Blampey Q, Mulder K, Gardet M, Christodoulidis S, Dutertre CA, André F, Ginhoux F, Cournède PH.
Sopa: a technology-invariant pipeline for analyses of image-based spatial omics.
Nat Commun. 2024 Jun 11;15(1):4981. doi: 10.1038/s41467-024-48981-z.
André F, Rassy E, Marabelle A, Michiels S, Besse B.
Forget lung, breast or prostate cancer: why tumour naming needs to change.
Nature. 2024 Feb;626(7997):26-29. doi: 10.1038/d41586-024-00216-3. PMID: 38347121.
Bottosso M, Mosele F, Michiels S, Cournède PH, Dogan S, Labaki C, André F.
Moving toward precision medicine to predict drug sensitivity in patients with metastatic breast cancer.
ESMO Open. 2024 Feb 23;9(3):102247. doi: 10.1016/j.esmoop.2024.102247. Epub ahead of print. PMID: 38401248.

Ribeiro JM, Dixon-Douglas J, André F.
Moving to ultra-short therapy to cure patients with cancer: a solution for sustainable cancer care.
ESMO Open. 2024 Feb;9(2):102238. doi: 10.1016/j.esmoop.2024.102238. Epub 2024 Feb 12. PMID: 38350339; PMCID: PMC10875333.


Dogan S, Cournède PH, Solary E, Heard JM, Aldea M, Conroy T, Robert C, André F.
Moving toward Precision Oncology Centers V2.0
Ann Oncol. 2023 Oct 5:S0923-7534(23)04013-9.

Menssouri N, Poiraudeau L, Helissey C, Bigot L, Sabio J, Ibrahim T, Pobel C, Nicotra C, Ngo-Camus M, Lacroix L, Rouleau E, Tselikas L, Chauchereau A, Blanc-Durand F, Bernard-Tessier A, Patrikidou A, Naoun N, Flippot R, Colomba E, Fuerea A, Albiges L, Lavaud P, van de Wiel P, den Biezen E, Wesseling-Rozendaal Y, Ponce S, Michiels S, Massard C, Gautheret D, Barlesi F, André F, Besse B, Scoazec JY, Friboulet L, Fizazi K, Loriot Y.
Genomic Profiling of Metastatic Castration-Resistant Prostate Cancer Samples Resistant to Androgen Receptor Pathway Inhibitors
Clin Cancer Res. 2023 Nov 1;29(21):4504-4517. doi: 10.1158/1078-0432.CCR-22-3736.

Morganti S, Marra A, Gandini S, Ascione L, Ivanova M, Venetis K, Sajjadi E, Zagami P, Giugliano F, Taurelli Salimbeni B, Berton Giachetti PPM, Corti C, De Camilli E, Curigliano G, Fusco N, Criscitiello
Clinicopathological features and survival outcomes of luminal-like breast tumors with estrogen receptor loss at metastatic recurrence: A case-control study.

 C.Eur J Cancer. 2023 Oct 23;195:113397. doi: 10.1016/j.ejca.2023.113397. Online ahead of print.
Blampey Q, Bercovici N, Dutertre CA, Pic I, Ribeiro JM, André F, Cournède PH.
A biology-driven deep generative model for cell-type annotation in cytometry

Brief Bioinform. 2023 Sep 20;24(5):bbad260. doi: 10.1093/bib/bbad260. PMID: 37497716.

Aldea M, Friboulet L, Apcher S, Jaulin F, Mosele F, Sourisseau T, Soria JC, Nikolaev S, André F.
Precision medicine in the era of multi-omics: can the data tsunami guide rational treatment decision?
ESMO Open. 2023 Sep 26;8(5):101642.

Rosenquist R, Bernard E, Erkers T, Scott DW, Itzykson R, Rousselot P, Soulier J, Hutchings M, Östling P, Cavelier L, Fioretos T, Smedby KE.
Novel precision medicine approaches and treatment strategies in hematological malignanciesESMO expert consensus statements (ECS) on the definition, diagnosis, and management of HER2-low breast cancer
J Intern Med. 2023 Oct;294(4):413-436.

Mosele F, Deluche E, Lusque A, Le Bescond L, Filleron T, Pradat Y, Ducoulombier A, Pistilli B, Bachelot T, Viret F, Levy C, Signolle N, Alfaro A, Tran DTN, Garberis IJ, Talbot H, Christodoulidis S, Vakalopoulou M, Droin N, Stourm A, Kobayashi M, Kakegawa T, Lacroix L, Saulnier P, Job B, Deloger M, Jimenez M, Mahier C, Baris V, Laplante P, Kannouche P, Marty V, Lacroix-Triki M, Diéras V, André F.
Trastuzumab deruxtecan in metastatic breast cancer with variable HER2 expression: the phase 2 DAISY trial
Nat Med. 2023 Aug;29(8):2110-2120. doi: 10.1038/s41591-023-02478-2. Epub 2023 Jul 24.

Tarantino P, Viale G, Press MF, Hu X, Penault-Llorca F, Bardia A, Batistatou A, Burstein HJ, Carey LA, Cortes J, Denkert C, Diéras V, Jacot W, Koutras AK, Lebeau A, Loibl S, Modi S, Mosele MF, Provenzano E, Pruneri G, Reis-Filho JS, Rojo F, Salgado R, Schmid P, Schnitt SJ, Tolaney SM, Trapani D, Vincent-Salomon A, Wolff AC, Pentheroudakis G, André F, Curigliano G.
ESMO expert consensus statements (ECS) on the definition, diagnosis, and management of HER2-low breast cancer
Ann Oncol. 2023 Aug;34(8):645-659.

Benkirane, Hakim; Pradat, Yoann; Michiels, Stefan; Cournède Paul-Henry.
CustOmics: A versatile deep-learning based strategy for multi-omics integration.
PLoS Comput Biol
Available online 2023 Mar 6


The availability of patient cohorts with several types of omics data opens new perspectives for exploring the disease’s underlying biological processes and developing predictive models. It also comes with new challenges in computational biology in terms of integrating high-dimensional and heterogeneous data in a fashion that captures the interrelationships between multiple genes and their functions. Deep learning methods offer promising perspectives for integrating multi-omics data. In this paper, we review the existing integration strategies based on autoencoders and propose a new customizable one whose principle relies on a two-phase approach. In the first phase, we adapt the training to each data source independently before learning cross-modality interactions in the second phase. By taking into account each source’s singularity, we show that this approach succeeds at taking advantage of all the sources more efficiently than other strategies. Moreover, by adapting our architecture to the computation of Shapley additive explanations, our model can provide interpretable results in a multi-source setting. Using multiple omics sources from different TCGA cohorts, we demonstrate the performance of the proposed method for cancer on test cases for several tasks, such as the classification of tumor types and breast cancer subtypes, as well as survival outcome prediction. We show through our experiments the great performances of our architecture on seven different datasets with various sizes and provide some interpretations of the results obtained. Our code is available on (

Pradat, Yoann; Viot, Julien; Gunbin, Konstantin; Yurchenko, Andrey; Cerbone, Luigi; Deloger, Marc; Grisay, Guillaume; Verlingue, Loic; Scott, Véronique; Padioleau, Ismael; Panunzi, Leonardo; Michiels, Stefan; Hollebecque, Antoine; Jules-Clément, Gér^ome; Mezquita, Laura; Lainé, Antoine; Loriot, Yohann; Besse, Benjamin; Friboulet, Luc; André, Fabrice; Cournède, Paul-Henry; Gautheret, Daniel; Nikolaev, Sergey
Integrative pan-cancer genomic and transcriptomic analyses of refractory metastatic cancer 
Cancer Discov.
Available  online 2023 Mar 2


Metastatic relapse after treatment is the leading cause of cancer mortality, and known resistance mechanisms are missing for most treatments administered to patients. To bridge this gap, we analyze a pan-cancer cohort (META-PRISM) of 1,031 refractory metastatic tumors profiled via whole-exome and transcriptome sequencing. META-PRISM tumors, particularly prostate, bladder, and pancreatic types, displayed the most transformed genomes compared to primary untreated tumors. Standard-of-care resistance biomarkers were identified only in lung and colon cancers – 9.6% of META-PRISM tumors, indicating that too few resistance mechanisms have received clinical validation. In contrast, we verified the enrichment of multiple investigational and hypothetical resistance mechanisms in treated compared to non-treated patients, thereby confirming their putative role in treatment resistance. Additionally, we demonstrated that molecular markers improve six-month survival prediction, particularly in patients with advanced breast cancer. Our analysis establishes the utility of META-PRISM cohort for investigating resistance mechanisms and performing predictive analyses in cancer.

A. Bayle, L. Belcaid, M. Aldea, D. Vasseur, F. Peyraud, C. Nicotra, A. Geraud, M. Sakkal, L. Seknazi, L. Cerbone, F. Blanc-Durand, J. Hadoux, F. Mosele, M. Tagliamento, A. Bernard-Tessier, B. Verret, C. Smolenschi, R. Clodion, N. Auger, P. Martin Romano, A. Gazzah, M. Ngo Camus, J. Micol, O. Caron, A. Hollebecque, Y. Loriot, B. Besse, L. Lacroix, E. Rouleau, S. Ponce, J.C. Soria, F. Barlesi, F. Andre, A. Italiano,
Clinical utility of circulating tumor DNA sequencing with a large panel: a National Center for Precision Medicine (PRISM) study
Annals of Oncology
Available online 25 January 2023

Guido Kroemer, Jennifer L. McQuade, Miriam Merad, Fabrice André, Laurence Zitvogel
Bodywide ecological interventions on cancer
Nat Med 29, 59–74 (2023).



Doffe F, Bonini F, Lakis E, Terry S, Chouaib S, Savagner P.
Cancers (Basel). 2022 Jul 22;14(15):3559. doi: 10.3390/cancers14153559. PMID: 35892818; PMCID: PMC9330027.
Anne-Gaëlle Goubet; Leonardo Lordello; Carolina Alves Costa Silva; Isabelle Peguillet; Marianne Gazzano; Maxime Descartes Mbogning-Fonkou; Cassandra Thelemaque; Cédric Lebacle; Constance Thibault; François Audenet; Géraldine Pignot; Gwenaelle Gravis; Carole Helissey; Luca Campedel; Morgan Roupret; Evanguelos Xylinas; Idir Ouzaid; Agathe Dubuisson; Marine Mazzenga; Caroline Flament; Pierre Ly; Virginie Marty; Nicolas Signolle; Allan Sauvat; Thomas Sbarrato; Mounia Filahi; Caroline Davin; Gabriel Haddad; Jacques Bou Khalil; Camille Bleriot; François-Xavier Danlos; Garett Dunsmore; Kevin Mulder; Aymeric Silvin; Thibault Raoult; Baptiste Archambaud; Shaima Belhechmi; Ivo Gomperts Boneca; Nadège Cayet; Maryse Moya-Nilges; Adeline Mallet; Romain Daillere; Etienne Rouleau; Camelia Radulescu; Yves Allory; Jacques Fieschi; Mathieu Rouanne; Florent Ginhoux; Gwénaël Le Teuff; Lisa Derosa; Aurélien Marabelle; Jeroen Van Dorp; Nick Van Dijk; Michiel S. Van Der Heijden; Benjamin Besse; Fabrice Andre; Miriam Merad; Guido Kroemer; Jean-Yves Scoazec; Laurence Zitvogel; Yohann Loriot.
Escherichia coli-Specific CXCL13-Producing TFH Are Associated with Clinical
Efficacy of Neoadjuvant PD-1 Blockade against Muscle-Invasive Bladder Cancer.
Cancer discovery, 2022 Oct 5;12(10):2280-2307.
Andre, Fabrice; Filleron, Thomas; Kamal, Maud; Mosele, Fernanda; Arnedos, Monica; Dalenc, Florence; Sablin, Marie-Paule; Campone, Mario; Bonnefoi, Hervé; Lefeuvre-Plesse, Claudia; Jacot, William; Coussy, Florence; Ferrero, Jean-Marc; Emile, George; Mouret-Reynier, Marie-Ange; Thery, Jean-Christophe; Isambert, Nicolas; Mege, Alice; Barthelemy, Philippe; You, Benoit; Hajjaji, Nawale; Lacroix, Ludovic; Rouleau, Etienne; Tran-Dien, Alicia; Boyault, Sandrine; Attignon, Valery; Gestraud, Pierre; Servant, Nicolas; Tourneau, Christophe Le; Cherif, Linda Larbi; Soubeyran, Isabelle; Montemurro, Filippo; Morel, Alain; Lusque, Amelie; Jimenez, Marta; Jacquet, Alexandra; Gonçalves, Anthony; Bachelot, Thomas; Bieche, Ivan
Genomics to select treatment for patients with metastatic breast cancer 
Nature, 2022, ISSN: 1476-4687.
Hermange, Gurvan; Rakotonirainy, Alicia; Bentriou, Mahmoud; Tisserand, Amandine; El-Khoury, Mira; Girodon, François; Marzac, Christophe; Vainchenker, William; Plo, Isabelle; Cournède, Paul-Henry
Inferring the initiation and development of myeloproliferative neoplasms 
Proc Natl Acad Sci U S A, vol. 119, no. 37, p. e2120374119, 2022, ISSN: 1091-6490.
Bayle, A; Peyraud, F; Belcaid, L; Brunet, M; Aldea, M; Clodion, R; Dubos, P; Vasseur, D; Nicotra, C; Geraud, A; Sakkal, M; Cerbone, L; Blanc-Durand, F; Mosele, F; Romano, P Martin; Camus, M Ngo; Soubeyran, I; Khalifa, E; Alame, M; Blouin, L; Dinart, D; Bellera, C; Hollebecque, A; Ponce, S; Loriot, Y; Besse, B; Lacroix, Ludovic; Rouleau, E; Barlesi, F; Andre, F; Italiano, A
Liquid versus tissue biopsy for detecting actionable alterations according to ESCAT in patients with advanced cancer: A study from the French National Center for Precision Medicine (PRISM)
Annals of Oncology. Volume 33, Issue 12, December 2022, Pages 1328-1331
Le Bescond, Loic; Lerousseau, Marvin; Garberis, Ingrid; André, Fabrice; Christodoulidis, Stergios; Vakalopoulou, Maria; Talbot, Hugues
Unsupervised Nuclei Segmentation using Spatial Organization Priors Inproceedings
MICCAI 2022 – 25th International Conference on Medical Image Computing and Computer Assisted Intervention, Singapore, Singapore, 2022.
Trapani, D; Franzoi, M A; Burstein, H J; Carey, L A; Delaloge, S; Harbeck, N; Hayes, D F; Kalinsky, K; Pusztai, L; Regan, M M; Sestak, I; Spanic, T; Sparano, J; Jezdic, S; Cherny, N; Curigliano, G; Andre, F
Risk-adapted modulation through de-intensification of cancer treatments: an ESMO classification 
Ann Oncol, vol. 33, no. 7, p. 702–712, 2022, ISSN: 1569-8041.
John, Ashley L St; Rathore, Abhay P S; Ginhoux, Florent
New perspectives on the origins and heterogeneity of mast cells
Nat Rev Immunol, 2022, ISSN: 1474-1741.
Mateo, Joaquin; Steuten, Lotte; Aftimos, Philippe; André, Fabrice; Davies, Mark; Garralda, Elena; Geissler, Jan; Husereau, Don; Martinez-Lopez, Iciar; Normanno, Nicola; Reis-Filho, Jorge S; Stefani, Stephen; Thomas, David M; Westphalen, C Benedikt; Voest, Emile
Delivering precision oncology to patients with cancer
Nat Med, vol. 28, no. 4, p. 658–665, 2022, ISSN: 1546-170X.
Meglio, Antonio Di; Havas, Julie; Soldato, Davide; Presti, Daniele; Martin, Elise; Pistilli, Barbara; Menvielle, Gwenn; Dumas, Agnes; Charles, Cecile; Everhard, Sibille; Martin, Anne-Laure; Coutant, Charles; Tarpin, Carole; Vanlemmens, Laurence; Levy, Christelle; Rigal, Olivier; Delaloge, Suzette; Lin, Nancy U; Ganz, Patricia A; Partridge, Ann H; André, Fabrice; Michiels, Stefan; Vaz-Luis, Ines
Development and Validation of a Predictive Model of Severe Fatigue After Breast Cancer Diagnosis: Toward a Personalized Framework in Survivorship Care
J Clin Oncol, vol. 40, no. 10, p. 1111–1123, 2022, ISSN: 1527-7755.
Meglio, Antonio Di; Havas, Julie; Gbenou, Arnauld S; Martin, Elise; El-Mouhebb, Mayssam; Pistilli, Barbara; Menvielle, Gwenn; Dumas, Agnes; Everhard, Sibille; Martin, Anne-Laure; Cottu, Paul H; Lerebours, Florence; Coutant, Charles; Lesur, Anne; Tredan, Olivier; Soulie, Patrick; Vanlemmens, Laurence; Joly, Florence; Delaloge, Suzette; Ganz, Patricia A; André, Fabrice; Partridge, Ann H; Jones, Lee W; Michiels, Stefan; Vaz-Luis, Ines
Dynamics of Long-Term Patient-Reported Quality of Life and Health Behaviors After Adjuvant Breast Cancer Chemotherapy 
J Clin Oncol, p. JCO2100277, 2022, ISSN: 1527-7755.
Vaz-Luis, Ines; Meglio, Antonio Di; Havas, Julie; El-Mouhebb, Mayssam; Lapidari, Pietro; Presti, Daniele; Soldato, Davide; Pistilli, Barbara; Dumas, Agnes; Menvielle, Gwenn; Charles, Cecile; Everhard, Sibille; Martin, Anne-Laure; Cottu, Paul H; Lerebours, Florence; Coutant, Charles; Dauchy, Sarah; Delaloge, Suzette; Lin, Nancy U; Ganz, Patricia A; Partridge, Ann H; André, Fabrice; Michiels, Stefan
Long-Term Longitudinal Patterns of Patient-Reported Fatigue After Breast Cancer: A Group-Based Trajectory Analysis 
J Clin Oncol, p. JCO2101958, 2022, ISSN: 1527-7755.
Middleton, G; Robbins, H; Andre, F; Swanton, C
A state-of-the-art review of stratified medicine in cancer: towards a future precision medicine strategy in cancer 
Ann Oncol, vol. 33, no. 2, p. 143–157, 2022, ISSN: 1569-8041.
Chakravarty, Debyani; Johnson, Amber; Sklar, Jeffrey; Lindeman, Neal I; Moore, Kathleen; Ganesan, Shridar; Lovly, Christine M; Perlmutter, Jane; Gray, Stacy W; Hwang, Jimmy; Lieu, Christopher; André, Fabrice; Azad, Nilofer; Borad, Mitesh; Tafe, Laura; Messersmith, Hans; Robson, Mark; Meric-Bernstam, Funda
Somatic Genomic Testing in Patients With Metastatic or Advanced Cancer: ASCO Provisional Clinical Opinion
J Clin Oncol, vol. 40, no. 11, p. 1231–1258, 2022, ISSN: 1527-7755.
Chen, J; Facchinetti, F; Braye, F; Yurchenko, A A; Bigot, L; Ponce, S; Planchard, D; Gazzah, A; Nikolaev, S; Michiels, S; Vasseur, D; Lacroix, L; Tselikas, L; Nobre, C; Olaussen, K A; Andre, F; Scoazec, J Y; Barlesi, F; Soria, J C; Loriot, Y; Besse, B; Friboulet, L
Single-cell DNA-seq depicts clonal evolution of multiple driver alterations in osimertinib-resistant patients 
Ann Oncol, vol. 33, no. 4, p. 434–444, 2022, ISSN: 1569-8041.
Zhang, Jingwei; Zhang, Xin; Ma, Ke; Gupta, Rajarsi; Saltz, Joel; Vakalopoulou, Maria; Samaras, Dimitris
Gigapixel Whole-Slide Images Classification Using Locally Supervised Learning
Medical Image Computing and Computer Assisted Intervention — MICCAI 2022, p. 192–201, Springer Nature Switzerland, Cham, 2022, ISBN: 978-3-031-16434-7.
Scalbert, Marin; Vakalopoulou, Maria; Couzinié-Devy, Florent
Test-Time Image-to-Image Translation Ensembling Improves Out-of-Distribution Generalization in Histopathology
Medical Image Computing and Computer Assisted Intervention — MICCAI 2022, p. 120–129, Springer Nature Switzerland, Cham, 2022, ISBN: 978-3-031-16434-7.
Derosa, Lisa; Routy, Bertrand; Thomas, Andrew Maltez; Iebba, Valerio; Zalcman, Gerard; Friard, Sylvie; Mazieres, Julien; Audigier-Valette, Clarisse; Moro-Sibilot, Denis; Goldwasser, François; Silva, Carolina Alves Costa; Terrisse, Safae; Bonvalet, Melodie; Scherpereel, Arnaud; Pegliasco, Hervé; Richard, Corentin; Ghiringhelli, François; Elkrief, Arielle; Desilets, Antoine; Blanc-Durand, Felix; Cumbo, Fabio; Blanco, Aitor; Boidot, Romain; Chevrier, Sandy; Daillère, Romain; Kroemer, Guido; Alla, Laurie; Pons, Nicolas; Chatelier, Emmanuelle Le; Galleron, Nathalie; Roume, Hugo; Dubuisson, Agathe; Bouchard, Nicole; Messaoudene, Meriem; Drubay, Damien; Deutsch, Eric; Barlesi, Fabrice; Planchard, David; Segata, Nicola; Martinez, Stéphanie; Zitvogel, Laurence; Soria, Jean-Charles; Besse, Benjamin
Intestinal Akkermansia muciniphila predicts clinical response to PD-1 blockade in patients with advanced non-small-cell lung cancer 
Nat Med, vol. 28, no. 2, p. 315–324, 2022, ISSN: 1546-170X.


Lerousseau, Marvin; Vakalopoulou, Maria; Deutsch, Eric; Paragios, Nikos
SparseConvMIL: Sparse Convolutional Context-Aware Multiple Instance Learning for Whole Slide Image Classification
Proceedings of the MICCAI Workshop on Computational Pathology, p. 129–139, PMLR, 2021.
Chassagnon, Guillaume; Vakalopoulou, Maria; Battistella, Enzo; Christodoulidis, Stergios; Hoang-Thi, Trieu-Nghi; Dangeard, Severine; Deutsch, Eric; Andre, Fabrice; Guillo, Enora; Halm, Nara; Hajj, Stefany El; Bompard, Florian; Neveu, Sophie; Hani, Chahinez; Saab, Ines; Campredon, Aliénor; Koulakian, Hasmik; Bennani, Souhail; Freche, Gael; Barat, Maxime; Lombard, Aurelien; Fournier, Laure; Monnier, Hippolyte; Grand, Téodor; Gregory, Jules; Nguyen, Yann; Khalil, Antoine; Mahdjoub, Elyas; Brillet, Pierre-Yves; Ba, Stéphane Tran; Bousson, Valérie; Mekki, Ahmed; Carlier, Robert-Yves; Revel, Marie-Pierre; Paragios, Nikos
AI-driven quantification, staging and outcome prediction of COVID-19 pneumonia 
Medical Image Analysis, vol. 67, p. 101860, 2021.
Mosca, Matthieu; Hermange, Gurvan; Tisserand, Amandine; Noble, Robert John; Marzac, Christophe; Marty, Caroline; Sueur, Cécile Le; Campario, Hugo; Vertenoeil, Gaëlle; El-Khoury, Mira; Catelain, Cyril; Rameau, Philippe; Gella, Cyril; Lenglet, Julien; Casadevall, Nicole; Favier, Remi; Solary, Eric; Cassinat, Bruno; Kiladjian, Jean-Jacques; Constantinescu, Stefan N; Pasquier, Florence; Hochberg, Michael E; Raslova, Hana; Villeval, Jean-Luc J -L; Girodon, François; Vainchenker, William; Cournède, Paul-Henry; Plo, Isabelle
Inferring the dynamic of mutated hematopoietic stem and progenitor cells induced by IFNα in myeloproliferative neoplasms 
Blood, 2021, ISSN: 0006-4971.
Aldea, Mihaela; Andre, Fabrice; Marabelle, Aurelien; Dogan, Semih; Barlesi, Fabrice; Soria, Jean-Charles
Overcoming Resistance to Tumor-Targeted and Immune-Targeted Therapies 
Cancer Discov, vol. 11, no. 4, p. 874–899, 2021, ISSN: 2159-8290.
Kuksin, Maria; Morel, Daphné; Aglave, Marine; Danlos, François-Xavier; Marabelle, Aurélien; Zinovyev, Andrei; Gautheret, Daniel; Verlingue, Loïc
Applications of single-cell and bulk RNA sequencing in onco-immunology
Eur J Cancer, vol. 149, p. 193–210, 2021, ISSN: 1879-0852.
Terrisse, Safae; Derosa, Lisa; Iebba, Valerio; Ghiringhelli, François; Vaz-Luis, Ines; Kroemer, Guido; Fidelle, Marine; Christodoulidis, Stergios; Segata, Nicola; Thomas, Andrew Maltez; Martin, Anne-Laure; Sirven, Aude; Everhard, Sibille; Aprahamian, Fanny; Nirmalathasan, Nitharsshini; Aarnoutse, Romy; Smidt, Marjolein; Ziemons, Janine; Caldas, Carlos; Loibl, Sibylle; Denkert, Carsten; Durand, Sylvere; Iglesias, Claudia; Pietrantonio, Filippo; Routy, Bertrand; André, Fabrice; Pasolli, Edoardo; Delaloge, Suzette; Zitvogel, Laurence
Intestinal microbiota influences clinical outcome and side effects of early breast cancer treatment 
Cell Death Differ, vol. 28, no. 9, p. 2778–2796, 2021, ISSN: 1476-5403.
Gennari, A; André, F; Barrios, C H; Cortés, J; de Azambuja, E; DeMichele, A; Dent, R; Fenlon, D; Gligorov, J; Hurvitz, S A; Im, S-A; Krug, D; Kunz, W G; Loi, S; Penault-Llorca, F; Ricke, J; Robson, M; Rugo, H S; Saura, C; Schmid, P; Singer, C F; Spanic, T; Tolaney, S M; Turner, N C; Curigliano, G; Loibl, S; Paluch-Shimon, S; and, N Harbeck
ESMO Clinical Practice Guideline for the diagnosis, staging and treatment of patients with metastatic breast cancer
Annals of Oncology, Volume 32, Issue 12, December 2021, Pages 1475-1495
Gennari, A; André, F; Barrios, C H; Cortés, J; de Azambuja, E; DeMichele, A; Dent, R; Fenlon, D; Gligorov, J; Hurvitz, S A; Im, S-A; Krug, D; Kunz, W G; Loi, S; Penault-Llorca, F; Ricke, J; Robson, M; Rugo, H S; Saura, C; Schmid, P; Singer, C F; Spanic, T; Tolaney, S M; Turner, N C; Curigliano, G; Loibl, S; Paluch-Shimon, S; and, N Harbeck
ESMO Clinical Practice Guideline for the diagnosis, staging and treatment of patients with metastatic breast cancer
Annals of Oncology, Volume 32, Issue 12, 2021, Pages 1475-1495, ISSN 0923-7534.
Lerousseau, Marvin; Classe, Marion; Battistella, Enzo; Estienne, Théo; Henry, Théophraste; Leroy, Amaury; Sun, Roger; Vakalopoulou, Maria; Scoazec, Jean-Yves; Deutsch, Eric; Paragios, Nikos
Weakly Supervised Pan-Cancer Segmentation Tool
Medical Image Computing and Computer Assisted Intervention — MICCAI 2021, p. 248–256, Springer International Publishing, Cham, 2021, ISBN: 978-3-030-87237-3.


Watkins, Thomas B K; Lim, Emilia L; Petkovic, Marina; Elizalde, Sergi; Birkbak, Nicolai J; Wilson, Gareth A; Moore, David A; Gronroos, Eva; Rowan, Andrew; Dewhurst, Sally M; Demeulemeester, Jonas; Dentro, Stefan C; Horswell, Stuart; Au, Lewis; Haase, Kerstin; Escudero, Mickael; Rosenthal, Rachel; Bakir, Maise Al; Xu, Hang; Litchfield, Kevin; Lu, Wei Ting; Mourikis, Thanos P; Dietzen, Michelle; Spain, Lavinia; Cresswell, George D; Biswas, Dhruva; Lamy, Philippe; Nordentoft, Iver; Harbst, Katja; Castro-Giner, Francesc; Yates, Lucy R; Caramia, Franco; Jaulin, Fanny; Vicier, Cecile; Tomlinson, Ian P M; Brastianos, Priscilla K; Cho, Raymond J; Bastian, Boris C; Dyrskjot, Lars; Jonsson, Goran B; Savas, Peter; Loi, Sherene; Campbell, Peter J; Andre, Fabrice; Luscombe, Nicholas M; Steeghs, Neeltje; Tjan-Heijnen, Vivianne C G; Szallasi, Zoltan; Turajlic, Samra; Jamal-Hanjani, Mariam; Loo, Peter Van; Bakhoum, Samuel F; Schwarz, Roland F; McGranahan, Nicholas; Swanton, Charles.
Pervasive chromosomal instability and karyotype order in tumour evolution 
Nature, vol. 587, no. 7832, p. 126+, 2020, ISSN: 0028-0836.
Silvin, Aymeric; Chapuis, Nicolas; Dunsmore, Garett; Goubet, Anne-Gaëlle; Dubuisson, Agathe; Derosa, Lisa; Almire, Carole; Hénon, Clémence; Kosmider, Olivier; Droin, Nathalie; Rameau, Philippe; Catelain, Cyril; Alfaro, Alexia; Dussiau, Charles; Friedrich, Chloé; Sourdeau, Elise; Marin, Nathalie; Szwebel, Tali-Anne; Cantin, Delphine; Mouthon, Luc; Borderie, Didier; Deloger, Marc; Bredel, Delphine; Mouraud, Severine; Drubay, Damien; Andrieu, Muriel; Lhonneur, Anne-Sophie; Saada, Véronique; Stoclin, Annabelle; Willekens, Christophe; Pommeret, Fanny; Griscelli, Frank; Ng, Lai Guan; Zhang, Zheng; Bost, Pierre; Amit, Ido; Barlesi, Fabrice; Marabelle, Aurélien; Pène, Frédéric; Gachot, Bertrand; André, Fabrice; Zitvogel, Laurence; Ginhoux, Florent; Fontenay, Michaela; Solary, Eric.
Elevated Calprotectin and Abnormal Myeloid Cell Subsets Discriminate Severe from Mild COVID-19
Cell, vol. 182, no. 6, p. 1401–1418.e18, 2020.

Sahasrabudhe, Mihir; Christodoulidis, Stergios; Salgado, Roberto; Michiels, Stefan; Loi, Sherene; André, Fabrice; Paragios, Nikos; Vakalopoulou, Maria
Self-supervised Nuclei Segmentation in Histopathological Images Using Attention
MICCAI 2020, p. 393–402, Springer International Publishing, Cham, 2020, ISBN: 978-3-030-59722-1.

Lerousseau, Marvin; Vakalopoulou, Maria; Classe, Marion; Adam, Julien; Battistella, Enzo; Carré, Alexandre; Estienne, Théo; Henry, Théophraste; Deutsch, Eric; Paragios, Nikos.
Weakly Supervised Multiple Instance Learning Histopathological Tumor Segmentation
MICCAI 2020, p. 470–479, Springer International Publishing, Cham, 2020, ISBN: 978-3-030-59722-1.

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