Crawford N, Salvucci M, Hellwig CT, Lincoln FA, Mooney RE, O’Connor CL, Prehn JH, Longley DB, Rehm M. Simulating and predicting cellular and in vivo responses of colon cancer to combined treatment with chemotherapy and IAP antagonist Birinapant/TL32711. Cell Death Differ. 2018 Mar 2. doi: 10.1038/s41418-018-0082-y. Link to paper here.

De Landtsheer S, Lucarelli P, Sauter T. Using regularization to infer cell line specificity in logical network models of signaling pathways. Front Physiol 9:550. Link to paper here.

Del Mistro G, Lucarelli P, Müller I, De Landtsheer S, Zinoveva A, Hutt M, Siegemund M, Kontermann RE, Beissert S, Sauter T, Kulms D. Systemic network analysis identifies XIAP and IκBα as potential drug targets in TRAIL resistant BRAF mutated melanoma. NPJ Syst Biol Appl 4:39. Link to paper here.

Di Rita A, D’acunzo P, Simula L, Campello S, Strappazzon F, Cecconi F. AMBRA1-mediated mitophagy counteracts oxidative stress and apoptosis induced by neurotoxicity in human neuroblastoma SH-SY5Y Cells. Front Cell Neurosci 12: 92. Link to paper here.

Di Rita A, Peschiaroli A, D Acunzo P, Strobbe D, Hu Z, Gruber J, Nygaard M, Lambrughi M, Melino G, Papaleo E, Dengjel J, El Alaoui S, Campanella M, Dötsch V, Rogov VV, Strappazzon F, Cecconi F. HUWE1 E3 ligase promotes PINK1/PARKIN-independent mitophagy by regulating AMBRA1 activation via IKKα. Nat Commun 9(1): 3755. Link to paper here.

Hantusch A, Rehm M, Brunner T. Counting on death – quantitative aspects of Bcl-2 family regulation. FEBS J 285(22): 4124-4138. Link to paper here.

Hantusch A, Das KK, Garcia-Saez AJ, Brunner T & Rehm M Bax retrotranslocation potentiates Bcl-XL’s antiapoptotic activity and is essential for switch-like transitions between MOMP competency and resistance. Cell Death Dis 9(4): 430. Link to paper here.

Liu H, He Z, April SL, Trefny MP, Rougier JS, Salemi S, Olariu R, Widmer HR & Simon HU. Biochemical re-programming of human dermal stem cells to neurons by increasing mitochondrial membrane potential. Cell Death Differ doi: 10.1038/s41418-018-0182-8. [Epub ahead of print]. Link to paper here.
Liu H, He Z, Bode P, Moch H & Simon HU. Downregulation of Autophagy-Related Proteins 1, 5, and 16 in testicular germ cell tumors parallels lowered LC3B and elevated p62 levels, suggesting reduced basal autophagy. Front Oncol 8: 366. Link to paper here.
Lucarelli P, Del Mistro G, Müller I, De Landtsheer S, Meier F, Kontermann R, Rehm M, Sauter T, Kulms D.Systems-based analysis of drug resistance in melanoma. Issue 12/ pages 8-12.
Müller I & Kulms D. A 3D organotypic melanoma spheroid skin model. J Vis Exp 135: 57500. Link to paper here.
Nazio F, Cecconi F (2018) The complexity of the ubiquitination code is driven by bacteria. Biotarget 2: 15. Link to paper here.
Romano E, Rufo N, Korf H, Mathieu C, Garg A, Agostinis PBNIP3 modulates the interface between B16-F10 melanoma cells and immune cells. Oncotarget 9(25): 17631-17644. Link to paper here.
Rožanc J, Sakellaropoulos T, Antoranz A, Guttà C, Podder B, Vetma V, Rufo N, Agostinis P, Pliaka V, Sauter T, Kulms D, Rehm M & Alexopoulos LG.Phosphoprotein patterns predict trametinib responsiveness and optimal trametinib sensitisation strategies in melanoma. Cell Death Diff Link to paper here.
Rukhlenko OS, Khorsand F, Krstic A, Rozanc J, Alexopoulos LG, Rauch N, Erickson KE, Hlavacek WS, Posner RG, Gómez-Coca S, Rosta E, Fitzgibbon C, Matallanas D, Rauch J, Kolch W, Kholodenko BN. Dissecting RAF inhibitor resistance by structure-based modeling reveals ways to overcome oncogenic RAS signaling. Cell Syst 7(2): 161-179. Link to paper here.
Seip K, Jørgensen K, Haselager MV, Albrecht M, Haugen MH, Egeland EV, Lucarelli P, Engebraaten O, Sauter T, Mælandsmo GM & Prasmickaite L. Stroma-induced phenotypic plasticity offers phenotype-specific targeting to improve melanoma treatment. Cancer Lett 439: 1-13. Link to paper here.
Siegemund M, Schneider F, Hutt M, Seifert O, Müller I, Kulms D, Pfizenmaier K & Kontermann RE.IgG-single-chain TRAIL fusion proteins for tumour therapy. Sci Rep 8: 7808. Link to paper here.
Skoko J, Rozanc J, Charles EM, Alexopoulos LG & Rehm M Post-treatment de-phosphorylation of p53 correlates with dasatinib responsiveness in malignant melanoma. BMC Cell Biology 19:28. Link to paper here.
Talebi A, Dehairs J, Rambow F, Rogiers A, Nittner D, Derua R, Vanderhoydonc F, Duarte JAG, Bosisio F, Van den Eynde K, Nys K, Pérez MV, Agostinis P, Waelkens E, Van den Oord J, Fendt SM, Marine JC, Swinnen JV. Sustained SREBP-1-dependent lipogenesis as a key mediator of resistance to BRAF-targeted therapy. Nat Commun 9(1): 2500. Link to paper here.


Albrecht M, Stichel D, Müller B, Merkle R, Sticht C, Gretz N, Klingmüller, U, Breuhahn K & Matthäus F TTCA: an R package for the identification of differentially expressed genes in time course microarray data BMC Informatics 18: 33. Link to paper here.

Bolognesi MM, Manzoni M, Scalia CR, Zannella S, Bosisio FM, Faretta M, Cattoretti G (2017) Multiplex staining by sequential immunostaining and antibody removal on routine tissue sections. J Histochem Cytochem 65(8): 431-444. Link to paper here.

Bosisio FM & van den Oord JJ Immunoplasticity in cutaneous melanoma: beyond pure morphology. Virchows Arch  DOI: 10.1007/s00428-016-2058-y. Link to paper here.

Capizzi MC, Strapazzon F, Cianfanelli V, Papaleo E, Cecconi F MIR7–3HG, a MYC-dependent modulator of cell proliferation, inhibits autophagy by a regulatory loop involving AMBRA1. Autophagy 13(3): 1-13. Link to paper here.

De Landtsheer S, Trairatphisan P, Lucarelli P & Sauter T FALCON: a toolbox for the fast contextualization of logical networks. Bioinformatics btx380. Link to paper here.

Garg AD, More S, Rufo N, Mece O,  Sassano ML, Agostinis P, Zvitogel L, Kroemer G, Galluzzi L (2017) Trial watch: Immunogenic cell death induction by anticancer chemotherapeutics. Oncoimmunol. e1386829. Link to paper here.

Hantusch A, Brunner T, Frickey T & Rehm M Bcl-2-Ome – A database and interactive web service for dissecting the Bcl-2 interactome. Cell Death Diff 24(1): 192. Link to paper here.

Hutt M, Marquardt L, Seifert O, Siegemund M, Müller I, Kulms D, Pfizenmaier K, Kontermann RE (2017) Superior properties of Fc-comprising scTRAIL fusion proteins. Mol Cancer Ther pii: molcanther.0551.2017. doi: 10.1158/1535-7163.MCT-17-0551. Link to paper here.

Lucarelli P, Müller I, Del Mistro G, De Landtsheer S, Meier F, Kontermann K, Rehm R, Sauter T & Kulms D (2017) Systembasierte Analyse von Wirkstoffresistenzen beim Melanom. Systembiologie in press.

Mathiassen SG, De Zio D, Cecconi F (2017) Autophagy and the Cell Cycle: A Complex Landscape. Frontiers Oncology 7, 51. Link to paper here.

Moran B, Silva R, Perry AS & Gallagher W Epigenetics of malignant melanoma. Semin Cancer Biol pii: S1044-579X(17)30130-X. Link to paper here.

Moran B, Rahman A, Palonen K, Lanigan FT & Gallagher W Master transcriptional regulators in cancer: discovery via reverse engineering approaches and subsequent validation. Cancer Res. 77(9):2186-2190. Link to paper here.

Nazio F, Carinci, M, Cecconi F (2017) ULK1 ubiquitylation is regulated by phosphorylation on its carboxy terminus. Cell Cycle 16(19): 1744-1747. Link to paper here.

Rufo N, Garg AD, Agostinis P The Unfolded Protein Response in Immunogenic Cell Death and Cancer Immunotherapy. Trends in Cancer DOI: 10.1016/j.trecan.2017.07.002. Link to paper here.

Vetma V, Rozanc J, Charles EM, Hellwig CT, Alexopoulos LG & Rehm M Examining the in vitro efficacy of the IAP antagonist Birinapant as a single-agent or in combination with dacarbazine to induce melanoma cell death. Oncology Research. Link to paper here.


Albrecht M, Sciume G, Lucarelli P & Sauter T Thermodynamically constrained averaging theory for cancer growth modeling. IFAC-PapersOnLine 49(26): 289-294. Link to paper here.

Bosisio FM, Wilmot JS, Volders N, Mercier M, Wouters J, Stas M, Blokx WA, Massi D, Thompson JF, Scolyer RA, van Baren N &  van den Oord JJ Plasma cells in primary melanoma. Prognostic significance and possible role of IgA. Mod Pathol 29 (4): 347-358. Link to paper here.

Garg AD, Romano E, Rufo N & Agostinis P Immunogenic versus tolerogenic phagocytosis during anticancer therapy: mechanisms and clinical translation. Cell Death Diff. 23: 938-951. Link to paper here.

Hellwig CT, Ludwig-Galezowska AH & Rehm M FRET-based measurement of apoptotic caspase activities by high-throughput screening flow citometry. In Apoptosis Methods in Toxicology, Humana Press/Srpinger. Link to book here.

Jacob SF, Wurstle ML, Delgado ME & Rehm M (2016) An analysis of the truncated Bid- and ROS-dependent spatial propagation of mitochondrial permeabilization waves during apoptosis. J Biol Chem 291 (9): 4603-4613. Link to paper here.

Nazio F, Carinci M, Valacca C, Bielli P, Strappazzon F, Antonioli M, Ciccosanti F, Rodolfo C, Campello S, Fimia GM, Sette C, Bonaldo P, Cecconi F (2016) Fine-tuning of ULK1 mRNA and protein levels is required for autophagy oscillation. J Cell Biol 215(6): 841-856. Link to paper here.

Niessner H, Schmitz J, Tabatabai G, Schmid Am, Calaminus C, Sinnberg T, Weide B, Eigentler T, Garbe C, Schittek B, Quintanilla-Fend L, Bender B, Mai M, Praetorius C, Beissert S, Schackert G, Muders Mh, Meinhardt M, Baretton G, Dummer R, Flaherty K, Pichler Bj, Kulms D, Westphal D & Meier F  PI3K pathway inhibition achieves potent antitumor activity in melanoma brain metastases in vitro and in vivo. Clin Cancer Res 22(23): 5818-5828. Link to paper here.

Weyhenmeyer BC, Noonan J, Wurstle ML, Lincoln FA, Johnston G, Rehm M & Murphy BM Predicting the cell death responsiveness and sensitization of glioma cells to TRAIL and temozolomide. Oncotarget DOI: 10.18632/oncotarget.10973. Link to paper here.


Garg AD, Galluzzi L, Apetoh L, Baert T, Birge RB, Bravo-San Pedro JM, Breckpot K, Brough D, Chaurio R, Cirone M, Coosemans A, Coulie PG, De Ruysscher D, Dini L, De Witte P, Dudek-Peric AM, Faggioni A, Fucikova J, Gaipl US, Golab J, Gougeon M-L, Hamblin MR, Hemminki A, Herrmann M, Hodge JW, Kepp O, Kroemer G, Krysko DV, Land WG, Madeo F, Manfredi AA, Mattarollo SR, Maueroder C, Merendino N, Multhoff G, Pabst T, Ricci J-E, Riganti C, Romano E, Rufo N, Smyth MJ, Sonnemann J, Spisek R, Stagg J, Vacchelli E, Vandenabeele P, Vandenberk L, van den Eynde BJ, van Gool S, Velotti F, Zitvogel L & Agostinis P Molecular and Translational Classifications of DAMPs in Immunogenic Cell Death. Frontiers Immunol. 6: 588. Link to paper here.

Geserick P; Wang J; Schilling R; Horn S; Harris PA; Bertin J; Gough PJ; Feoktistova M & Leverkus M. Absence of RIPK3 predicts necroptosis resistance in malignant melanoma. Cell Death Dis 6: e1884. Link to paper here.

Partners background publications:


Agur, Z.; Elishmereni, M. & Kheifetz, Y. Personalizing oncology treatments by predicting drug efficacy, side-effects, and improved therapy: mathematics, statistics, and their integration. Wiley Interdiscip Rev Syst Biol Med 6(3): 239-253.

Fitzgerald, J. B.; Johnson, B. W.; Baum, J.; Adams, S.; Iadevaia, S.; Tang, J.; Rimkunas, V.; Xu, L.; Kohli, N.; Rennard, R.; Razlog, M.; Jiao, Y.; Harms, B. D.; Olivier, K. J., Jr.; Schoeberl, B.; Nielsen, U. B. & Lugovskoy, A. A. MM-141, an IGF-IR- and ErbB3-directed bispecific antibody, overcomes network adaptations that limit activity of IGF-IR inhibitors. Mol Cancer Ther 13(2): 410-425.

Flaherty, K. T.; Hennig, M.; Lee, S. J.; Ascierto, P. A.; Dummer, R.; Eggermont, A. M.; Hauschild, A.; Kefford, R.; Kirkwood, J. M.; Long, G. V.; Lorigan, P.; Mackensen, A.; McArthur, G.; O’Day, S.; Patel, P. M.; Robert, C. & Schadendorf, D. Surrogate endpoints for overall survival in metastatic melanoma: a meta-analysis of randomised controlled trials. Lancet Oncol 15(3): 297-304.

Galhardo, M.; Sinkkonen, L.; Berninger, P.; Lin, J.; Sauter, T. & Heinaniemi, M. Integrated analysis of transcript-level regulation of metabolism reveals disease-relevant nodes of the human metabolic network. Nucleic Acid Res 42(3): 1474-1496.

Garg, A. D.; Martin, S.; Golab, J. & Agostinis, P. Danger signalling during cancer cell death: origins, plasticity and regulation. Cell Death Differ 21(1): 26-38.

 Konrath, F.; Witt, J.; Sauter, T. & Kulms, D. Identification of new IkappaBalpha complexes by an iterative experimental and mathematical modeling approach. PLoS Comput Biol 10(3): e1003528.

Sullivan, R. J. & Flaherty, K. T. Major therapeutic developments and current challenges in advanced melanoma. Br J Dermatol 170(1): 36-44.

Trairatphisan, P.; Mizera, A.; Pang, J.; Tantar, A. A. & Sauter, T. optPBN: an optimisation toolbox for probabilistic Boolean networks. PLoS One 9(7): e98001.

Vlassis, N.; Pacheco, M. P. & Sauter, T. Fast reconstruction of compact context-specific metabolic network models. PLoS Comput Biol 10(1): e1003424.

Wurstle, M. L.; Zink, E.; Prehn, J. H. & Rehm, M. From computational modelling of the intrinsic apoptosis pathway to a systems-based analysis of chemotherapy resistance: achievements, perspectives and challenges in systems medicine. Cell Death Dis 5: e1258.


Ascierto, P. A.; Schadendorf, D.; Berking, C.; Agarwala, S. S.; van Herpen, C. M.; Queirolo, P.; Blank, C. U.; Hauschild, A.; Beck, J. T.; St-Pierre, A.; Niazi, F.; Wandel, S.; Peters, M.; Zubel, A. & Dummer, R. MEK162 for patients with advanced melanoma harbouring NRAS or Val600 BRAF mutations: a non-randomised, open-label phase 2 study. Lancet Oncol 14(3): 249-256.

Baumuratova, T.; Dobre, S.; Bastogne, T. &  Sauter, T. Switch of sensitivity dynamics revealed with DyGloSA toolbox for dynamical global sensitivity analysis as an early warning for system’s critical transition. PLoS One 8(12): e82973.

Eisenberg, G.; Uzana, R.; Pato, A.; Frankenburg, S.; Merims, S.; Yefenof, E.; Ferrone, S.; Peretz, T.; Machlenkin, A. & Lotem, M. Imprinting of lymphocytes with melanoma antigens acquired by trogocytosis facilitates identification of tumor-reactive T cells J Immunol 190(11): 5856-5865.

Garg, A. D.; Dudek, A. M.; Ferreira, G. B.; Verfaillie, T.; Vandenabeele, P.; Krysko, D. V.; Mathieu, C. & Agostinis, P. ROS-induced autophagy in cancer cells assists in evasion from determinants of immunogenic cell death. Autophagy 9(9): 1292-1307.

Johannessen, C. M.; Johnson, L. A.; Piccioni, F.; Townes, A.; Frederick, D. T.; Donahue, M. K.; Narayan, R.; Flaherty, K. T.; Wargo, J. A.; Root, D. E. & Garraway, L. A. A melanocyte lineage program confers resistance to MAP kinase pathway inhibition. Nature 504(7478): 138-142.

Kogan, Y.; Agur, Z. & Elishmereni, M. A mathematical model for the immunotherapeutic control of the Th1/Th2 imbalance in melanoma. Discrete and Continuous Dynamics – Series B 18(4): 1017-1030.

Liu, H.; He, Z.; von Rutte, T.; Yousefi, S.; Hunger, R. E. & Simon, H. U. Down-regulation of autophagy-related protein 5 (ATG5) contributes to the pathogenesis of early-stage cutaneous melanoma. Sci Transl Med 5(202): 202ra123.

Maskey, D.; Yousefi, S.; Schmid, I.; Zlobec, I.; Perren, A.; Friis, R. & Simon, H. U. ATG5 is induced by DNA-damaging agents and promotes mitotic catastrophe independent of autophagy. Nat Commun 4: 2130.

Merlo, P. & Cecconi, F. XIAP: inhibitor of two worlds. EMBO J 32(16): 2187-2188.

Mitchem, J. B.; Brennan, D. J.; Knolhoff, B. L.; Belt, B. A.; Zhu, Y.; Sanford, D. E.; Belaygorod, L.; Carpenter, D.; Collins, L.; Piwnica-Worms, D.; Hewitt, S.; Udupi, G. M.; Gallagher, W. M.; Wegner, C.; West, B. L.; Wang-Gillam, A.; Goedegebuure, P.; Linehan, D. C. & DeNardo, D. G. Targeting tumor-infiltrating macrophages decreases tumor-initiating cells, relieves immunosuppression, and improves chemotherapeutic responses. Cancer Res 73(3): 1128-1141.

Morris, M. K.; Chi, A.; Melas, I. N. & Alexopoulos, L. G. Phosphoproteomics in drug discovery. Drug Discov Today 19(4): 425-432.

Nazio, F.; Strappazzon, F.; Antonioli, M.; Bielli, P.; Cianfanelli, V.; Bordi, M.; Gretzmeier, C.; Dengjel, J.; Piacentini, M.; Fimia, G. M. & Cecconi, F. mTOR inhibits autophagy by controlling ULK1 ubiquitylation, self-association and function through AMBRA1 and TRAF6. Nat Cell Biol 15(4): 406-416.

Panayotova-Dimitrova, D.; Feoktistova, M.; Ploesser, M.; Kellert, B.; Hupe, M.; Horn, S.; Makarov, R.; Jensen, F.; Porubsky, S.; Schmieder, A.; Zenclussen, A. C.; Marx, A.; Kerstan, A.; Geserick, P.; He, Y. W. & Leverkus, M. cFLIP regulates skin homeostasis and protects against TNF-induced keratinocyte apoptosis. Cell Rep 5(2): 397-408.

Passante, E.; Wurstle, M. L.; Hellwig, C. T.; Leverkus, M. & Rehm, M. Systems analysis of apoptosis protein expression allows the case-specific prediction of cell death responsiveness of melanoma cells. Cell Death Differ 20(11): 1521-1531.

Romano, D.; Maccario, H.; Doherty, C.; Quinn, N. P.; Kolch, W. & Matallanas, D. The differential effects of wild-type and mutated K-Ras on MST2 signaling are determined by K-Ras activation kinetics. Mol Cell Biol 33(9): 1859-1868.

Trairatphisan, P.; Mizera, A.; Pang, J.; Tantar, A. A.; Schneider, J. & Sauter, T. Recent development and biomedical applications of probabilistic Boolean networks. Cell Commun Signal 11: 46.

Vandamme, D.; Fitzmaurice, W.; Kholodenko, B. & Kolch, W. Systems medicine: helping us understand the complexity of disease. QJM 106(10): 891-895.

Vorsmann, H.; Groeber, F.; Walles, H.; Busch, S.; Beissert, S.; Walczak, H. & Kulms, D. Development of a human three-dimensional organotypic skin-melanoma spheroid model for in vitro drug testing. Cell Death Dis 4: e719.


Barretina, J.; Caponigro, G.; Stransky, N.; Venkatesan, K.; Margolin, A. A.; Kim, S.; Wilson, C. J.; Lehar, J.; Kryukov, G. V.; Sonkin, D.; Reddy, A.; Liu, M.; Murray, L.; Berger, M. F.; Monahan, J. E.; Morais, P.; Meltzer, J.; Korejwa, A.; Jane-Valbuena, J.; Mapa, F. A.; Thibault, J.; Bric-Furlong, E.; Raman, P.; Shipway, A.; Engels, I. H.; Cheng, J.; Yu, G. K.; Yu, J.; Aspesi, P., Jr.; de Silva, M.; Jagtap, K.; Jones, M. D.; Wang, L.; Hatton, C.; Palescandolo, E.; Gupta, S.; Mahan, S.; Sougnez, C.; Onofrio, R. C.; Liefeld, T.; MacConaill, L.; Winckler, W.; Reich, M.; Li, N.; Mesirov, J. P.; Gabriel, S. B.; Getz, G.; Ardlie, K.; Chan, V.; Myer, V. E.; Weber, B. L.; Porter, J.; Warmuth, M.; Finan, P.; Harris, J. L.; Meyerson, M.; Golub, T. R.; Morrissey, M. P.; Sellers, W. R.; Schlegel, R. & Garraway, L. A. The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature 483(7391): 603-607.

Flaherty, K. T.; Infante, J. R.; Daud, A.; Gonzalez, R.; Kefford, R. F.; Sosman, J.; Hamid, O.; Schuchter, L.; Cebon, J.; Ibrahim, N.; Kudchadkar, R.; Burris, H. A., 3rd; Falchook, G.; Algazi, A.; Lewis, K.; Long, G. V.; Puzanov, I.; Lebowitz, P.; Singh, A.; Little, S.; Sun, P.; Allred, A.; Ouellet, D.; Kim, K. B.; Patel, K. & Weber, J. Combined BRAF and MEK inhibition in melanoma with BRAF V600 mutations. N Engl J Med 367(18): 1694-1703.

Garg, A. D.; Krysko, D. V.; Verfaillie, T.; Kaczmarek, A.; Ferreira, G. B.; Marysael, T.; Rubio, N.; Firczuk, M.; Mathieu, C.; Roebroek, A. J.; Annaert, W.; Golab, J.; de Witte, P.; Vandenabeele, P. & Agostinis, P. A novel pathway combining calreticulin exposure and ATP secretion in immunogenic cancer cell death. EMBO J 31(5): 1062-1079.

Gomez de Aguero, M.; Vocanson, M.; Hacini-Rachinel, F.; Taillardet, M.; Sparwasser, T.; Kissenpfennig, A.; Malissen, B.; Kaiserlian, D. & Dubois, B. Langerhans cells protect from allergic contact dermatitis in mice by tolerizing CD8(+) T cells and activating Foxp3(+) regulatory T cells. J Clin Invest 122(5): 1700-1711.

Joyce, C. W.; Murphy, I. G.; Rafferty, M.; Ryan, D.; McDermott, E. W. & Gallagher, W. M. Tumor profiling using protein biomarker panels in malignant melanoma: application of tissue microarrays and beyond. Expert Rev Proteomics 9(4): 415-423.

Kogan, Y.; Halevi-Tobias, K.; Elishmereni, M.; Vuk-Pavlovic, S. & Agur, Z. Reconsidering the paradigm of cancer immunotherapy by computationally aided real-time personalization. Cancer Res 72(9): 2218-2227.

Kogan, Y.; Halevi-Tobias, K. E.; Hochman, G.; Baczmanska, A. K.; Leyns, L. & Agur, Z. A new validated mathematical model of the Wnt signalling pathway predicts effective combinational therapy by sFRP and Dkk. Biochem J 444(1): 115-125.

Krysko, D. V.; Garg, A. D.; Kaczmarek, A.; Krysko, O.; Agostinis, P. & Vandenabeele, P. Immunogenic cell death and DAMPs in cancer therapy. Nat Rev Cancer 12(12): 860-875.

Lazar, I.; Perlman, R.; Lotem, M.; Peretz, T.; Ben-Yehuda, D. & Kadouri, L. The clinical effect of the inhibitor of apopotosis protein livin in melanoma Oncology 82(4): 197-204.

McDonagh, C. F.; Huhalov, A.; Harms, B. D.; Adams, S.; Paragas, V.; Oyama, S.; Zhang, B.; Luus, L.; Overland, R.; Nguyen, S.; Gu, J.; Kohli, N.; Wallace, M.; Feldhaus, M. J.; Kudla, A. J.; Schoeberl, B. & Nielsen, U. B. Antitumor activity of a novel bispecific antibody that targets the ErbB2/ErbB3 oncogenic unit and inhibits heregulin-induced activation of ErbB3. Mol Cancer Ther 11(3): 582-593.

Melas, I. N.; Mitsos, A.; Messinis, D. E.; Weiss, T. S.; Rodriguez, J. S. & Alexopoulos, L. G. Construction of large signaling pathways using an adaptive perturbation approach with phosphoproteomic data. Mol Biosyst 8(5): 1571-1584.

Rodriguez, B.; Prioult, G.; Hacini-Rachinel, F.; Moine, D.; Bruttin, A.; Ngom-Bru, C.; Labellie, C.; Nicolis, I.; Berger, B.; Mercenier, A.; Butel, M.-J. & Waligora-Dupriet, A.-J. Infant gut microbiota is protective against cow’s milk allergy in mice despite immature ileal T-cell response FEMS Microbiol Ecol 79(1): 192-202.

Salemi, S.; Yousefi, S.; Constantinescu, M. A.; Fey, M. F. & Simon, H. U. Autophagy is required for self-renewal and differentiation of adult human stem cells. Cell Res 22(2): 432-435.

Santra, T.; Kholodenko, B. & Kolch, W. An integrated Bayesian framework for identifying phosphorylation networks in stimulated cells. Adv Exp Med Biol 736: 59-80.

Vainas, O.; Ariad, S.; Amir, O.; Mermershtain, W.; Vainstein, V.; Kleiman, M.; Inbar, O.; Ben-Av, R.; Mukherjee, A.; Chan, S. & Agur, Z. Personalising docetaxel and G-CSF schedules in cancer patients by a clinically validated computational model. Br J Cancer 107(5): 814-822.

Verfaillie, T.; Rubio, N.; Garg, A. D.; Bultynck, G.; Rizzuto, R.; Decuypere, J. P.; Piette, J.; Linehan, C.; Gupta, S.; Samali, A. & Agostinis, P. PERK is required at the ER-mitochondrial contact sites to convey apoptosis after ROS-based ER stress. Cell Death Differ 19(11): 1880-1891.

Witt, J.; Konrath, F.; Sawodny, O.; Ederer, M.; Kulms, D. & Sauter, T. Analysing the role of UVB-induced translational inhibition and PP2Ac deactivation in NF-kappaB signalling using a minimal mathematical model. PLoS One 7(7): e40274.


D’Amelio, M.; Cavallucci, V.; Middei, S.; Marchetti, C.; Pacioni, S.; Ferri, A.; Diamantini, A.; De Zio, D.; Carrara, P.; Battistini, L.; Moreno, S.; Bacci, A.; Ammassari-Teule, M.; Marie, H. & Cecconi, F. Caspase-3 triggers early synaptic dysfunction in a mouse model of Alzheimer’s disease. Nat Neurosci 14(1): 69-76.

Feoktistova, M.; Geserick, P.; Kellert, B.; Dimitrova, D. P.; Langlais, C.; Hupe, M.; Cain, K.; MacFarlane, M.; Hacker, G. & Leverkus, M.  cIAPs block Ripoptosome formation, a RIP1/caspase-8 containing intracellular cell death complex differentially regulated by cFLIP isoforms. Mol. Cell. 43(3): 449-463.

Ferraro, E.; Pesaresi, M. G.; De Zio, D.; Cencioni, M. T.; Gortat, A.; Cozzolino, M.; Berghella, L.; Salvatore, A. M.; Oettinghaus, B.; Scorrano, L.; Perez-Paya, E. & Cecconi, F. Apaf1 plays a pro-survival role by regulating centrosome morphology and function. J Cell Sci 124(pt20): 3450-3463.

Gremel, G.; Ryan, D.; Rafferty, M.; Lanigan, F.; Hegarty, S.; Lavelle, M.; Murphy, I.; Unwin, L.; Joyce, C.; Faller, W.; McDermott, E. W.; Sheahan, K.; Ponten, F. & Gallagher, W. M. Functional and prognostic relevance of the homeobox protein MSX2 in malignant melanoma. Br J Cancer 105(4): 565-574.

Hornle, M.; Peters, N.; Thayaparasingham, B.; Vorsmann, H.; Kashkar, H. & Kulms, D. Caspase-3 cleaves XIAP in a positive feedback loop to sensitize melanoma cells to TRAIL-induced apoptosis. Oncogene 30(5): 575-587

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