^* as corresponding author, ^$ as joint first author

Preprints

2022	Thomas, J.R., Appios, A., Calderbank, E.F., Zhao, X., Hamilton, R.S., Moffett, A., Sharkey, A., Laurenti, E., McGovern, N. (2022) Human HLFneg placental erythro-myeloid progenitors give rise to HLA Class IIneg Hofbauer cells.	[bioRxiv]
2019	Carnicer-Lombarte, A. Barone, D.G., Dimov, I.B., Hamilton, R.S., Prater, M., Rutz, R.L., Malliaras, G.G., Lacour, S.P., Bryant, C.E., Fawcett, J.W. & Franze, K. (2019) Mechanical mismatch as a driver of foreign body reaction to implanted materials.	[bioRxiv] [GitHub]
2018	Balmas, E., Rana, B.M.J., Hamilton R.S., Shreeve, N., Kieckbusch, J., Aye, I., Hawkes, D.A., Trotter, S., López-Tello, J., Yong, H., Valenti., S., Sferruzi-Perri, A., Gaccioli, F., McKenzie, A.N.J. & Colucci, F. (2018) Maternal group 2 innate lymphoid cells control fetal growth and protect from endotoxin-induced abortion in mice.	[bioRxiv] [GitHub]

Published

2022	Barone, D.G., Carnicer-Lombarte, A., Tourlomousis, P., Hamilton, R.S., Prater, M, Rutz, A.L., Dimov, I.B., Malliaras, G.G., Lacour, S.P., Robertson, A., Franze, K., Fawcett, J.W. & Bryant, C.E. (2022) Prevention of the foreign body response to implantable medical devices by inflammasome inhibition. PNAS, 119 (12) e2115857119	[DOI] [GitHub]
2021	Sheridan, M.A., Zhao, X., Fernando, R.C., Gardner, L., Perez-Garcia, V., Li, A., Marsh, S.G., Hamilton, R.S., Moffett, A., & Turco, M.Y. (2021) Characterization of primary models of human trophoblast. Development, 148 (21): dev199749	[DOI] [GitHub]
	Blake, G.E.T., Zhao, X., Yung, H.W, Burton, G.J., Ferguson-Smith, A.C., Hamilton, R.S., Watson, E.D. (2021) Defective folate metabolism causes germline epigenetic instability and distinguishes Hira as a phenotype inheritance biomarker. Nature Communications, 12, 3714	[DOI] [bioRxiv] [GitHub]
	Prater, M., Hamilton, R.S., Yung, H-W, Sharkey, A.M., Robson, P, Jauniaux, E., Charnock-Jones, D.S., Burton G.J. & Cindrova-Davies, T. (2021) RNA-Seq reveals changes in human placental metabolism, transport and endocrinology function in the first-second trimester transition. Biology Open, 10 (6): bio058222	[DOI] [GitHub 1] [GitHub 2]
	Napso, T., Zhao, X., Ibañez Lligoña, M., Sandovici, X. I., Kay, R.G., Gribble, F., Reimann, F., Meek, C., Hamilton, R.S., Sferruzzi-Perri, A.N. (2021) Placental secretome map identifies potential diagnostic and treatment targets for pregnancy complications. Nature Communications Biology, 4:701	[DOI] [bioRxiv] [GitHub]
	Strunz, B., Bister, J., Jönsson, H., Filipovic, I., Crona-Guterstam, Y., Kvedaraite, E., Sleiers, N., Dumitrescu, B., Friberg, D., Brännström, M., Lentini, A., Reinius, B., Cornillet, M., Willinger, T., Gidlöf, S., Hamilton, R.S., Ivarsson, M.A. & Björkström, N.K. (2021) Continuous human uterine NK cell differentiation in response to endometrial regeneration and pregnancy Science Immunology, 6, eabb7800	[DOI] [GitHub]
2020	Thomas, J., Appios, A., Zhao, W., Dutkiewicz, R., Donde, M., Naidu, P., Lee, M., Cerveira, J., Liu, B., Ginhoux, F., Burton, G., Hamilton, R.S., Moffett, A, Sharkey, A, McGovern, N (2020) Phenotypic and functional characterisation of first trimester human placental macrophages, Hofbauer cells Journal of Experimental Medicine, 218(1):e20200891	[DOI] [bioRxiv]
	Kyprianou, C., Christodoulou, N., Hamilton, R.S., Nahaboo, W., Suarez Boomgaard, D., Amadei, G., Migeotte, I., and Zernicka-Goetz, M. (2020) Basement membrane remodelling regulates mammalian embryogenesis Nature, 582, 253–258	[DOI] [GitHub]
	Harris, S.E., De Blasio, M.J., Zhao, X, Ma, M., Davies, K.L., Wooding, F.B.P., Hamilton, R.S., Blache, D., Meredith, D., Murray, A.J., Fowden, A.L. & Forhead, A.J. (2020) Thyroid deficiency before birth modifies adipose transcriptome to promote white adipose tissue growth and impair thermogenic capacity Thyroid	[DOI] [GitHub]
2019	Pisapia, L., Hamilton, R.S.$, D’Agostino, V, Pasqualea, B., Strazzullo, M., Provenzano, A., Gianfrani, C. & Del Pozzo, G. (2019) Tristetraprolin/ZFP36 regulates the turnover of autoimmune-associated HLA-DQ mRNAs Cells, 8(12), 1570	[DOI] [bioRxiv] [GitHub]
	Menelaou, K., Prater, M., Tuster, S.J., Blake, G.E.T, Geary-Joo, C., Cross, J.C., Hamilton, R.S. and Watson, E.D. (2019) Blastocyst transfer in mice alters the placental transcriptome and growth. Reproduction, 159:2, 115–132	[DOI] [GitHub]
2018	Turco, M.Y., Gardner, L., Kay, R., Hamilton, R.S., Prater, M., Hollinshead, M., McWhinnie, A., Esposito, L., Fernando, R., Skelton, H., Reimann, F., Gribble, F., Sharkey, A., Marsh, S.G.E., O’Rahilly, S., Hemberger, M., Burton, G.J. and Moffett. A. (2018) Trophoblast organoids as a model for maternal-fetal interactions during human placentation. Nature, 564, 263–267	[DOI] [GitHub]
	Bacon, W.A., Hamilton, R.S.$, Yu, Z., Kieckbusch, J., Hawkes, D., Krzak, A., Abell, C., Colucci, F. & Charnock-Jones, D.S. (2018) Single-Cell Analysis Identifies Thymic Maturation Delay in Growth-Restricted Neonatal Mice. Frontiers in Immunology, 9:2523	[DOI] [bioRxiv] [GitHub]
	Filipovic, I, Chiossone, L., Vacca, P., Hamilton, R.S., Doisne, J.M., Eberl, G., Walzer, T., Mingari, C., Sharkey, A., Moretta, L., Colucci, F. (2018) Molecular definition of group 1 innate lymphoid cells in the mouse uterus. Nature Communications, 9:1, 4492	[DOI] [bioRxiv] [GitHub]
	Ong, C-K & Hamilton, R.S.* (2018) Constructing Computational Pipelines Encyclopedia of Bioinformatics and Computational Biology, 3, 135-143	[DOI] [GitHub] [Book]
	Prater, M. & Hamilton, R.S.* (2018) Epigenetics: Analysis of cytosine modifications at single base resolution Encyclopedia of Bioinformatics and Computational Biology, 3, 341-353	[DOI] [Book]
2017	Taylor, W.R. & Hamilton, R.S. (2017) Exploring RNA conformational space under sparse distance restraints. Scientific Reports, 7, 44074	[DOI] [GitHub]
2016	Ost, T.W.B. & Hamilton, R.S. (2016) Improved nucleic acid sample analysis using convertible tags, WO Patent App. PCT/GB2015/052,183	[WO 2016016639 A1]
	Ost, T.W.B. & Hamilton, R.S. (2016) Improved nucleic acid re-sequencing using a reduced number of identified bases, WO Patent App. PCT/GB2015/053,153	[WO 2016063059 A1]
2014	McDermott, S.M., Yang, L., Halstead, J.M., Hamilton, R.S., Meignin, C. & Davis, I. (2014) Drosophila Syncrip modulates the expression of mRNAs encoding key synaptic proteins required for morphology at the neuromuscular junction. RNA, 20, 1593-1606	[DOI]
	Halstead, J.M., Lin, Y.Q., Durraine, L., Hamilton, R.S., Ball, G., Neely, G.G., Bellen, H.J. & Davis, I. (2014). Syncrip/hnRNP Q influences synaptic transmission and regulates BMP signaling at the Drosophila neuro-muscular synapse. Biol Open, 3, 839-849	[DOI]
2013	Taylor, W.R., Hamilton, R.S. & Sadowski, M.I. (2013) Prediction of Contacts from Correlated Sequence Substitutions. Current Opinion in Structural Biology, 23	[DOI]
	Pisapia, L., Cicatiello, V., Barba, P., Malanga, D., Maffei, A., Hamilton, R.S. and Del Pozzo, G. (2013) Co-regulated expression of alpha and beta mRNAs encoding HLA-DR surface heterodimers occurs by the MHCII RNA operon. Nucleic Acids Research, 1-15.	[DOI]
	Hamilton, R.S.*, Ball, G., & Davis, I. (2012) A multidiciplinary approach to mRNA localization. Biophysical approaches to translational control of gene expression. Biophysics for the Life Sciences, Vol 1, 213-233.	[DOI] [Amazon]
2012	Soares, D.C., Bradshaw, N.J., Zou, J., Kennaway, C.K., Hamilton, R.S., Chen, Z.A., Wear, M.A., Blackburn, E.A., Bramham, J., Böttcher, B, Millar, J.K., Barlow, P.N., Walkinshaw, M.D., Rappsilber, J., and Porteous, D.J (2012) The mitotic and neurodevelopmentally-critical proteins NDE1 and NDEL1 form dimers, tetramers and polymers with a folded-back structure in solution. Journal of Biological Chemistry, 287, 32381-32393.	[DOI]
	Ball, G., Parton, R.M., Hamilton, R.S. & Davis, I. (2012) A cell biologist’s guide to high resolution imaging. Methods in Enzymology – Imaging and Spectroscopic Analysis of Living Cells: Optical and Spectroscopic Techniques, 504, 29-55.	[DOI] [Amazon]
2011	Parton, R.M., Hamilton, R.S., Ball, G., Yang, L., Cullen, F., Lu, W., Ohkura, H. & Davis, I. (2011) A PAR-1 dependent orientation gradient of dynamic microtubules establishes cell polarity in the Drosophila oocyte. Journal of Cell Biology, 194, 121-135.	[DOI] [Biosights Video]
	Hamilton, R.S. & Davis, I. (2011) Identifying putative conserved RNA localization signals. Methods in Molecular Biology – RNA Detection and Visualization. Chapter 27, 447-466	[DOI] [Amazon]
2010	Hamilton, R.S.*, Parton, R.M., Oliveira, R.A., Ball, G., Vendra, G., Nasmyth, K. & Davis, I. (2010) ParticleStats: Open source software for the analysis of intracellular particle motility. Nucl. Acids Res. Web Server Edition	[DOI] [GitHub]
	Oliveira, R.A., Hamilton, R.S., Pauli, A., Davis, I., Nasmyth, K. (2010) Cohesin cleavage and Cdk inhibition trigger formation of daughter nuclei. Nature Cell Biology, 12,185-192.	[DOI]
2009	Beckett, M.G., Allton, C.R., Davies, C.T.H., Davis, I., Flynn, J.M., Grant, E.J., Hamilton, R.S., Irving, A.C., Kenway, R.D., Ostrowski, R.H., Perry, J.T., Swedlow, J.R., & Trew, A.S. (2009) Building a scientific data grid with DiGS Phil. Trans. R. Soc. A, 367:1897, 2471-2481.	[DOI]
	Hamilton, R.S., Hartswood, E., Jones, C., Vendra, G., Van De Bor, V., Finnegan, D., & Davis, I. (2009) A bioinformatics search pipeline, RNA2DSearch, identifies RNA localization elements in Drosophila retrotransposons RNA, 15, 200-207.	[DOI] [GitHub]
2008	Pickard, B.S., Knight, H.M., Hamilton, R.S., Soares, D.C., Walker, R., Boyd, J.K.F., Machell, J., Maclean, A., McGhee, K.A., Condie, A., Porteous, D.J., Clair, D., Davis, I., Blackwood, D.H.R. & Muir, W.J. (2008) A common variant in the 3’UTR of the GRIK4 glutamate receptor gene affects transcript abundance and protects against bipolar disorder. PNAS, 105, 14940-14945.	[DOI]
2007	Vendra, G., Hamilton, R.S. & Davis, I (2007) Dynactin suppresses the retrograde movement of apically localized mRNA in Drosophila blastoderm embryos. RNA, 13, 1-8.	[DOI]
	Hamilton, R.S. & Davis, I. (2007) RNA localization signals: deciphering the message with bioinformatics. Semin Cell Dev Biol. 18(2), 178-185.	[DOI]

Posters / Abstracts

2019	Napso, T., Zhao, X., Hamilton, R.S., Sferruzzi-Perri, A.N. (2019) Identifying Placental Hormones that Adapt Maternal Physiology to Support Fetal Growth. Reproductive Sciences, 26, 355A-356A	[DOI]
	Wingett, S., Andrews, S., Botta, M., Cairns, Dobnikar, L., Edwards, C., Freire-Pritchett, P., Gibbon, S., Hamilton, R.S., Kessler, N., Krueger, C., Krueger, F., Keitley, D., Lloyd, C., Montgomery, J., Reikine, S., Thiecke, M., Westoby, J., Yuan, U., Zhao, X. (2019) Cambridge Bioinformatics Hackathon 2018. F1000Research, 8:212	[DOI]
2018	Bacon, W., Kieckbusch, J., Hamilton, R., Hawkes, D., Yu, Z., Abell, C., Colucci, F. and Charnock-Jones, D.S. (2018) Coup De T-Cell: Deffective placentation impedes neonatal immunity. Placenta, 69, E20-E20.	[DOI]
2017	Wingett, S., Ayres, D., Bagshaw, A., Botta, M., Brown, K., Burge, S., Burren, O., Cortijo, S., Dialdestoro, K., Gogleva, A., Hamilton, R.S., Hu, F., Kayikci, M., Krueger, C., Krueger, F., Manzano, R., Matheson, L., Nguyen, T., Prater, M., Rahmat, R., Rice, P., Rocheteau, E., Samarghitean, C., Samborskyy, M., Stempor, P., Tavares, H., Thiecke, M., Tumescheit, C., Zorin, A. and Andrews, S. (2017) Cambridge Bioinformatics Hackathon 2017. F1000Research, 6, 1942	[DOI]
	Bacon. W., Hamilton, R.S., Yu, Z., Abell, C., Hemberger, M. & Charnock-Jones, S. (2017) Pink Doesn’t Exist! – A Tale of Trophoblast Differentiation. Placenta, 57, 255.	[DOI]
	Prater, M., Stepanova, O., Yung, H., Jauniaux, E., Sharkey, A., Charnock-Jones, S., Burton, G.J., & Hamilton, R.S.* (2017) Transcriptome Analysis of Chorionic Villous Samples from Pre-flow (7-8 weeks) and Post-flow (13-14 weeks) Human Placenta Placenta, 57, 259-260.	[DOI]

Theses

2006	Hamilton, R.S. (2006) DAROGAN: Enzyme Function Prediction from Multiple Sequence Alignments. PhD Thesis: University of Edinburgh	[OCLC]
2000	Hamilton, R.S. (2000) Dividing Up Large Protein Surfaces. MSc Thesis: University of Aberdeen	[Aberdeen]
1999	Hamilton, R.S. (1999) 3D Structural Studies Of Drug Binding To Dihydrofolate Reductase. BSc Project: University of Leeds