U900 – Bioinformatics, Biostatistics, Epidemiology and Computational Systems. Biology of Cancer

Teams in this computational unit study several aspects of the cancer pathology through observation of the underlying molecular and cellular mechanisms: initiation (etiology, through the modelling of gene and environment interaction), development and tumor progression (inferring and modelling the gene and protein networks involved, analysis of phenotypes through bioimaging), and improvement in therapeutic strategies (diagnosis, prognosis, design and analysis of clinical trials, identification of therapeutic targets, virtual selection of therapeutic molecules).

Research projects are conducted in close collaboration with biologists and clinicians and always involved a mix of experimental and theoretical approaches, in iterative cycles from the wet biology to the mathematical model and back, which ultimately lead to validated and thus predictive models. They take advantage of new high throughput biological technologies at both the molecular and cellular levels (spectrometry, microarrays, high-throughput cellular phenotyping, deep sequencing) and use state-of-the-art and innovative methods of data integration and systems biology, statistical analysis, high dimension statistical learning, study of complexity, network modeling, virtual screening and bioimaging.

 

Key publications

Year of publication 2021

Juliette Coignard, Michael Lush, Jonathan Beesley, Tracy A O'Mara, Joe Dennis, Jonathan P Tyrer, Daniel R Barnes, Lesley McGuffog, Goska Leslie, Manjeet K Bolla, Muriel A Adank, Simona Agata, Thomas Ahearn, Kristiina Aittomäki, Irene L Andrulis, Hoda Anton-Culver, Volker Arndt, Norbert Arnold, Kristan J Aronson, Banu K Arun, Annelie Augustinsson, Jacopo Azzollini, Daniel Barrowdale, Caroline Baynes, Heko Becher, Marina Bermisheva, Leslie Bernstein, Katarzyna Białkowska, Carl Blomqvist, Stig E Bojesen, Bernardo Bonanni, Ake Borg, Hiltrud Brauch, Hermann Brenner, Barbara Burwinkel, Saundra S Buys, Trinidad Caldés, Maria A Caligo, Daniele Campa, Brian D Carter, Jose E Castelao, Jenny Chang-Claude, Stephen J Chanock, Wendy K Chung, Kathleen B M Claes, Christine L Clarke, , , J Margriet Collée, Don M Conroy, Kamila Czene, Mary B Daly, Peter Devilee, Orland Diez, Yuan Chun Ding, Susan M Domchek, Thilo Dörk, Isabel Dos-Santos-Silva, Alison M Dunning, Miriam Dwek, Diana M Eccles, A Heather Eliassen, Christoph Engel, Mikael Eriksson, D Gareth Evans, Peter A Fasching, Henrik Flyger, Florentia Fostira, Eitan Friedman, Lin Fritschi, Debra Frost, Manuela Gago-Dominguez, Susan M Gapstur, Judy Garber, Vanesa Garcia-Barberan, Montserrat García-Closas, José A García-Sáenz, Mia M Gaudet, Simon A Gayther, Andrea Gehrig, Vassilios Georgoulias, Graham G Giles, Andrew K Godwin, Mark S Goldberg, David E Goldgar, Anna González-Neira, Mark H Greene, Pascal Guénel, Lothar Haeberle, Eric Hahnen, Christopher A Haiman, Niclas Håkansson, Per Hall, Ute Hamann, Patricia A Harrington, Steven N Hart, Wei He, Frans B L Hogervorst, Antoinette Hollestelle, John L Hopper, Darling J Horcasitas, Peter J Hulick, David J Hunter, Evgeny N Imyanitov, , , , Agnes Jager, Anna Jakubowska, Paul A James, Uffe Birk Jensen, Esther M John, Michael E Jones, Rudolf Kaaks, Pooja Middha Kapoor, Beth Y Karlan, Renske Keeman, Elza Khusnutdinova, Johanna I Kiiski, Yon-Dschun Ko, Veli-Matti Kosma, Peter Kraft, Allison W Kurian, Yael Laitman, Diether Lambrechts, Loic Le Marchand, Jenny Lester, Fabienne Lesueur, Tricia Lindstrom, Adria Lopez-Fernández, Jennifer T Loud, Craig Luccarini, Arto Mannermaa, Siranoush Manoukian, Sara Margolin, John W M Martens, Noura Mebirouk, Alfons Meindl, Austin Miller, Roger L Milne, Marco Montagna, Katherine L Nathanson, Susan L Neuhausen, Heli Nevanlinna, Finn C Nielsen, Katie M O'Brien, Olufunmilayo I Olopade, Janet E Olson, Håkan Olsson, Ana Osorio, Laura Ottini, Tjoung-Won Park-Simon, Michael T Parsons, Inge Sokilde Pedersen, Beth Peshkin, Paolo Peterlongo, Julian Peto, Paul D P Pharoah, Kelly-Anne Phillips, Eric C Polley, Bruce Poppe, Nadege Presneau, Miquel Angel Pujana, Kevin Punie, Paolo Radice, Johanna Rantala, Muhammad U Rashid, Gad Rennert, Hedy S Rennert, Mark Robson, Atocha Romero, Maria Rossing, Emmanouil Saloustros, Dale P Sandler, Regina Santella, Maren T Scheuner, Marjanka K Schmidt, Gunnar Schmidt, Christopher Scott, Priyanka Sharma, Penny Soucy, Melissa C Southey, John J Spinelli, Zoe Steinsnyder, Jennifer Stone, Dominique Stoppa-Lyonnet, Anthony Swerdlow, Rulla M Tamimi, William J Tapper, Jack A Taylor, Mary Beth Terry, Alex Teulé, Darcy L Thull, Marc Tischkowitz, Amanda E Toland, Diana Torres, Alison H Trainer, Thérèse Truong, Nadine Tung, Celine M Vachon, Ana Vega, Joseph Vijai, Qin Wang, Barbara Wappenschmidt, Clarice R Weinberg, Jeffrey N Weitzel, Camilla Wendt, Alicja Wolk, Siddhartha Yadav, Xiaohong R Yang, Drakoulis Yannoukakos, Wei Zheng, Argyrios Ziogas, Kristin K Zorn, Sue K Park, Mads Thomassen, Kenneth Offit, Rita K Schmutzler, Fergus J Couch, Jacques Simard, Georgia Chenevix-Trench, Douglas F Easton, Nadine Andrieu, Antonis C Antoniou (2021 Feb 18)

A case-only study to identify genetic modifiers of breast cancer risk for BRCA1/BRCA2 mutation carriers.

Nature communications : 1078 : DOI : 10.1038/s41467-020-20496-3
Thérèse Truong, Fabienne Lesueur, Pierre-Emmanuel Sugier, Julie Guibon, Constance Xhaard, Mojgan Karimi, Om Kulkarni, Elise A Lucotte, Delphine Bacq-Daian, Anne Boland-Auge, Claire Mulot, Pierre Laurent-Puig, Claire Schvartz, Anne-Valérie Guizard, Yan Ren, Elisabeth Adjadj, Frédérique Rachédi, Francoise Borson-Chazot, Rosa Maria Ortiz, Juan J Lence-Anta, Celia María Pereda, Daniel F Comiskey, Huiling He, Sandya Liyanarachchi, Albert de la Chapelle, Rossella Elisei, Federica Gemignani, Hauke Thomsen, Asta Forsti, Anthony F Herzig, Anne-Louise Leutenegger, Carole Rubino, Evgenia Ostroumova, Ausrele Kesminiene, Marie-Christine Boutron-Ruault, Jean-François Deleuze, Pascal Guénel, Florent de Vathaire (2021 Feb 2)

Multiethnic genome-wide association study of differentiated thyroid cancer in the EPITHYR consortium.

International journal of cancer : DOI : 10.1002/ijc.33488
Lieske H Schrijver, Antonis C Antoniou, Håkan Olsson, Thea M Mooij, Marie-José Roos-Blom, Leyla Azarang, Julian Adlard, Munaza Ahmed, Daniel Barrowdale, Rosemarie Davidson, Alan Donaldson, Ros Eeles, D Gareth Evans, Debra Frost, Alex Henderson, Louise Izatt, Kai-Ren Ong, Valérie Bonadona, Isabelle Coupier, Laurence Faivre, Jean-Pierre Fricker, Paul Gesta, Klaartje van Engelen, Agnes Jager, Fred H Menko, Marian J E Mourits, Christian F Singer, Yen Y Tan, Lenka Foretova, Marie Navratilova, Rita K Schmutzler, Carolina Ellberg, Anne-Marie Gerdes, Trinidad Caldes, Jacques Simard, Edith Olah, Anna Jakubowska, Johanna Rantala, Ana Osorio, John L Hopper, Kelly-Anne Phillips, Roger L Milne, Mary Beth Terry, Catherine Noguès, Christoph Engel, Karin Kast, David E Goldgar, Flora E van Leeuwen, Douglas F Easton, Nadine Andrieu, Matti A Rookus, (2021 Jan 25)

Oral contraceptive use and ovarian cancer risk for BRCA1/2 mutation carriers: an international cohort study.

American journal of obstetrics and gynecology : DOI : S0002-9378(21)00038-7
Pavel Mozgunov, Xavier Paoletti, Thomas Jaki (2021 Jan 7)

A benchmark for dose-finding studies with unknown ordering.

Biostatistics (Oxford, England) : DOI : kxaa054

Year of publication 2020

Christine Lonjou, Séverine Eon-Marchais, Thérèse Truong, Marie-Gabrielle Dondon, Mojgan Karimi, Yue Jiao, Francesca Damiola, Laure Barjhoux, Dorothée Le Gal, Juana Beauvallet, Noura Mebirouk, Eve Cavaciuti, Jean Chiesa, Anne Floquet, Séverine Audebert-Bellanger, Sophie Giraud, Thierry Frebourg, Jean-Marc Limacher, Laurence Gladieff, Isabelle Mortemousque, Hélène Dreyfus, Sophie Lejeune-Dumoulin, Christine Lasset, Laurence Venat-Bouvet, Yves-Jean Bignon, Pascal Pujol, Christine M Maugard, Elisabeth Luporsi, Valérie Bonadona, Catherine Noguès, Pascaline Berthet, Capucine Delnatte, Paul Gesta, Alain Lortholary, Laurence Faivre, Bruno Buecher, Olivier Caron, Marion Gauthier-Villars, Isabelle Coupier, Sylvie Mazoyer, Luis-Cristobal Monraz, Maria Kondratova, Inna Kuperstein, Pascal Guénel, Emmanuel Barillot, Dominique Stoppa-Lyonnet, Nadine Andrieu, Fabienne Lesueur (2020 Dec 28)

Gene- and pathway-level analyses of iCOGS variants highlight novel signaling pathways underlying familial breast cancer susceptibility.

International journal of cancer : 1895-1909 : DOI : 10.1002/ijc.33457
Ombretta Melaiu, Angelica Macauda, Juan Sainz, Diego Calvetti, Maria Sole Facioni, Giuseppe Maccari, Rob Ter Horst, Mihai G Netea, Yang Li, Norbert Grząśko, Victor Moreno, Artur Jurczyszyn, Andrés Jerez, Marzena Watek, Judit Varkonyi, Ramon Garcia-Sanz, Marcin Kruszewski, Marek Dudziński, Katalin Kadar, Svend Erik Hove Jacobsen, Grzegorz Mazur, Vibeke Andersen, Malwina Rybicka, Daria Zawirska, Malgorzata Raźny, Jan Maciej Zaucha, Olga Ostrovsky, Elzbieta Iskierka-Jazdzewska, Rui Manuel Reis, Anna Stępień, Katia Beider, Arnon Nagler, Agnieszka Druzd-Sitek, Herlander Marques, Joaquin Martìnez-Lopez, Fabienne Lesueur, Hervé Avet-Loiseau, Annette Juul Vangsted, Malgorzata Krawczyk-Kulis, Aleksandra Butrym, Krzysztof Jamroziak, Charles Dumontet, Ulla Vogel, Marcin Rymko, Matteo Pelosini, Edyta Subocz, Gergely Szombath, Maria Eugenia Sarasquete, Roberto Silvestri, Federica Morani, Stefano Landi, Daniele Campa, Federico Canzian, Federica Gemignani (2020 Nov 5)

Common gene variants within 3′-untranslated regions as modulators of multiple myeloma risk and survival.

International journal of cancer : 1887-1894 : DOI : 10.1002/ijc.33377