Searching journal content for articles similar to Lee et al. 25 (8): 1170.

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  1. Research: Polycomb misregulation in enterocytes drives tissue decline in the aging Drosophila intestine
    • Sarah M. Leichter,
    • Kami Ahmad,
    • and Steven Henikoff
    Genome Res. January 2026 36: 102-114; Published in Advance November 17, 2025, doi:10.1101/gr.281058.125
    ...Fig. S5A), which resulted in a list of transcription factor genes involved in development and differentiation that become derepressed with age (Supplemental Fig. S5B). Notably, this group includes the Enhancer of split (E(spl)) complex genes, located on Chromosome 3R, which are normally Polycomb...
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  2. Research: Genome-wide relaxation of selection and the evolution of the island syndrome in Orkney voles
    • Xuejing Wang and
    • Gerald Heckel
    Genome Res. June 2024 34: 851-862; Published in Advance July 2, 2024, doi:10.1101/gr.278487.123
    ...window Figure 2. Genome-wide diversity and differentiation for common voles, M. arvalis, from the Orkney archipelago (brown) versus continental individuals (green). Density distributions (top) and Manhattan plots (bottom) for π, Tajima's D, and FST in 50 kb windows along the . Different chromosomes...
  3. Research: Genome-wide analysis of long noncoding RNA stability
    • Michael B. Clark,
    • Rebecca L. Johnston,
    • Mario Inostroza-Ponta,
    • Archa H. Fox,
    • Ellen Fortini,
    • Pablo Moscato,
    • Marcel E. Dinger,
    • and John S. Mattick
    Genome Res. May 2012 22: 885-898; Published in Advance March 9, 2012, doi:10.1101/gr.131037.111
    ...-coding transcripts. Significant difference calculated using a x2 test. Genome-wide analysis of lncRNA stability Genome Research 887 www..org that act in common biological pathways (same GO function) (Sharova et al. 2009) or proteins found within the same complexes (Friedel et al. 2009) often have similar stabilities...
  4. Research: Genome-wide identification of long noncoding natural antisense transcripts and their responses to light in Arabidopsis
    • Huan Wang,
    • Pil Joong Chung,
    • Jun Liu,
    • In-Cheol Jang,
    • Michelle J. Kean,
    • Jun Xu,
    • and Nam-Hai Chua
    Genome Res. March 2014 24: 444-453; Published in Advance January 8, 2014, doi:10.1101/gr.165555.113
    ...Genome-wide identification of long noncoding natural antisense transcripts and their responses to light in Arabidopsis Huan Wang 1 , 4 , Pil Joong Chung 1 , 2 , 4 , Jun Liu 1 , In-Cheol Jang 1 , 3 , Michelle J. Kean 1 , Jun Xu...
  5. Resource: The landscape of RNA polymerase II transcription initiation in C. elegans reveals promoter and enhancer architectures
    • Ron A.-J. Chen,
    • Thomas A. Down,
    • Przemyslaw Stempor,
    • Q. Brent Chen,
    • Thea A. Egelhofer,
    • LaDeana W. Hillier,
    • Tess E. Jeffers,
    • and Julie Ahringer
    Genome Res. August 2013 23: 1339-1347; Published in Advance April 2, 2013, doi:10.1101/gr.153668.112
    .... [Supplemental material is available for this article.] Transcription is a fundamental process that plays a central role in development and cellular responses. The regulation of transcription is complex, often involving interplay between promoters and regulatory elements such as enhancer regions. A prerequisite...
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  6. Research: NF-Y coassociates with FOS at promoters, enhancers, repetitive elements, and inactive chromatin regions, and is stereo-positioned with growth-controlling transcription factors
    • Joseph D. Fleming,
    • Giulio Pavesi,
    • Paolo Benatti,
    • Carol Imbriano,
    • Roberto Mantovani,
    • and Kevin Struhl
    Genome Res. August 2013 23: 1195-1209; Published in Advance April 17, 2013, doi:10.1101/gr.148080.112
    ...to active coding regions. Although lesswell defined, other DNA-binding proteins and nascent RNA can recruit H3K27 or H3K9 methylases to other genomic regions, resulting in heterochromatic silencing by polycomb complexes (PcG) or HP1, respectively. As a consequence of the above and other mechanistic...
  7. Research: Epigenetic drift score captures directional methylation variability and links aging to transcriptional, metabolic, and genetic alterations
    • Xiu Fan,
    • Qili Qian,
    • Wenran Li,
    • Tianzi Liu,
    • Changqing Zeng,
    • Peilin Jia,
    • Huandong Lin,
    • Xin Gao,
    • Li Jin,
    • Mingfeng Xia,
    • Sijia Wang,
    • and Fan Liu
    Genome Res. October 2025 35: 2173-2188; Published in Advance August 1, 2025, doi:10.1101/gr.280155.124
    ...implicating environmental exposures. Infectious agents, such as cytomegalovirus, have also been shown to induce widespread methylation variance in a cell composition-independent manner (Bergstedt et al. 2022). At the chromatin level, drift-CpGs are enriched in repressive Polycomb-bound regions (Slieker et al...
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  8. Resource: Epigenomics of embryogenesis in turbot
    • Oscar Aramburu,
    • Belen G Pardo,
    • Ada Jimenez-Gonzalez,
    • Andrés Blanco-Hortas,
    • Daniel Macqueen,
    • Carmen Bouza,
    • and Paulino Martinez
    Genome Res. November 4, 2025 gr.280355.124; Published in Advance November 4, 2025, doi:10.1101/gr.280355.124
    ...chromatin 265 lacking histone marks; ATACi), one Polycomb repressed state (ReprPC) and 266 one low signal state (LowSi). STssA, TssA, TssBiv and TssFlnk exhibited the 267 highest signal around the TSS (±2 kb), corresponding to promoter regions 268 and/or transcriptionally active regions. 269 The low signal...
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  9. Research: H3K36 dimethylation shapes the epigenetic interaction landscape by directing repressive chromatin modifications in embryonic stem cells
    • Haifen Chen,
    • Bo Hu,
    • Cynthia Horth,
    • Eric Bareke,
    • Phillip Rosenbaum,
    • Sin Young Kwon,
    • Jacinthe Sirois,
    • Daniel N. Weinberg,
    • Faith M. Robison,
    • Benjamin A. Garcia,
    • Chao Lu,
    • William A. Pastor,
    • and Jacek Majewski
    Genome Res. May 2022 32: 825-837; Published in Advance April 8, 2022, doi:10.1101/gr.276383.121
    ...of higher-level methylation at lysine 36 (H3K36me2/3) hinders higher-level methylation at lysine 27 (particularly H3K27me3) (Schmitges et al. 2011; Yuan et al. 2011). Further relationships reflect the reader/writer properties of chromatin modifying enzymes and complexes. Polycomb repressive complex 2 (PRC2...
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  10. Research: The impact of SWI/SNF and NuRD inactivation on gene expression is tightly coupled with levels of RNA polymerase II occupancy at promoters
    • Sachin Pundhir,
    • Jinyu Su,
    • Marta Tapia,
    • Anne Meldgaard Hansen,
    • James Seymour Haile,
    • Klaus Hansen,
    • and Bo Torben Porse
    Genome Res. March 2023 33: 332-345; Published in Advance March 16, 2023, doi:10.1101/gr.277089.122
    ...). At bivalent promoters, SWI/SNF-associated increases in DNA accessibility and gene expression are linked to its role in directly evicting Polycomb repressive complexes 1 and 2 (PRC1 and PRC2) (de Dieuleveult et al. 2016; Kadoch et al. 2017; Stanton et al. 2017; Bracken et al. 2019). This is in contrast to Nu...
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