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RESEARCH PUBLICATIONS (Edinburgh; 2024-present)

A. T. Lessenger, J. M. Skotheim , M. P. Swaffer* , J. L. Feldman*. Somatic polyploidy supports biosynthesis and tissue function by increasing transcriptional output. J Cell Biol, 224(3): e202403154 (2025)

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RESEARCH PUBLICATIONS (Stanford; 2017-2024)

G. K. Marinov, X. Chen, M. P. Swaffer, T. Xiang, A. R. Grossman & W. J. Greenleaf. Genome-wide distribution of 5-hydroxymethyluracil and chromatin accessibility in the Breviolum minutum genome Genome Biol 25, 115 (2024).

J. Makela, A. Papagiannakis, W. Lin, M. C. Lanz, S. Glenn, M. Swaffer, G. K. Marinov, J. M. Skotheim & C Jacobs-Wagner, Genome concentration limits cell growth and modulates proteome composition in Escherichia coli eLife, 97465.2 (2024)

M. C. Lanz, S. Zhang, M. P. Swaffer, I. Ziv, L. Hernández Götz, J. Kim, F. McCarthy, D. F. Jarosz, J. E. Elias & J. M. Skotheim. Genome dilution by cell growth drives starvation-like proteome remodeling in mammalian and yeast cells. Nat Struct Mol Biol, 31, 1859–1871 (2024)

M. P. Swaffer, G. Marinov, H. Zheng, L. F. Valenzuela, C. Tsui, A. W. Jones, J. Greenwood, A. Kundaje, W. Greenleaf, R. Reyes-Lamothe, J. M. Skotheim. RNA polymerase II dynamics and mRNA stability feedback scale mRNA amounts with cell size. Cell, 8674(23)01128-5 (2023) [Video summary available here].

M. C. Lanz, E. Zatulovskiy, M. P. Swaffer, L. Zhang, S. Zhang, D. S. You, G. K. Marinov, P. McAlpine, J. E. Elias, J. M. Skotheim. Increasing cell size remodels the proteome and promotes senescence. Molecular Cell, 82(17), 3255–3269.e8 (2022).

M. Kõivomägi, M. P. Swaffer, J. J. Turner, G. Marinov, J. M. Skotheim. Localized phosphorylation of RNA Polymerase II by G1 cyclin-Cdk promotes cell cycle entry. Science, 374(6565), 347–351 (2021).

M. P. Swaffer, J. Kim, D. Chandler-Brown, M. Langhinrichs, G. Marinov, W. Greenleaf, A. Kundaje, K. M. Schmoller, J. M. Skotheim. Size-independent mRNA synthesis and chromatin-based partitioning mechanisms generate and maintain constant amounts of protein per cell. Molecular Cell, 81(23), 4861–4875.e7 (2021).

Z. Shipony, G.K. Marinov, M. P. Swaffer, N.A. Sinnott-Armstrong, J.M. Skotheim, A. Kundaje, W.J. Greenleaf. Long-range Single-Molecule Mapping of Chromatin Accessibility in Eukaryotes. Nature Methods, 17(3), 319-327 (2020).

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RESEARCH PUBLICATIONS (Francis Crick Institute; 2011-2016)

S. Basu, E. L. Roberts, A. W. Jones, M. P. Swaffer, A. P. Snijders, P. Nurse. The Hydrophobic Patch Directs Cyclin B to Centrosomes to Promote Global CDK Phosphorylation at Mitosis. Current Biology, 30(5), 883–892.e4 (2020).

M.P. Swaffer, A.W. Jones, H. Flynn, A.P. Snidjers, P. Nurse. Quantitative phosphoproteomics reveals the signaling dynamics of cell-cycle kinases in the fission yeast Schizosaccharomyces pombe. Cell Reports, 24(2), 503–514 (2018).

M.P. Swaffer, A.W. Jones, H. Flynn, A.P. Snidjers, P. Nurse. CDK substrate phosphorylation and ordering the cell cycle. Cell 167(7), 1750-1761.e16 (2016).

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REVIEWS, METHODS & OTHER ARTICLES

D. Chatzitheodoridou M. D’Ario, I. Jones, L. Piñeros, D. Serbanescu, F. O’Donnell, C. Cadart, M. P. Swaffer. Cell size and growth – from single cells to the tree of life J. Cell Sci, 135(20), jcs260634 (2022).

S. Xie, M. Swaffer, J. M. Skotheim. Eukaryotic Cell Size Control and Its Relation to Biosynthesis and Senescence. Annu Rev Cell Dev Biol. (2022).

M. P. Swaffer. Substrate phosphorylation rates as an in vivo measurement of kinase activity. Cell Cycle Oscillators. Methods in Molecular Biology, vol 2329 (2021).

F. Bottanelli, B. Cadot, F. Campelo, S. Curran, P.M. Davidson, G. Dey, I. Raote, A. Straube, M.P. Swaffer. Science during lockdown – from virtual seminars to sustainable online communities. J. Cell Sci. 133(15): jcs249607 (2020).

J.O. Patterson, M. Swaffer, A. Filby. An Imaging Flow Cytometry-based approach to analyse the fission yeast cell cycle in fixed cells. Methods 82, 74-84 (2015).

W.F. Marshall, K.D. Young, M. Swaffer, E. Wood, P. Nurse, A. Kimura, J. Frankel, J. Wallingford, V. Walbot, X. Qu, A.H.K. Roeder. What determines cell size? BMC Biology 10, 101 (2012).

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