plant Cell Online, 21, 892, 10.1105/tpc.108.063925 · DOI
  40. 2010, GENES GENOM, 32, 275, 10.1007/s13258-010-0010-0 · DOI
  41. Li, 2011, Heredity, 106, 633, 10.1038/hdy.2010.97 · DOI
  42. Li, 2009, BMC evolutionary biology [electronic resource], 9, 90, 10.1186/1471-2148-9-90 · DOI
  43. Kopriva, 2009, Plant cell reports, 28, 1769, 10.1007/s00299-009-0793-0 · DOI
  44. Palmieri, 2011, The Plant journal : for cell and molecular biology, 66, 161, 10.1111/j.1365-313X.2011.04516.x · DOI
  45. Wang, 2009, Genome biology, 10, R68, 10.1186/gb-2009-10-6-r68 · DOI
  46. Li, 2003, Genome Research, 13, 2178, 10.1101/gr.1224503 · DOI · Paper page
  47. Nei, 1986, Molecular Biology and Evolution, 3, 418
  48. Enright, 2002, Nucleic Acids Research, 30, 1575, 10.1093/nar/30.7.1575 · DOI
  49. Zhao, 1998, Genome Research, 8, 479, 10.1101/gr.8.5.479 · DOI
  50. 2007, Molecular Biology and Evolution, 24, 2298, 10.1093/molbev/msm158 · DOI
  51. Jiang, 2004, Nature; Physical Science (London), 431, 569, 10.1038/nature02953 · DOI
  52. 2009, PNAS, 106, 19922, 10.1073/pnas.0908008106 · DOI
  53. 2006, The Plant Cell Online, 18, 1791, 10.1105/tpc.106.041905 · DOI
  54. Vergara, 2010, BMC genomics [electronic resource], 11, 516, 10.1186/1471-2164-11-516 · DOI
  55. Jiao, 2011, Nature; Physical Science (London), 473, 97, 10.1038/nature09916 · DOI
  56. Jaillon, 2007, Nature; Physical Science (London), 449, 463, 10.1038/nature06148 · DOI
  57. Schmutz, 2010, Nature; Physical Science (London), 463, 178, 10.1038/nature08670 · DOI
  58. Wei, 2007, 3, e123, 10.1371/journal.pgen.0030123 · DOI
  59. 2008, The Plant Cell Online, 20, 11, 10.1105/tpc.107.056309 · DOI
  60. Rizzon, 2006, 2, e115, 10.1371/journal.pcbi.0020115 · DOI
  61. Sampedro, 2005, The Plant journal : for cell and molecular biology, 44, 409, 10.1111/j.1365-313X.2005.02540.x · DOI
  62. Becker, 2003, Molecular phylogenetics and evolution, 29, 464, 10.1016/S1055-7903(03)00207-0 · DOI
  63. 2008, Genome Research, 18, 1924, 10.1101/gr.081026.108 · DOI
  64. Cannon, 2003, Genome biology, 4, R68, 10.1186/gb-2003-4-10-r68 · DOI
  65. Sinha, 2007, BMC bioinformatics [electronic resource], 8, 82, 10.1186/1471-2105-8-82 · DOI
  66. Ng, 2009, BMC bioinformatics [electronic resource], 10, 192, 10.1186/1471-2105-10-192 · DOI
  67. 2011, Bioinformatics, 27, 749, 10.1093/bioinformatics/btr008 · DOI
  68. 2011, Nucleic Acids Research, 39, e68, 10.1093/nar/gkr123 · DOI

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Metadata

Authors
Wang, Y., Tang, H., DeBarry, J. D., Tan, X., Li, J., Wang, X., Lee, T.-H., Jin, H., Marler, B., Guo, H., Kissinger, J. C., & Paterson, A. H.
Venue
Nucleic Acids Research
Publisher
Oxford University Press (OUP)
Published
2012-01-04
Volume
40
Issue
7
Pages
e49-e49
ISSN
  • 0305-1048
  • 1362-4962
DOI
10.1093/nar/gkr1293
PMC
PMC3326336
Cited by
7,093
References
4
Language
en
Licence
creativecommons.org/licenses/by-nc/3.0 (vor, 1735 d)

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