Searching journal content for articles similar to Yang et al. 16 (8): 995.

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  1. Research: Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally occurring F1 hybrids
    • Carina F. Mugal,
    • Mi Wang,
    • Niclas Backström,
    • David Wheatcroft,
    • Murielle Ålund,
    • Marie Sémon,
    • S. Eryn McFarlane,
    • Ludovic Dutoit,
    • Anna Qvarnström,
    • and Hans Ellegren
    Genome Res. December 2020 30: 1727-1739; Published in Advance November 3, 2020, doi:10.1101/gr.254508.119
    ...Consortium 2015). Despite these findings, tissue-specific differences have so far mostly been neglected in studies addressing misexpression and Dobzhansky-Muller incompatibilities between divergent regulatory elements in F1 hybrids. Abundant misexpression in F1 crosses of inbred strains of mice subspecies...
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  2. Research: The roles of cis- and trans-regulation in the evolution of regulatory incompatibilities and sexually dimorphic gene expression
    • Colin D. Meiklejohn,
    • Joseph D. Coolon,
    • Daniel L. Hartl,
    • and Patricia J. Wittkopp
    Genome Res. January 2014 24: 84-95; Published in Advance September 16, 2013, doi:10.1101/gr.156414.113
    ...The roles of cis - and trans -regulation in the evolution of regulatory incompatibilities and sexually dimorphic gene expression Colin D. Meiklejohn 1 , 5 , Joseph D. Coolon 2 , 3 , Daniel L. Hartl 4 and Patricia J. Wittkopp 2 , 3...
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  3. Research: Neonatal DNA methylation profile in human twins is specified by a complex interplay between intrauterine environmental and genetic factors, subject to tissue-specific influence
    • Lavinia Gordon,
    • Jihoon E. Joo,
    • Joseph E. Powell,
    • Miina Ollikainen,
    • Boris Novakovic,
    • Xin Li,
    • Roberta Andronikos,
    • Mark N. Cruickshank,
    • Karen N. Conneely,
    • Alicia K. Smith,
    • Reid S. Alisch,
    • Ruth Morley,
    • Peter M. Visscher,
    • Jeffrey M. Craig,
    • and Richard Saffery
    Genome Res. August 2012 22: 1395-1406; Published in Advance July 16, 2012, doi:10.1101/gr.136598.111
    ...Neonatal DNA methylation profile in human twins is specified by a complex interplay between intrauterine environmental and genetic factors, subject to tissue-specific influence Lavinia Gordon 1 , Jihoon E. Joo 2 , 3 , Joseph E. Powell 4 , 5 , Miina...
  4. Method: Multicondition and multimodal temporal profile inference during mouse embryonic development
    • Ran Zhang,
    • Chengxiang Qiu,
    • Galina N. Filippova,
    • Gang Li,
    • Jay Shendure,
    • Jean-Philippe Vert,
    • Xinxian Deng,
    • William Stafford Noble,
    • and Christine M. Disteche
    Genome Res. October 2025 35: 2339-2351; Published in Advance August 14, 2025, doi:10.1101/gr.279997.124
    ...identity factors from the original Sunbear model (Supplemental Fig. S8). These results suggest the importance of explicitly encoding condition and batch factors and representing time with a sinusoidal encoding.Sunbear reveals sexual dimorphism in gene expression during mouse embryonic development...
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  5. Research: Relative contributions of sex hormones, sex chromosomes, and gonads to sex differences in tissue gene regulation
    • Montgomery Blencowe,
    • Xuqi Chen,
    • Yutian Zhao,
    • Yuichiro Itoh,
    • Caden N. McQuillen,
    • Yanjie Han,
    • Benjamin L. Shou,
    • Rebecca McClusky,
    • Karen Reue,
    • Arthur P. Arnold,
    • and Xia Yang
    Genome Res. May 2022 32: 807-824; Published in Advance April 8, 2022, doi:10.1101/gr.275965.121
    ...specificity was prominent, with a major impact of estradiol on adipose tissue gene regulation and of testosterone on the liver transcriptome. The networks affected by the three sex-biasing factors include development, immunity and metabolism, and tissue-specific regulators were identified for these networks...
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  6. LETTER: A survey of allelic imbalance in F1 mice
    • Catarina D. Campbell,
    • Andrew Kirby,
    • James Nemesh,
    • Mark J. Daly,
    • and Joel N. Hirschhorn
    Genome Res. April 2008 18: 555-563; Published in Advance February 6, 2008, doi:10.1101/gr.068692.107
    ...in liver, spleen, and brain from three male and three female F1 mice. In the set of 92 genes, we observed 33 genes (36%) with significant AI including genes with AI that was specific to certain tissues or transcripts. We also observed extensive tissue-specific AI, with 11 out of 92 genes (12%) having...
  7. Research: Birth of protein-coding exons by ancient domestication of LINE-1 retrotransposon
    • Koichi Kitao,
    • Kenji Ichiyanagi,
    • and So Nakagawa
    Genome Res. June 2025 35: 1287-1300; Published in Advance May 8, 2025, doi:10.1101/gr.280007.124
    ...of ORF1p fusion proteins, as well as characterization of shared features such as tissue-specific expression patterns, will provide a deeper insight into the evolutionary mechanisms underlying the emergence of ORF1p-derived protein isoforms.Co-option of transposable elements as protein-coding exons has...
  8. Resource: A high-resolution association mapping panel for the dissection of complex traits in mice
    • Brian J. Bennett,
    • Charles R. Farber,
    • Luz Orozco,
    • Hyun Min Kang,
    • Anatole Ghazalpour,
    • Nathan Siemers,
    • Michael Neubauer,
    • Isaac Neuhaus,
    • Roumyana Yordanova,
    • Bo Guan,
    • Amy Truong,
    • Wen-pin Yang,
    • Aiqing He,
    • Paul Kayne,
    • Peter Gargalovic,
    • Todd Kirchgessner,
    • Calvin Pan,
    • Lawrence W. Castellani,
    • Emrah Kostem,
    • Nicholas Furlotte,
    • Thomas A. Drake,
    • Eleazar Eskin,
    • and Aldons J. Lusis
    Genome Res. February 2010 20: 281-290; Published in Advance January 6, 2010, doi:10.1101/gr.099234.109
    ...A high-resolution association mapping panel for the dissection of complex traits in mice Brian J. Bennett 1 , 10 , Charles R. Farber 2 , 10 , Luz Orozco 1 , 10 , Hyun Min Kang 3 , 10 , Anatole Ghazalpour 1 , Nathan Siemers 4...
  9. Resource: Long-read RNA sequencing reveals widespread sex-specific alternative splicing in threespine stickleback fish
    • Alice S. Naftaly,
    • Shana Pau,
    • and Michael A. White
    Genome Res. August 2021 31: 1486-1497; Published in Advance June 15, 2021, doi:10.1101/gr.274282.120
    ...studied at the organ level, comparatively little is known about the sex specificity of isoforms. Sexual dimorphism in alternative splicing may be important in regulating many of the phenotypic differences observed between sexes. For instance, male and female somatic differentiation in Drosophila...
  10. Research: Gene essentiality in cancer cell lines is modified by the sex chromosomes
    • Shahar Shohat,
    • Ethel Vol,
    • and Sagiv Shifman
    Genome Res. November/December 2022 32: 1993-2002; Published in Advance November 23, 2022, doi:10.1101/gr.276488.121
    ...affects gene essentialityThe substantial sex differences in gene expression raise the question of whether those differences result in changes in cell phenotypes. To detect genes that show significant sexually dimorphic phenotypic effects, we studied differences in gene essentiality. We used a measure...
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