Dr Radu Zabet

Radu Zabet

Reader in AI and Cancer Epigenetics

Blizard Institute
Queen Mary University of London

Research

Epigenetics, chromatin, cell fate, cancer, AI

Interests

Using in vitro models to model disease state and understand how chromatin and epigenetic changes can be leveraged for novel drug targets.

Publications

solid heart iconPublications of specific relevance to Predictive in vitro Models

2026

Modeling medulloblastoma pathogenesis and treatment in human cerebellar organoids.
Willott T, Nicholson JG, Zhang X, Xiao Y, Ogunbiyi O, Draper B, Mistry T, Donovan LK et al.
Genes & Development, Cold Spring Harbor Laboratory 
22-04-2026
Systematic investigation of interindividual variation of DNA methylation in human whole blood
Grant OA, Kumari M, Schalkwyk L, Zabet NR
Genome Biology, Springer Nature vol. 27 (1) 
05-03-2026
Gene body methylation buffers noise in gene expression in plants
Zastąpiło J, Emmerson RA, Mikheeva LA, Catoni M, Bechtold U, Zabet NR
Nucleic Acids Research, Oxford University Press (Oup) vol. 54 (4) 
05-02-2026

2025

Correction: iNOME-seq: in vivo simultaneous genome-wide mapping of chromatin accessibility, nucleosome positioning, DNA-binding protein sites, and DNA methylation in Arabidopsis
Hussain N, Merritt R, Engelhorn J, Antunez-Sanchez J, Wibowo A, Latrasse D, Wrightsman T, Collenberg M et al.
Genome Biology, Springer Nature vol. 26 (1) 
10-12-2025
iNOME-seq: in vivo simultaneous genome-wide mapping of chromatin accessibility, nucleosome positioning, DNA-binding protein sites, and DNA methylation in Arabidopsis
Hussain N, Merrit R, Engelhorn J, Antunez-Sanchez J, Wibowo A, Latrasse D, Wrightsman T, Collenberg M et al.
Genome Biology, Springer Nature vol. 26 (1) 
22-10-2025
P09.02.A DISRUPTION OF DNA METHYLATION UNDERPINS THE NEUROINFLAMMATION INDUCED BY TARGETED CNS RADIOTHERAPY
Millner TO, Panday P, Xiao Y, Nicholson J, Boot JR, Arpe Z, Stevens P, Rahman N et al.
Neuro-Oncology, Oxford University Press (Oup) vol. 27 (Supplement_3), iii89-iii89.  
03-10-2025
DNA methylation contributes to plant acclimation to naturally fluctuating light
Emmerson RA, Davey P, Kandjoze M, Bechtold U, Zabet NR, Lawson T
New Phytologist, Wiley vol. 248 (5), 2361-2375.  
20-09-2025
MDB-13. Modelling medulloblastoma pathogenesis and treatment in human cerebellar organoids
Willott T, Nicholson JG, Xiao Y, Ogunbiyi O, Mistry T, Zabet NR, Merve A, Badodi S et al.
Neuro-Oncology Pediatrics, Oxford University Press (Oup) vol. 1 (Supplement_1) 
01-08-2025
HGG-02. Epigenetic dysregulation of PRC1 in paediatric high-grade glioma
Hadaway A, Xiao Y, Zabet NR, Marino S, Badodi S
Neuro-Oncology Pediatrics, Oxford University Press (Oup) vol. 1 (Supplement_1) 
01-08-2025
Disruption of DNA methylation underpins the neuroinflammation induced by targeted CNS radiotherapy
Millner TO, Panday P, Xiao Y, Nicholson JG, Boot JR, Arpe Z, Stevens PA, Rahman NN et al.
Brain, Oxford University Press (Oup) vol. 148 (9), 3137-3152.  
29-04-2025
Mapping chromatin remodelling in glioblastoma identifies epigenetic regulation of key molecular pathways and novel druggable targets
Vinel C, Boot J, Jin W, Pomella N, Hadaway A, Mein C, Zabet NR, Marino S
Bmc Biology, Springer Nature vol. 23 (1) 
07-02-2025

2024

Shedding light on DNA methylation and its clinical implications: the impact of long-read-based nanopore technology
Chera A, Stancu-Cretu M, Bucur O
Epigenetics & Chromatin, Springer Nature vol. 17 (1) 
30-12-2024
Proteome-wide forced interactions reveal a functional map of cell-cycle phospho-regulation in S. cerevisiae
Klemm C, Ólafsson G, Wood HR, Mellor C, Thorpe PH
Nucleus, Taylor & Francis vol. 15 (1) 
01-12-2024
A Type-2 Fuzzy Logic-Based Explainable Artificial Intelligence for the Prediction of Enhancers
Maqsood K, Hagras H
2024 IEEE International Conference on Fuzzy Systems (FUZZ-IEEE). 
05-07-2024
An overview of artificial intelligence in the field of genomics
Maqsood K, Zabet NR
Discover Artificial Intelligence, Springer Nature vol. 4 (1) 
30-01-2024

2023

Identification of mammalian transcription factors that bind to inaccessible chromatin.
Pop RT, Pisante A, Nagy D, Martin PCN, Mikheeva LA, Hayat A, Ficz G, Zabet NR
Nucleic Acids Res vol. 51 (16), 8480-8495.  
08-09-2023
H4K16ac activates the transcription of transposable elements and contributes to their cis-regulatory function
Pal D, Patel M, Boulet F, Sundarraj J, Grant OA, Branco MR, Basu S, Santos SDM et al.
Nature Structural & Molecular Biology, Springer Nature vol. 30 (7), 935-947.  
12-06-2023

2022

ZipHiC: a novel Bayesian framework to identify enriched interactions and experimental biases in Hi-C data
Osuntoki IG, Harrison A, Dai H, Bao Y
Bioinformatics, Oxford University Press (Oup) vol. 38 (14), 3523-3531.  
09-06-2022
MEDB-23. Targeting epigenetic dysregulation in medulloblastoma with poor prognosis
Badodi S, Pomella N, Zhang X, Zabet NR, Basson MA, Marino S
Neuro-Oncology, Oxford University Press (Oup) vol. 24 (Supplement_1), i109-i110.  
03-06-2022
Characterising sex differences of autosomal DNA methylation in whole blood using the Illumina EPIC array
Grant OA, Wang Y, Zabet NR
Clinical Epigenetics, Springer Nature vol. 14 (1) 
14-05-2022
The role of insulators and transcription in 3D chromatin organization of flies
Chathoth KT, Mikheeva LA, Crevel G, Hunter I, Beckett-Doyle S, Harrison A
Genome Research, Cold Spring Harbor Laboratory vol. 32 (4), 682-698.  
30-03-2022
Combination of BMI1 and MAPK/ERK inhibitors is effective in medulloblastoma
Badodi S, Pomella N, Lim YM, Brandner S, Morrison G, Pollard SM, Zhang X, Zabet NR et al.
Neuro-Oncology, Oxford University Press (Oup) vol. 24 (8), 1273-1285.  
25-02-2022
TARGETING EPIGENETIC DYSREGULATION IN MEDULLOBLASTOMA WITH POOR PROGNOSIS
Badodi S, Pomella N, Zhang X, Zabet NR, Basson MA, Marino S
 
01-01-2022

2021

Locus-specific chromatin profiling of evolutionarily young transposable elements
Taylor D, Lowe R, Philippe C, Cheng KCL, Grant OA, Zabet NR, Cristofari G
Nucleic Acids Research, Oxford University Press (Oup) vol. 50 (6), e33-e33.  
15-12-2021
An explainable artificial intelligence approach for decoding the enhancer histone modifications code and identification of novel enhancers in Drosophila
Wolfe JC, Mikheeva LA, Hagras H
Genome Biology, Springer Nature vol. 22 (1) 
08-11-2021
Analysis of Plant DNA Methylation Profiles Using R
Catoni M, Zabet NR
In Plant Transposable Elements, Springer Nature 219-238.  
01-01-2021

2020

Editorial: Interactions of Plants With Bacteria and Fungi: Molecular and Epigenetic Plasticity of the Host
Fiorilli V, Catoni M, Lanfranco L
Frontiers in Plant Science, Frontiers vol. 11 
04-03-2020
Dissecting the binding mechanisms of transcription factors to DNA using a statistical thermodynamics framework
Martin PCN, Zabet NR
Computational and Structural Biotechnology Journal, American Association For The Advancement of Science (Aaas) vol. 18, 3590-3605.  
01-01-2020

2019

Chromatin architecture reorganization during neuronal cell differentiation in Drosophila genome
Chathoth KT
Genome Research, Cold Spring Harbor Laboratory vol. 29 (4), 613-625.  
01-02-2019

2018

DMRcaller: a versatile R/Bioconductor package for detection and visualization of differentially methylated regions in CpG and non-CpG contexts
Catoni M, Tsang JM, Greco AP
Nucleic Acids Research, Oxford University Press (Oup) vol. 46 (19), e114-e114.  
09-07-2018
Gene Expression Dominance in Allopolyploids: Hypotheses and Models
Bottani S, Zabet NR, Wendel JF
Trends in Plant Science, Elsevier vol. 23 (5), 393-402.  
09-02-2018

2017

High-frequency recombination between members of an LTR retrotransposon family during transposition bursts
Sanchez DH, Gaubert H, Drost H-G, Zabet NR
Nature Communications, Springer Nature vol. 8 (1) 
03-11-2017
DNA sequence properties that predict susceptibility to epiallelic switching
Catoni M, Griffiths J, Becker C, Zabet NR, Bayon C
The Embo Journal, Springer Nature vol. 36 (5), 617-628.  
09-01-2017
Cytosine methylation at CpCpG sites triggers accumulation of non-CpG methylation in gene bodies
Zabet NR, Catoni M, Prischi F
Nucleic Acids Research, Oxford University Press (Oup) vol. 45 (7), 3777-3784.  
03-01-2017

2014

Estimating binding properties of transcription factors from genome-wide binding profiles
Zabet NR
Nucleic Acids Research, Oxford University Press (Oup) vol. 43 (1), 84-94.  
28-11-2014
Estimating binding properties of transcription factors from genome-wide binding profiles
Zabet NR, Adryan B
In Arxiv 
29-10-2014
Facilitated diffusion buffers noise in gene expression
Schoech AP, Zabet NR
In Arxiv 
03-09-2014
Facilitated diffusion buffers noise in gene expression
Schoech AP
Physical Review E, American Physical Society (Aps) vol. 90 (3) 
01-09-2014
Negative Feedback and Physical Limits of Genes
Zabet NR
In Arxiv 
08-08-2014
Homotypic clusters of transcription factor binding sites: A model system for understanding the physical mechanics of gene expression
Ezer D, Zabet NR
Computational and Structural Biotechnology Journal, American Association For The Advancement of Science (Aaas) vol. 10 (17), 63-69.  
01-07-2014
Physical constraints determine the logic of bacterial promoter architectures
Ezer D, Zabet NR
Nucleic Acids Research, Oxford University Press (Oup) vol. 42 (7), 4196-4207.  
28-01-2014

2013

Physical constraints determine the logic of bacterial promoter architectures
Ezer D, Zabet NR, Adryan B
In Arxiv 
27-12-2013
The Influence of Transcription Factor Competition on the Relationship between Occupancy and Affinity
Zabet NR, Foy R, Adryan B
Plos One, Public Library of Science (Plos) vol. 8 (9) 
27-09-2013
The effects of transcription factor competition on gene regulation
Zabet NR, Adryan B
In Arxiv 
06-08-2013
The influence of transcription factor competition on the relationship between occupancy and affinity
Zabet NR, Foy R, Adryan B
In Arxiv 
27-03-2013
The effects of transcription factor competition on gene regulation
Zabet NR, Adryan B
Frontiers in Genetics, Frontiers vol. 4 
01-01-2013

2012

Computational models for large-scale simulations of facilitated diffusion
Zabet NR, Adryan B
Molecular Omics, Oxford University Press (Oup) vol. 8 (11), 2815-2827.  
03-08-2012
A comprehensive computational model of facilitated diffusion in prokaryotes
Zabet NR
Bioinformatics, Oxford University Press (Oup) vol. 28 (11), 1517-1524.  
06-04-2012
GRiP: a computational tool to simulate transcription factor binding in prokaryotes
Zabet NR, Adryan B
Bioinformatics, Oxford University Press (Oup) vol. 28 (9), 1287-1289.  
16-03-2012
System size reduction in stochastic simulations of the facilitated diffusion mechanism
Zabet NR
Bmc Systems Biology, Springer Nature vol. 6 (1) 
01-01-2012
A Comprehensive Computational Model to Simulate Transcription Factor Binding in Prokaryotes
Zabet NR, Adryan B
 
01-01-2012

2011

A novel and versatile computational tool to model translation
Chu D, Zabet N
Bioinformatics, Oxford University Press (Oup) vol. 28 (2), 292-293.  
22-11-2011
Negative feedback and physical limits of genes
Zabet NR
Journal of Theoretical Biology, Elsevier vol. 284 (1), 82-91.  
25-06-2011
Optimal parameter settings for information processing in gene regulatory networks
Chu DF, Hone ANW
Biosystems, Elsevier vol. 104 (2-3), 99-108.  
21-01-2011

2010

Design principles of transcriptional logic circuits
Zabet NR, Chu DF
 
01-12-2010
Stochasticity and robustness in bi-stable systems
Zabet NR
2010 4th International Conference on Bioinformatics and Biomedical Engineering. 
01-06-2010

2009

Computational limits to binary genes
Zabet NR
Journal of The Royal Society Interface, The Royal Society vol. 7 (47), 945-954.  
04-12-2009

2008

Models of transcription factor binding: Sensitivity of activation functions to model assumptions
Chu D, Zabet NR, Mitavskiy B
Journal of Theoretical Biology, Elsevier vol. 257 (3), 419-429.  
10-12-2008

Modelling medulloblastoma pathogenesis and treatment in human cerebellar organoids
Willott T, Nicholson JG, Xiao Y, Ogunbiyi O, Draper B, Mistry T, Donovan L, Zabet NR et al.
In Biorxiv 
Convergent evolution of cluster-wide Hox gene regulation in Bilateria
Davies BE, Martín-Zamora FM, Frankish T, Parey E, Ellis N, Maziak N, Guynes K, Zolotarov G et al.
In Biorxiv 
HiCPotts: An R/Bioconductor package to identify significant interactions in chromosome conformation capture data and model sources of biases
Osuntoki IG, Harrison A, Dai H, Bao Y, Zabet NR
In Biorxiv 
Characterising sex differences of autosomal DNA methylation in whole blood using the Illumina EPIC array
Grant OA, Wang Y, Kumari M, Zabet NR, Schalkwyk L
In Biorxiv 
ZipHiC: a novel Bayesian framework to identify enriched interactions and experimental biases in Hi-C data
Osuntoki IG, Harrison A, Dai H, Bao Y, Zabet NR
In Biorxiv 
Locus-specific chromatin profiling of evolutionarily young transposable elements
Taylor D, Lowe R, Cheng KCL, Grant OA, Zabet NR
In Biorxiv 
The role of insulators and transcription in 3D chromatin organisation of flies
Chathoth KT, Mikheeva LA, Crevel G, Wolfe JC, Hunter I, Beckett-Doyle S, Cotterill S, Dai H et al.
In Biorxiv 
Dissecting the binding mechanisms of transcription factors to DNA using a statistical thermodynamics framework
Martin PCN, Zabet NR
In Biorxiv 
Chromatin architecture reorganisation during neuronal cell differentiation in Drosophila genome
Chathoth KT, Zabet NR
In Biorxiv 
DNA sequence properties that predict susceptibility to epiallelic switching
Catoni M, Griffiths J, Becker C, Zabet NR, Bayon C, Dapp M, Lieberman-Lazarovich M, Weigel D et al.
In Biorxiv 
H4K16ac activates the transcription of transposable elements and contributes to their cis-regulatory function
Pal D, Patel M, Boulet F, Sundarraj J, Grant OA, Branco MR, Basu S, Santos S et al.
In Biorxiv 
Identification of mammalian transcription factors that bind to inaccessible chromatin
Pop RT, Pisante A, Nagy D, Martin PCN, Mikheeva LA, Hayat A, Ficz G, Zabet NR
In Biorxiv 
Systematic investigation of interindividual variation of DNA methylation in human whole blood
Grant OA, Kumari M, Schalkwyk L, Zabet NR
In Biorxiv 
Mapping chromatin remodelling in glioblastoma identifies epigenetic regulation of key molecular pathways and novel druggable targets
Vinel C, Boot J, Jin W, Pomella N, Mein C, Zabet NR, Marino S
In Biorxiv 
DNA methylation contributes to plant acclimation to naturally fluctuating light
Emmerson RA, Bechtold U, Zabet NR, Lawson T
In Biorxiv 
Gene body methylation buffers noise in gene expression in plants
Zastąpiło J, Emmerson R, Mikheeva LA, Catoni M, Bechtold U, Zabet NR
In Biorxiv