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  1. Queen Mary University of London
  2. Research
  3. Publications

Publications: DR Ozgen Deniz

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Gimeno-Valiente F, Castignani C, Larose Cadieux E, Mensah NE, Liu X, Chen K, Chervova O, Karasaki T et al. ( 2025 ) . DNA methylation cooperates with genomic alterations during non-small cell lung cancer evolution . Nature Genetics vol. 57 , ( 9 ) 2226 - 2237 .
Tunbak H, Deniz Ö ( 2025 ) . Reawakening retrotransposons: immune modulation in normal and malignant hematopoiesis . Trends in Cancer vol. 11 , ( 11 ) 1106 - 1117 .
Gimeno-Valiente F, Castignani C, Liu X, Stavrou G, Mensah NE, Cadieux EL, Deniz Ö, Jamal-Hanjani M et al. ( 2025 ) . Abstract 4094: Allosteric chromatin activity transition mechanisms drive epigenetic dosage compensation in essential genes triggered by oncogene activation in TRACERx . Cancer Research vol. 85 , ( 8_Supplement_1 ) 4094 - 4094 .
Kaya F, Bewicke-Copley F, Miettinen JJ, Casado P, Leddy E, Deniz Ö, Lavallée V-P, Philippe C et al. ( 2025 ) . DEK::NUP214 acts as an XPO1-dependent transcriptional activator of essential leukemia genes . Leukemia vol. 39 , ( 6 ) 1526 - 1531 .
Kanu N, Gimeno-Valiente F, Castignani C, Cadieux EL, Mensah N, Liu X, Chervova O, Weeden CE et al. ( 2024 ) . 121P DNA methylation co-operates with genomic alterations during non-small cell lung cancer evolution . ESMO Open vol. 9 ,
Ng HL, Robinson ME, Malysheva V, Deniz O, Crump N, Cosgun KN, Helian K, Spivakov M et al. ( 2023 ) . The Transcriptional Landscape of Ph+B-ALL Is Orchestrated By Long-Range Enhancer-Promoter Interactions and the Coordinated Action of Phosphorylation-Dependent and Phosphorylation-Independent Transcription Factors . Blood vol. 142 , ( Supplement 1 )
Deniz Ö, Ahmed M, Todd CD, Rio-Machin A, Dawson MA, Branco MR ( 2020 ) . Endogenous retroviruses are a source of enhancers with oncogenic potential in acute myeloid leukaemia . Nature Communications vol. 11 , ( 1 )
Carrillo-Jimenez A, Deniz Ö, Niklison-Chirou MV, Ruiz R, Bezerra-Salomão K, Stratoulias V, Amouroux R, Yip PK et al. ( 2019 ) . TET2 Regulates the Neuroinflammatory Response in Microglia . Cell Reports vol. 29 , ( 3 ) 697 - 713.e8 .
Todd CD, Deniz Ö, Taylor D, Branco MR ( 2019 ) . Functional evaluation of transposable elements as enhancers in mouse embryonic and trophoblast stem cells . eLife vol. 8 ,
Deniz Ö, Frost JM, Branco MR ( 2019 ) . Author Correction: Regulation of transposable elements by DNA modifications . Nat Rev Genet
Deniz Ö, Frost JM, Branco MR ( 2019 ) . Regulation of transposable elements by DNA modifications . Nat Rev Genet
Deniz Ö, de la Rica L, Cheng KCL, Spensberger D, Branco MR ( 2018 ) . SETDB1 prevents TET2-dependent activation of IAP retroelements in naïve embryonic stem cells . Genome Biology vol. 19 , ( 1 )
de la Rica L, Deniz Ö, Cheng KC, Todd CD, Cruz C, Houseley J, Branco MR ( 2016 ) . TET-dependent regulation of retrotransposable elements in mouse embryonic stem cells . Genome Biol vol. 17 , ( 1 ) 234 - 234 .
Deniz Ö, Flores O, Aldea M, Soler-López M, Orozco M ( 2016 ) . Nucleosome architecture throughout the cell cycle . Scientific Reports vol. 6 , ( 1 )
Flores O, Deniz Ö, Soler-López M, Orozco M ( 2014 ) . Fuzziness and noise in nucleosomal architecture . Nucleic Acids Research vol. 42 , ( 8 ) 4934 - 4946 .
Pérez A, Castellazzi CL, Battistini F, Collinet K, Flores O, Deniz O, Ruiz ML, Torrents D et al. ( 2012 ) . Impact of Methylation on the Physical Properties of DNA . Biophysical Journal vol. 102 , ( 9 ) 2140 - 2148 .
Deniz Ö, Flores O, Battistini F, Pérez A, Soler-López M, Orozco M ( 2011 ) . Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast . BMC Genomics vol. 12 , ( 1 )
Kaya F, Bewicke-Copley F, Miettinen JJ, Casado P, Leddy E, Deniz Ö, Lavallée V-P, Philippe C et al. . DEK::NUP214 acts as an XPO1-dependent transcriptional activator of essential leukemia genes .
Deniz Ö, Ahmed M, Todd CD, Rio-Machin A, Dawson MA, Branco MR . Endogenous retroviruses are a source of enhancers with oncogenic potential in acute myeloid leukaemia .
Xu J, Whittle J, Clayfield L, Lie-a-ling M, Leddy EA, Smith D, Sellers R, Deniz O et al. . Epigenetic silencing of transposable elements by IRF2BP2 is a selective dependency of myeloid leukemia .
Todd CD, Deniz Ö, Branco MR . Functional evaluation of transposable elements as transcriptional enhancers in mouse embryonic and trophoblast stem cells .
Deniz Ö, de la Rica L, Cheng KCL, Spensberger D, Branco MR . SETDB1 prevents TET2-dependent activation of IAP retroelements in naïve embryonic stem cells .
Carrillo-Jimenez A, Deniz Ö, Niklison-Chirou MV, Ruiz R, Bezerra-Salomão K, Stratoulias V, Amouroux R, Yip PK et al. . TET2 regulates the neuroinflammatory response in microglia .
Grillo G, Nadorp B, Qamra A, Mitchell A, Arlidge C, Nand A, Takayama N, Murison A et al. . Transposable Elements Shape Stemness in Normal and Leukemic Hematopoiesis .
Deniz O, Prokopov D, Tunbak H, Leddy E, Drylie B, Camera F . Transposable elements as genome regulators in normal and malignant haematopoiesis . Blood Cancer Journal
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