Publications

Simon Mitchell, Frances Pearl (2026). From Planning to Public Benefit: How Open Data Improves Your Research. Open Research Bulletin.

Aleksandra Kolosova, Imogen Mould, Chris Pepper, Simon Mitchell, Andrea Pepper, Eleni Ladikou, Fabio Simoes (2026). Exploring the Bone Marrow Microenvironment as a Therapeutic Barrier and Targetable Source of Crosstalk in Acute Myeloid Leukemia. Blood and Lymphatic Cancer: Targets and Therapy.

Jimena Berni, Jesús Rodriguez Curt, Meg Sambrook, Sara Deppieri, Katrin Nielsen, Nadezhda Velichkova, Richard Norris, Haluk Lacin, Simon Mitchell, James Truman, Emiliano Merlo (2026). Hox Activity Levels Governs the Evolution of Homologous Behaviors.. Preprint (Research Square).

Orthi Shahzad, Richard Norris, Niels Weinhold, Charlotte Pawlyn, Brian Walker, Cody Ashby, Christopher Wardell, David Cairns, Martin Kaiser, Gordon Cook, Faith Davies, Mark Drayson, Roger Owen, Graham Jackson, Gareth Morgan, Simon Mitchell, John Jones (2025). Applying computational modelling to a high-risk multiple myeloma data set to create novel risk stratification groupings. Conference Abstract (Blood (Supplement 1)).

Fabio A. Simoes, Greg Scutt, Manuela Mengozzi, Simon Mitchell, Jacob Keen, Katherine A. Staines, Linda Troeberg, Blandine Poulet, Andrew A. Pitsillides, Lisa M. Mullen (2025). Development of a translational strategy for using TIMP-3 to inhibit aggrecanase activity in osteoarthritis. Osteoarthr. Cartil..

Aimilia Vareli, Haripriya Vaidehi Narayanan, Heather Clark, Eleanor Jayawant, Hui Zhou, Yi Liu, Emma Kennedy, Lauren Stott, Fabio Simoes, Alexander Hoffmann, Andrea Pepper, Chris Pepper, Simon Mitchell (2025). Systems biology-enabled targeting of NF-κΒ and BCL2 overcomes microenvironment-mediated BH3-mimetic resistance in DLBCL. Cell Death Dis.

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Eleanor Jayawant, Aimilia Vareli, Andrea Pepper, Chris Pepper, Fabio Simoes, Simon Mitchell (2025). Computational modelling of aggressive B-cell lymphoma. Biochem Soc Trans.

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Peiqin Jin, Md. Mahbub Hasan, Andrea G.S. Pepper, Simon Mitchell, Khondaker Miraz Rahman, Chris Pepper (2025). Design, synthesis and evaluation of Pyrrolobenzodiazepine (PBD)-based PROTAC conjugates for the selective degradation of the NF-κB RelA/p65 subunit. RSC Medicinal Chemistry.

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Koushik Roy, Aimilia Vareli, Simon Mitchell (2025). A Systems Biology Approach of Quantifying Signal Transduction to B-Cell Proliferation and Differentiation. B-Cell Receptor Signaling.

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Richard Norris, John Jones, Erika Mancini, Timothy Chevassut, Fabio A. Simoes, Chris Pepper, Andrea Pepper, Simon Mitchell (2024). Patient-specific computational models predict prognosis in B cell lymphoma by quantifying pro-proliferative and anti-apoptotic signatures from genetic sequencing data. Blood Cancer Jnl.

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Rajesh Parmar, Harry Pickering, Richard Ahn, Maura Rossetti, David W. Gjertson, Felicia Ruffin, Liana C. Chan, Vance G. Fowler, Michael R. Yeaman, Elaine F. Reed (2024). Integrated transcriptomic analysis reveals immune signatures distinguishing persistent versus resolving outcomes in MRSA bacteremia. Frontiers in Immunology.

Ielyaas Cloete, Victoria M. Smith, Ross A. Jackson, Andrea Pepper, Chris Pepper, Meike Vogler, Martin J. S. Dyer, Simon Mitchell (2023). Computational modeling of DLBCL predicts response to BH3-mimetics. npj Syst Biol Appl.

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Eleanor Jayawant, Arran Pack, Heather Clark, Emma Kennedy, Ankur Ghodke, John Jones, Chris Pepper, Andrea Pepper, Simon Mitchell (2023). NF-κB fingerprinting reveals heterogeneous NF-κB composition in diffuse large B-cell lymphoma. Front. Oncol..

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Alice O’Donnell, Chris Pepper, Simon Mitchell, Andrea Pepper (2023). NF-kB and the CLL microenvironment. Front. Oncol..

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Simon Mitchell, Rachel Tsui, Zhixin Cyrillus Tan, Arran Pack, Alexander Hoffmann (2023). The NF-κB multidimer system model: A knowledge base to explore diverse biological contexts. Sci. Signal..

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E. Kennedy, S. Mitchell, T. A. Burley, T. Liloglou, R. Johnston, I. Ashworth, D. Bak-Blaz, K. Chamberlain, E. Ladikou, S. Mackay, C. Pepper, A. G. Pepper (2022). P613: TLR9 SIGNALLING IS A POTENTIAL TUMOUR ESCAPE MECHANISM FOLLOWING BTKI THERAPY FOR THE TREATMENT OF CHRONIC LYMPHOCYTIC LEUKAEMIA.. HemaSphere.

E. Jayawant, A. Pepper, C. Pepper, S. Mitchell (2022). P1266: FLOW CYTOMETRY COMBINED WITH SYSTEMS BIOLOGY ENABLES RATIONAL TARGETING OF NFKB IN DLBCL. HemaSphere.

I. Cloete, V. Smith, R. Jackson, A. Pepper, C. Pepper, M. Dyer, S. Mitchell (2022). P1252: PREDICTING THE RESPONSE OF DLBCL CELLS TO BH3-MIMETICS USING SYSTEMS BIOLOGY. HemaSphere.

Alessandro Agnarelli, Simon Mitchell, Gillian Caalim, C David Wood, Leanne Milton-Harris, Timothy Chevassut, Michelle J West, Erika J Mancini (2022). Dissecting the Impact of Bromodomain Inhibitors on the IRF4-MYC Oncogenic Axis in Multiple Myeloma. Hematological Oncology.

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Thomas A Burley, Andrew Hesketh, Giselda Bucca, Emma Kennedy, Eleni E Ladikou, Benjamin P Towler, Simon Mitchell, Colin P Smith, Christopher Fegan, Rosalynd Johnston, Andrea Pepper, Chris Pepper (2022). Elucidation of Focal Adhesion Kinase as a Modulator of Migration and Invasion and as a Potential Therapeutic Target in Chronic Lymphocytic Leukemia. Cancers.

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Simon Mitchell (2021). What Will B Will B: Identifying Molecular Determinants of Diverse B-Cell Fate Decisions Through Systems Biology.. Frontiers in Cell and Developmental Biology.

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Emma Kennedy, Eve Coulter, Emma Halliwell, Nuria Profitos-Peleja, Elisabeth Walsby, Barnaby Clark, Elizabeth H Phillips, Thomas A Burley, Simon Mitchell, Stephen Devereux, others (2021). TLR9 expression in Chronic Lymphocytic Leukemia identifies a pro-migratory subpopulation and novel therapeutic target. Blood.

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Shahrzad Latifi, Simon Mitchell, Rouhollah Habibey, Fouzhan Hosseini, Elissa Donzis, Ana Marı́a Estrada-Sánchez, H Rezaei Nejad, Michael Levine, Peyman Golshani, S Thomas Carmichael (2020). Neuronal Network Topology Indicates Distinct Recovery Processes after Stroke. Cerebral Cortex.

Jane Mitchell, Simon Mitchell, Cliff Mitchell (2020). Machine learning for determining accurate outcomes in criminal trials. Law, Probability and Risk.

Kim A Ngo, Kensei Kishimoto, Jeremy Davis-Turak, Aditya Pimplaskar, Zhang Cheng, Roberto Spreafico, Emily Y Chen, Amy Tam, Gourisankar Ghosh, Simon Mitchell, others (2020). Dissecting the Regulatory Strategies of NF-κB RelA Target Genes in the Inflammatory Response Reveals Differential Transactivation Logics. Cell reports.

Marie Oliver Metzig, Ying Tang, Simon Mitchell, Brooks Taylor, Robert Foreman, Roy Wollman, Alexander Hoffmann (2020). An incoherent feedforward loop interprets NF$ąppa$B/RelA dynamics to determine TNF-induced necroptosis decisions. Molecular Systems Biology.

Simon Mitchell, Alexander Hoffmann (2019). Substrate complex competition is a regulatory motif that allows NFκB RelA to license but not amplify NFκB RelB. Proceedings of the National Academy of Sciences.

Simon Mitchell, Ellen L Mercado, Adewunmi Adelaja, Jessica Q Ho, Quen J Cheng, Gourisankar Ghosh, Alexander Hoffmann (2019). An NFκB activity calculator to delineate signaling crosstalk: type I and II interferons enhance NFκB via distinct mechanisms. Frontiers in immunology.

Koushik Roy, Simon Mitchell, Yi Liu, Sho Ohta, Yu-sheng Lin, Marie Oliver Metzig, Stephen L Nutt, Alexander Hoffmann (2019). A regulatory circuit controlling the dynamics of NFκB cRel transitions B cells from proliferation to plasma cell differentiation. Immunity.

Kyu-Hyeon Yeom, Simon Mitchell, Anthony J Linares, Sika Zheng, Chia-Ho Lin, Xiao-Jun Wang, Alexander Hoffmann, Douglas L Black (2018). Polypyrimidine tract-binding protein blocks miRNA-124 biogenesis to enforce its neuronal-specific expression in the mouse. Proceedings of the National Academy of Sciences.

Simon Mitchell, Koushik Roy, Thomas A Zangle, Alexander Hoffmann (2018). Nongenetic origins of cell-to-cell variability in B lymphocyte proliferation. Proceedings of the National Academy of Sciences.

Simon Mitchell, Alexander Hoffmann (2018). Identifying noise sources governing cell-to-cell variability. Current opinion in systems biology.

Koushik Roy, Maxim Nikolaievich Shokhirev, Simon Mitchell, Alexander Hoffmann (2018). Deriving Quantitative Cell Biological Information from Dye-Dilution Lymphocyte Proliferation Experiments. B Cell Receptor Signaling.

Vindy Tjendana Tjhin, Simon Mitchell, Elizabeth A Milward, Charles E Hutchinson, Michael J Chappell, Joanna F Collingwood (2017). COMPUTATIONAL MODELLING OF IRON TRANSPORT BETWEEN BLOOD CIRCULATION, BRAIN, AND DOPAMINERGIC NEURONS OF THE SUBSTANTIA NIGRA. AMERICAN JOURNAL OF HEMATOLOGY.

Simon Mitchell, Jesse Vargas, Alexander Hoffmann (2016). Signaling via the NF$ąppa$B system. Wiley Interdisciplinary Reviews: Systems Biology and Medicine.

Roberto Spreafico, Simon Mitchell, Alexander Hoffmann (2015). Training the 21st century immunologist. Trends in immunology.

Simon Mitchell, Rachel Tsui, Alexander Hoffmann (2015). Studying NF-$ąppa$B signaling with mathematical models. NF-kappa B.

Simon Mitchell, Pedro Mendes (2013). A computational model of liver iron metabolism. PLoS Comput Biol.