Epigenetic regulation of endocrine therapy resistance in breast cancer: A systems medicine approach to predict treatment outcome

Deliverables

Prizes (best presentation and publication) received at third EpiPredict annual meeting.

Prizes (best presentation, best publication, and best exposure for the lay public) received at fourth annual meeting

PhD degrees awarded

Prizes (best presentation, best publication, and best exposure for the lay public) received at second EpiPredict annual meeting.

Prize first annual meeting

Prize (best presentation) received at first EpiPredict annual meeting.

Publications

NET works after all? Engineering robustness through diversity

Author(s): Thierry D.G.A. Mondeel, Stefania Astrologo, Yanfei Zhang, Hans V. Westerhoff
Published in: IFAC-PapersOnLine, 51/19, 2018, Page(s) 128-137, ISSN 2405-8963
Publisher: Elsevier- IFAC
DOI: 10.1016/j.ifacol.2018.09.007

Enhancer mapping uncovers phenotypic heterogeneity and evolution in patients with luminal breast cancer

Author(s): Darren K. Patten, Giacomo Corleone, Balázs Győrffy, Ylenia Perone, Neil Slaven, Iros Barozzi, Edina Erdős, Alina Saiakhova, Kate Goddard, Andrea Vingiani, Sami Shousha, Lőrinc Sándor Pongor, Dimitri J. Hadjiminas, Gaia Schiavon, Peter Barry, Carlo Palmieri, Raul C. Coombes, Peter Scacheri, Giancarlo Pruneri, Luca Magnani
Published in: Nature Medicine, 24/9, 2018, Page(s) 1469-1480, ISSN 1078-8956
Publisher: Nature Publishing Group
DOI: 10.1038/s41591-018-0091-x

Epigenetic editing: towards realization of the curable genome concept

Author(s): D Goubert, W F Beckman, P J Verschure, M G Rots
Published in: Convergent Science Physical Oncology, 3/1, 2017, Page(s) 013006, ISSN 2057-1739
Publisher: IOP PUBLISHING LTD
DOI: 10.1088/2057-1739/aa5cc0

Extensive and systematic rewiring of histone post-translational modifications in cancer model systems

Author(s): Roberta Noberini, Daniela Osti, Claudia Miccolo, Cristina Richichi, Michela Lupia, Giacomo Corleone, Sung-Pil Hong, Piergiuseppe Colombo, Bianca Pollo, Lorenzo Fornasari, Giancarlo Pruneri, Luca Magnani, Ugo Cavallaro, Susanna Chiocca, Saverio Minucci, Giuliana Pelicci, Tiziana Bonaldi
Published in: Nucleic Acids Research, 46/8, 2018, Page(s) 3817-3832, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gky224

Targeting PLK1 overcomes T-DM1 resistance via CDK1-dependent phosphorylation and inactivation of Bcl-2/xL in HER2-positive breast cancer

Author(s): Özge Saatci, Simone Borgoni, Özge Akbulut, Selvi Durmuş, Umar Raza, Erol Eyüpoğlu, Can Alkan, Aytekin Akyol, Özgür Kütük, Stefan Wiemann, Özgür Şahin
Published in: Oncogene, 37/17, 2018, Page(s) 2251-2269, ISSN 0950-9232
Publisher: Nature Publishing Group
DOI: 10.1038/s41388-017-0108-9

Targeted epigenetic editing of SPDEF reduces mucus production in lung epithelial cells

Author(s): Juan Song, David Cano Rodriguez, Melanie Winkle, Rutger A.F. Gjaltema, Désirée Goubert, Tomasz P. Jurkowski, Irene H Heijink, Marianne G. Rots, Machteld N Hylkema
Published in: American Journal of Physiology - Lung Cellular and Molecular Physiology, 2016, Page(s) ajplung.00059.2016, ISSN 1040-0605
Publisher: American Physiological Society
DOI: 10.1152/ajplung.00059.2016

Acquired CYP19A1 amplification is an early specific mechanism of aromatase inhibitor resistance in ERα metastatic breast cancer

Author(s): Luca Magnani, Gianmaria Frigè, Raffaella Maria Gadaleta, Giacomo Corleone, Sonia Fabris, Hermannus Kempe, Pernette J Verschure, Iros Barozzi, Valentina Vircillo, Sung-Pil Hong, Ylenia Perone, Massimo Saini, Andreas Trumpp, Giuseppe Viale, Antonino Neri, Simak Ali, Marco Angelo Colleoni, Giancarlo Pruneri, Saverio Minucci
Published in: Nature Genetics, 49/3, 2017, Page(s) 444-450, ISSN 1061-4036
Publisher: Nature Publishing Group
DOI: 10.1038/ng.3773

Cell-to-Cell Transcription Variability as Measured by Single-Molecule RNA FISH to Detect Epigenetic State Switching

Author(s): William Beckman, Ilona M. Vuist, Hermannus Kempe, Pernette J. Verschure
Published in: Epigenome Editing, 1767, 2018, Page(s) 385-393, ISBN 978-1-4939-7773-4
Publisher: Springer New York
DOI: 10.1007/978-1-4939-7774-1_21

Establishment of Cell Lines Stably Expressing dCas9-Fusions to Address Kinetics of Epigenetic Editing

Author(s): Désirée Goubert, Mihály Koncz, Antal Kiss, Marianne G. Rots
Published in: Epigenome Editing, 1767, 2018, Page(s) 395-415, ISBN 978-1-4939-7773-4
Publisher: Springer New York
DOI: 10.1007/978-1-4939-7774-1_22

Rewriting DNA Methylation Signatures at Will: The Curable Genome Within Reach?

Author(s): Sabine Stolzenburg, Désirée Goubert, Marianne G. Rots
Published in: DNA Methyltransferases - Role and Function, 945, 2016, Page(s) 475-490, ISBN 978-3-319-43622-7
Publisher: Springer International Publishing
DOI: 10.1007/978-3-319-43624-1_17

Chromatin Immunoprecipitation and High-Throughput Sequencing (ChIP-Seq): Tips and Tricks Regarding the Laboratory Protocol and Initial Downstream Data Analysis

Author(s): Darren K. Patten, Giacomo Corleone, Luca Magnani
Published in: Epigenome Editing - Methods and Protocols, 1767, 2018, Page(s) 271-288, ISBN 978-1-4939-7773-4
Publisher: Springer New York
DOI: 10.1007/978-1-4939-7774-1_15

Datasets

Additional file 4: Table S2. of Proteomic profiling of breast cancer metabolism identifies SHMT2 and ASCT2 as prognostic factors

Author(s): Bernhardt, Stephan; BayerlovĂĄ, Michaela; Vetter, Martina; Wachter, Astrid; Mitra, Devina; Hanf, Volker; Lantzsch, Tilmann; Uleer, Christoph; Peschel, Susanne; John, Jutta; JĂśrg Buchmann; Weigert, Edith; Karl-Friedrich BĂźrrig; Thomssen, Christoph; Korf, Ulrike; Beissbarth, Tim; Wiemann, Stefan; Kantelhardt, Eva
Published in: Figshare

Additional file 1 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer