The University of Chicago Header Logo

Connection

Manyuan Long to Evolution, Molecular

Back to Details
This is a "connection" page, showing publications Manyuan Long has written about Evolution, Molecular.
Manyuan Long
Connection Strength
11.559
Evolution, Molecular
  1. Evolutionarily new genes in humans with disease phenotypes reveal functional enrichment patterns shaped by adaptive innovation and sexual selection. Genome Res. 2025 Mar 18; 35(3):379-392.
    View in: PubMed
    Score: 0.577
  2. Subcellular Enrichment Patterns of New Genes in Drosophila Evolution. Mol Biol Evol. 2025 Feb 03; 42(2).
    View in: PubMed
    Score: 0.573
  3. Functional innovation through new genes as a general evolutionary process. Nat Genet. 2025 Feb; 57(2):295-309.
    View in: PubMed
    Score: 0.572
  4. The three-dimensional genome drives the evolution of asymmetric gene duplicates via enhancer capture-divergence. Sci Adv. 2024 12 20; 10(51):eadn6625.
    View in: PubMed
    Score: 0.567
  5. The Rapid Evolution of De Novo Proteins in Structure and Complex. Genome Biol Evol. 2024 06 04; 16(6).
    View in: PubMed
    Score: 0.547
  6. Rapid Cis-Trans Coevolution Driven by a Novel Gene Retroposed from a Eukaryotic Conserved CCR4-NOT Component in Drosophila. Genes (Basel). 2021 12 26; 13(1).
    View in: PubMed
    Score: 0.462
  7. Rapid Evolution of Gained Essential Developmental Functions of a Young Gene via Interactions with Other Essential Genes. Mol Biol Evol. 2019 10 01; 36(10):2212-2226.
    View in: PubMed
    Score: 0.395
  8. Topological evolution of coexpression networks by new gene integration maintains the hierarchical and modular structures in human ancestors. Sci China Life Sci. 2019 Apr; 62(4):594-608.
    View in: PubMed
    Score: 0.381
  9. Gene duplicates resolving sexual conflict rapidly evolved essential gametogenesis functions. Nat Ecol Evol. 2018 04; 2(4):705-712.
    View in: PubMed
    Score: 0.354
  10. New genes drive the evolution of gene interaction networks in the human and mouse genomes. Genome Biol. 2015 Oct 01; 16:202.
    View in: PubMed
    Score: 0.300
  11. New genes contribute to genetic and phenotypic novelties in human evolution. Curr Opin Genet Dev. 2014 Dec; 29:90-6.
    View in: PubMed
    Score: 0.279
  12. Evolution of gene structural complexity: an alternative-splicing-based model accounts for intron-containing retrogenes. Plant Physiol. 2014 May; 165(1):412-23.
    View in: PubMed
    Score: 0.268
  13. New gene evolution: little did we know. Annu Rev Genet. 2013; 47:307-33.
    View in: PubMed
    Score: 0.260
  14. New genes expressed in human brains: implications for annotating evolving genomes. Bioessays. 2012 Nov; 34(11):982-91.
    View in: PubMed
    Score: 0.243
  15. Frequent recent origination of brain genes shaped the evolution of foraging behavior in Drosophila. Cell Rep. 2012 Feb 23; 1(2):118-32.
    View in: PubMed
    Score: 0.233
  16. The origin and evolution of new genes. Methods Mol Biol. 2012; 856:161-86.
    View in: PubMed
    Score: 0.231
  17. Deficiency of X-linked inverted duplicates with male-biased expression and the underlying evolutionary mechanisms in the Drosophila genome. Mol Biol Evol. 2011 Oct; 28(10):2823-32.
    View in: PubMed
    Score: 0.221
  18. A cautionary note for retrocopy identification: DNA-based duplication of intron-containing genes significantly contributes to the origination of single exon genes. Bioinformatics. 2011 Jul 01; 27(13):1749-53.
    View in: PubMed
    Score: 0.221
  19. New genes in Drosophila quickly become essential. Science. 2010 Dec 17; 330(6011):1682-5.
    View in: PubMed
    Score: 0.215
  20. Mutational bias shaping fly copy number variation: implications for genome evolution. Trends Genet. 2010 Jun; 26(6):243-7.
    View in: PubMed
    Score: 0.205
  21. Extensive structural renovation of retrogenes in the evolution of the Populus genome. Plant Physiol. 2009 Dec; 151(4):1943-51.
    View in: PubMed
    Score: 0.198
  22. RNA-based gene duplication: mechanistic and evolutionary insights. Nat Rev Genet. 2009 Jan; 10(1):19-31.
    View in: PubMed
    Score: 0.188
  23. Origins of new male germ-line functions from X-derived autosomal retrogenes in the mouse. Mol Biol Evol. 2007 Oct; 24(10):2242-53.
    View in: PubMed
    Score: 0.170
  24. Origination of chimeric genes through DNA-level recombination. Genome Dyn. 2007; 3:131-146.
    View in: PubMed
    Score: 0.163
  25. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature. 2004 Dec 09; 432(7018):695-716.
    View in: PubMed
    Score: 0.142
  26. Duplication-degeneration as a mechanism of gene fission and the origin of new genes in Drosophila species. Nat Genet. 2004 May; 36(5):523-7.
    View in: PubMed
    Score: 0.135
  27. Sexual conflict drive in the rapid evolution of new gametogenesis genes. Semin Cell Dev Biol. 2024 Jun-Jul; 159-160:27-37.
    View in: PubMed
    Score: 0.134
  28. The origin of new genes: glimpses from the young and old. Nat Rev Genet. 2003 Nov; 4(11):865-75.
    View in: PubMed
    Score: 0.131
  29. Origin of new genes: evidence from experimental and computational analyses. Genetica. 2003 Jul; 118(2-3):171-82.
    View in: PubMed
    Score: 0.128
  30. Rapid divergence of gene duplicates on the Drosophila melanogaster X chromosome. Mol Biol Evol. 2002 Jun; 19(6):918-25.
    View in: PubMed
    Score: 0.119
  31. Expansion of genome coding regions by acquisition of new genes. Genetica. 2002 May; 115(1):65-80.
    View in: PubMed
    Score: 0.118
  32. Evolution of novel genes. Curr Opin Genet Dev. 2001 Dec; 11(6):673-80.
    View in: PubMed
    Score: 0.115
  33. Gene duplication and evolution. Science. 2001 Aug 31; 293(5535):1551.
    View in: PubMed
    Score: 0.113
  34. Genomic analyses of new genes and their phenotypic effects reveal rapid evolution of essential functions in Drosophila development. PLoS Genet. 2021 07; 17(7):e1009654.
    View in: PubMed
    Score: 0.112
  35. Testing the "proto-splice sites" model of intron origin: evidence from analysis of intron phase correlations. Mol Biol Evol. 2000 Dec; 17(12):1789-96.
    View in: PubMed
    Score: 0.107
  36. A new function evolved from gene fusion. Genome Res. 2000 Nov; 10(11):1655-7.
    View in: PubMed
    Score: 0.107
  37. The origin of the Jingwei gene and the complex modular structure of its parental gene, yellow emperor, in Drosophila melanogaster. Mol Biol Evol. 2000 Sep; 17(9):1294-301.
    View in: PubMed
    Score: 0.105
  38. Evolutionary Dynamics of Abundant 7-bp Satellites in the Genome of Drosophila virilis. Mol Biol Evol. 2020 05 01; 37(5):1362-1375.
    View in: PubMed
    Score: 0.103
  39. Association of intron phases with conservation at splice site sequences and evolution of spliceosomal introns. Mol Biol Evol. 1999 Nov; 16(11):1528-34.
    View in: PubMed
    Score: 0.099
  40. Intron-exon structures of eukaryotic model organisms. Nucleic Acids Res. 1999 Aug 01; 27(15):3219-28.
    View in: PubMed
    Score: 0.098
  41. Evolution of genes and genomes: an emerging paradigm in life science. Sci China Life Sci. 2019 04; 62(4):435-436.
    View in: PubMed
    Score: 0.096
  42. GenTree, an integrated resource for analyzing the evolution and function of primate-specific coding genes. Genome Res. 2019 04; 29(4):682-696.
    View in: PubMed
    Score: 0.095
  43. Rapid evolution of protein diversity by de novo origination in Oryza. Nat Ecol Evol. 2019 04; 3(4):679-690.
    View in: PubMed
    Score: 0.095
  44. Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza. Nat Genet. 2018 02; 50(2):285-296.
    View in: PubMed
    Score: 0.088
  45. Origin of genes. Proc Natl Acad Sci U S A. 1997 Jul 22; 94(15):7698-703.
    View in: PubMed
    Score: 0.085
  46. New genes important for development. EMBO Rep. 2014 May; 15(5):460-1.
    View in: PubMed
    Score: 0.068
  47. New genes as drivers of phenotypic evolution. Nat Rev Genet. 2013 Sep; 14(9):645-60.
    View in: PubMed
    Score: 0.065
  48. High occurrence of functional new chimeric genes in survey of rice chromosome 3 short arm genome sequences. Genome Biol Evol. 2013; 5(5):1038-48.
    View in: PubMed
    Score: 0.062
  49. Adaptive evolution and the birth of CTCF binding sites in the Drosophila genome. PLoS Biol. 2012; 10(11):e1001420.
    View in: PubMed
    Score: 0.061
  50. Reshaping of global gene expression networks and sex-biased gene expression by integration of a young gene. EMBO J. 2012 Jun 13; 31(12):2798-809.
    View in: PubMed
    Score: 0.059
  51. Retrogenes moved out of the z chromosome in the silkworm. J Mol Evol. 2012 Apr; 74(3-4):113-26.
    View in: PubMed
    Score: 0.059
  52. Drosophila duplication hotspots are associated with late-replicating regions of the genome. PLoS Genet. 2011 Nov; 7(11):e1002340.
    View in: PubMed
    Score: 0.057
  53. Roles of young serine-endopeptidase genes in survival and reproduction revealed rapid evolution of phenotypic effects at adult stages. Fly (Austin). 2011 Oct-Dec; 5(4):345-51.
    View in: PubMed
    Score: 0.057
  54. Evolutionary patterns of RNA-based duplication in non-mammalian chordates. PLoS One. 2011; 6(7):e21466.
    View in: PubMed
    Score: 0.056
  55. Dynamic programming procedure for searching optimal models to estimate substitution rates based on the maximum-likelihood method. Proc Natl Acad Sci U S A. 2011 May 10; 108(19):7860-5.
    View in: PubMed
    Score: 0.055
  56. Evolution of enzymatic activities of testis-specific short-chain dehydrogenase/reductase in Drosophila. J Mol Evol. 2010 Oct; 71(4):241-9.
    View in: PubMed
    Score: 0.053
  57. Age-dependent chromosomal distribution of male-biased genes in Drosophila. Genome Res. 2010 Nov; 20(11):1526-33.
    View in: PubMed
    Score: 0.053
  58. Positive selection for the male functionality of a co-retroposed gene in the hominoids. BMC Evol Biol. 2009 Oct 15; 9:252.
    View in: PubMed
    Score: 0.050
  59. General gene movement off the X chromosome in the Drosophila genus. Genome Res. 2009 May; 19(5):897-903.
    View in: PubMed
    Score: 0.047
  60. The subtelomere of Oryza sativa chromosome 3 short arm as a hot bed of new gene origination in rice. Mol Plant. 2008 Sep; 1(5):839-50.
    View in: PubMed
    Score: 0.046
  61. Recurrent tandem gene duplication gave rise to functionally divergent genes in Drosophila. Mol Biol Evol. 2008 Jul; 25(7):1451-8.
    View in: PubMed
    Score: 0.045
  62. Adaptive evolution of the insulin two-gene system in mouse. Genetics. 2008 Mar; 178(3):1683-91.
    View in: PubMed
    Score: 0.044
  63. Repetitive element-mediated recombination as a mechanism for new gene origination in Drosophila. PLoS Genet. 2008 Jan; 4(1):e3.
    View in: PubMed
    Score: 0.043
  64. Evolution of genes and genomes on the Drosophila phylogeny. Nature. 2007 Nov 08; 450(7167):203-18.
    View in: PubMed
    Score: 0.043
  65. Origination of an X-linked testes chimeric gene by illegitimate recombination in Drosophila. PLoS Genet. 2006 May; 2(5):e77.
    View in: PubMed
    Score: 0.039
  66. Bryophytes hold a larger gene family space than vascular plants. Nat Genet. 2025 Oct; 57(10):2562-2569.
    View in: PubMed
    Score: 0.037
  67. Translational effects of differential codon usage among intragenic domains of new genes in Drosophila. Biochim Biophys Acta. 2005 May 01; 1728(3):135-42.
    View in: PubMed
    Score: 0.036
  68. Sex chromosomes and male functions: where do new genes go? Cell Cycle. 2004 Jul; 3(7):873-5.
    View in: PubMed
    Score: 0.034
  69. Nucleotide variation and recombination along the fourth chromosome in Drosophila simulans. Genetics. 2004 Apr; 166(4):1783-94.
    View in: PubMed
    Score: 0.034
  70. Gene fusion as an important mechanism to generate new genes in the genus Oryza. Genome Biol. 2022 06 15; 23(1):130.
    View in: PubMed
    Score: 0.030
  71. Evolution of the phosphoglycerate mutase processed gene in human and chimpanzee revealing the origin of a new primate gene. Mol Biol Evol. 2002 May; 19(5):654-63.
    View in: PubMed
    Score: 0.030
  72. Rapid Gene Evolution in an Ancient Post-transcriptional and Translational Regulatory System Compensates for Meiotic X Chromosomal Inactivation. Mol Biol Evol. 2022 01 07; 39(1).
    View in: PubMed
    Score: 0.029
  73. Nucleotide variation along the Drosophila melanogaster fourth chromosome. Science. 2002 Jan 04; 295(5552):134-7.
    View in: PubMed
    Score: 0.029
  74. Origination and evolution of orphan genes and de novo genes in the genome of Caenorhabditis elegans. Sci China Life Sci. 2019 Apr; 62(4):579-593.
    View in: PubMed
    Score: 0.024
  75. LTR-mediated retroposition as a mechanism of RNA-based duplication in metazoans. Genome Res. 2016 12; 26(12):1663-1675.
    View in: PubMed
    Score: 0.020
  76. Introns and gene evolution. Genes Cells. 1996 Jun; 1(6):493-505.
    View in: PubMed
    Score: 0.020
  77. A rice gene of de novo origin negatively regulates pathogen-induced defense response. PLoS One. 2009; 4(2):e4603.
    View in: PubMed
    Score: 0.012
  78. High rate of chimeric gene origination by retroposition in plant genomes. Plant Cell. 2006 Aug; 18(8):1791-802.
    View in: PubMed
    Score: 0.010
  79. Evolving protein functional diversity in new genes of Drosophila. Proc Natl Acad Sci U S A. 2004 Nov 16; 101(46):16246-50.
    View in: PubMed
    Score: 0.009
Connection Strength

The connection strength for concepts is the sum of the scores for each matching publication.

Publication scores are based on many factors, including how long ago they were written and whether the person is a first or senior author.