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Research: Hydroxycarbamide effects on DNA methylation and gene expression in myeloproliferative neoplasms
- Stephania Contreras Castillo,
- Bertille Montibus,
- Azucena Rocha,
- Will Duke,
- Ferdinand von Meyenn,
- Donal McLornan,
- Claire Harrison,
- Ann Mullally,
- Reiner Schulz,
- and Rebecca J. Oakey
Genome Res. August 2021 31: 1381-1394; Published in Advance July 9, 2021, doi:10.1101/gr.270066.120
...described including genes that regulate DNA methylation (e.g., TET2, DNMT3A) and chromatin modification (e.g., ASXL1, EZH2) (Tefferi et al. 2009; Stegelmann et al. 2011; Brecqueville et al. 2012).Hydroxycarbamide (HC, also called hydroxyurea) remains a first-line therapy of choice for high-risk PV and ET...
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Research: Altered hydroxymethylation is seen at regulatory regions in pancreatic cancer and regulates oncogenic pathways
- Sanchari Bhattacharyya,
- Kith Pradhan,
- Nathaniel Campbell,
- Jozef Mazdo,
- Aparna Vasantkumar,
- Shahina Maqbool,
- Tushar D. Bhagat,
- Sonal Gupta,
- Masako Suzuki,
- Yiting Yu,
- John M. Greally,
- Ulrich Steidl,
- James Bradner,
- Meelad Dawlaty,
- Lucy Godley,
- Anirban Maitra,
- and Amit Verma
Genome Res. November 2017 27: 1830-1842; Published in Advance October 6, 2017, doi:10.1101/gr.222794.117
...www..org reactivation of transcription. The metazoan TET family of dioxygenases is comprised of three catalytic enzymes (TET1, TET2, and TET3) thatmediate the hydroxymethylation stepofmethylcytosine in an oxoglutarate and Fe(II)-dependent manner (Ito et al. 2010; Ko et al. 2010), and sequencing...
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Perspective: Enabling functional genomics with genome engineering
- Isaac B. Hilton and
- Charles A. Gersbach
Genome Res. October 2015 25: 1442-1455; doi:10.1101/gr.190124.115
...; Chakraborty et al. 2014; Gao et al. 2014; Tanenbaum et al. 2014; Konermann et al. 2015). This synergy is likely related to enhanced subunit recruitment and/or effective decreases in cofactor dissociation rates at targeted loci. Synthetic DBPs can also function as programmable transcriptional repressors...
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Research: Regeneration alters open chromatin and cis-regulatory landscape of erythroid precursors
- Yichao Zhou,
- Venkatasai Rahul Dogiparthi,
- Hannah L. Harris,
- Suhita Ray,
- Avik Choudhuri,
- Song Yang,
- Yi Zhou,
- Leonard I. Zon,
- M. Jordan Rowley,
- and Kyle J. Hewitt
Genome Res. July 2025 35: 1518-1529; Published in Advance June 2, 2025, doi:10.1101/gr.279949.124
.... 2015; Tseng et al. 2024). The process of stress erythropoiesis involves transcriptional changes that regulate progenitor cell expansion and differentiation, coinciding with increased accessibility and usage of cis-regulatory elements at distal enhancers (Zhou et al. 2023). Establishing key chromatin...
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Research: Prepatterning of differentiation-driven nuclear lamin A/C-associated chromatin domains by GlcNAcylated histone H2B
- Torunn Rønningen,
- Akshay Shah,
- Anja R. Oldenburg,
- Kristin Vekterud,
- Erwan Delbarre,
- Jan Øivind Moskaug,
- and Philippe Collas
Genome Res. December 2015 25: 1825-1835; Published in Advance September 10, 2015, doi:10.1101/gr.193748.115
...of EZH2 (Chu et al. 2014), and through its recruitment to chromatin by transcriptional corepressors (Yang et al. 2002; Vella et al. 2013). Thus, distinct mechanisms may link OGT to chromatin and OGT activity toward histones in different cellular contexts experiencing different metabolic states. Figure 5...

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