Publications

Bai Z, Osman M, Brendel M, Tangen CM, Flaig TW, Thompson IM, Plets M, M Lucia S, Theodorescu D, Gustafson D et al..  2025.  Predicting response to neoadjuvant chemotherapy in muscle-invasive bladder cancer via interpretable multimodal deep learning.. NPJ Digit Med. 8(1):174.

Bayou N, Henretta S, Munoz-Arcos L, Molteni E, Gianni C, Serafini MSerena, Nicolò E, Pontolillo L, Pasto B, Gaudio HAndrew et al..  2025.  Quantitative HER2 profiling on circulating tumor cells using an EpCAM-independent platform in metastatic breast cancer.. Cancer Cell Int. 25(1):439.

Akinsanya K, AlQuraishi M, Boija A, Chodera J, Cichońska A, Ghassemi M, Head M, Jin W, Kibbe WA, Krogan N et al..  2025.  Redefining druggable targets with artificial intelligence.. Nat Biotechnol. 43(9):1416-1418.

Vicario R, Fragkogianni S, Pokrovskii M, Meyer C, Lopez-Rodrigo E, Hu Y, Ogishi M, Alberdi A, Baako A, Ay O et al..  2025.  Role of clonal inflammatory microglia in histiocytosis-associated neurodegeneration.. Neuron. 113(7):1065-1081.e13.

Kim J, Ravichandran H, Yoffe L, Bhinder B, Finos K, Singh A, Pua BB, Bates S, Huang BEmma, Rendeiro AF et al..  2025.  Simultaneous immunomodulation and epithelial-to-mesenchymal transition drives lung adenocarcinoma progression.. bioRxiv.

Park J, De Gregorio R, Hissong E, Ozcelik E, Bartelo N, Dezem FSegato, Zhang L, Marção M, Chasteen H, Zheng Y et al..  2025.  The Spatial Atlas of Human Anatomy (SAHA): A Multimodal Subcellular-Resolution Reference Across Human Organs.. bioRxiv.

Rubinelli L, Manzo OLaura, Sungho J, Del Gaudio I, Bareja R, Marino A, Palikhe S, Di Mauro V, Bucci M, Falcone DJ et al..  2025.  Suppression of endothelial ceramide de novo biosynthesis by Nogo-B contributes to cardiometabolic diseases.. Nat Commun. 16(1):1968.

Ovejero S, Devin J, Alibert L, Soun C, Lin Y-L, Dutrieux L, Abouladze M, de Paco EGarcia, Gadacha OKarmous, Constantinou A et al..  2025.  Synthetic Lethal Combinations of DNA Repair Inhibitors and Genotoxic Agents to Target High-Risk Diffuse Large B Cell Lymphoma.. Hematol Oncol. 43(5):e70131.

Roshal M, Kong IY, Dinalankara W, Reichel JB, Teater M, Binder B, Zairis S, Brody JD, Park SI, Kovach AE et al..  2025.  Transcriptome sequencing of Hodgkin lymphoma Hodgkin and Reed-Sternberg cells reveals escape from NK cell recognition and an unfolded protein response.. bioRxiv.

Honigsberg R, Cruz T, Yoffe L, Tang MStephanie, Dicle O, Markowitz G, Michael M, Singh A, Altorki NK, Elemento O et al..  2025.  Tumor-specific draining lymph node CD8 T cells orchestrate an anti-tumor response to neoadjuvant PD-1 immune checkpoint blockade.. bioRxiv.

Nath S, Claridge S, Granados GLara, Assaad MAl, Park E, Cavallo J-A, Nuwere U, Ackon MEsi, De Boni L, Baker S et al..  2025.  Unlocking the therapeutic potential of rigosertib as a selective therapy for ovarian cancer.. Cell Rep Med. 6(7):102218.

Guevara D, Shin N, Boiko A, Valiev I, Elsaeed AG, Mosquera JMiguel, Assaad MAl, Manohar J, Sigouros M, Zaichikova A et al..  2025.  Unusual Presentation of Advanced Urothelial Cancer in a Young Patient.. Anticancer Res. 45(2):613-618.

Elemento O, Khozin S, Sternberg CN.  2025.  The use of artificial intelligence for cancer therapeutic decision-making.. NEJM AI. 2(5)

de la Mora JDelgado-, Assaad MAl, Karaaslan S, Hadi K, Halima A, Deshpande A, Manohar J, Sigouros M, Medina-Martínez JS, Lieberman MD et al..  2025.  Whole genome and transcriptome analysis of pancreatic acinar cell carcinoma elucidates mechanisms of homologous recombination deficiency and unravels novel relevant fusion events.. Pathol Res Pract. 266:155798.

Kalomeris T, Assaad MAl, de la Mora JDelgado-, Gundem G, Levine MF, Boyraz B, Manohar J, Sigouros M, Medina-Martínez JS, Sboner A et al..  2025.  Whole genome profiling of primary and metastatic adrenocortical carcinoma unravels significant molecular events.. Pathol Res Pract. 266:155725.

El-Deiry WS, Bresson C, Wunder F, Carneiro BA, Dizon DS, Warner JL, Graff SL, Azzoli CG, Wong ET, Cheng L et al..  2025.  Worldwide Innovative Network (WIN) Consortium in Personalized Cancer Medicine: Bringing next-generation precision oncology to patients.. Oncotarget. 16:140-162.

Bai Y, Agustinus AS, Yomtoubian S, Meydan C, McNally DR, Yoffe L, Hubisz MJ, Tranquille M, Pramod S, Hong C et al..  2026.  Epigenetic Regulation of Chromosomal Instability by EZH2 Methyltransferase.. Cancer Discov. 16(1):135-154.

Kaza S, Mohanty AS, Serpedin A, Yau J, Kim YEun, Kutler RB, Elemento O, Sulica L, Khosravi P, Rameau A.  2026.  Exploring Real-Time Tracking of Vocal Fold Polyps in Video-Stroboscopy Using Deep Learning.. Laryngoscope.

Umesh A, Cordogan S, Simpson SK, Bram JT, Jones RH, Schairer WW, Sboner A, Elemento O, Green DW, Fabricant PD.  2026.  Genetic Variants Related to TGF-β Signaling Pathway Modulate Risk of Meniscus Injury: A Multiancestry Genome-wide Association Study.. Clin Orthop Relat Res. 484(1):178-193.

Surapaneni S, Kutler RB, Setzen SA, Kim YEun, Yao P, Siddiqui SH, Pitman MJ, Sulica L, Elemento O, Khosravi P et al..  2026.  A Multimodal Approach for Deep-Learning Classification of Vocal Fold Pathologies in Stroboscopy.. Laryngoscope.

Gilani A, Stein BD, Hoffmann A, de Lima RPereira, Ha EE, Homan EA, Ma L, Rubio-Navarro A, Wun TTha Ra, Carrascal GJose Ayala et al..  2026.  Secretory kinase FAM20C triggers adipocyte dysfunction, inciting insulin resistance and inflammation in obesity.. J Clin Invest. 136(1)

Assaad MAl, Hadi K, Levine MF, Guevara D, Patel M, Tranquille M, King A, Otilano J, Semaan A, Gundem G et al..  2026.  Whole genome sequencing approach to assess homologous recombination deficiency in a pan-cancer cohort.. Commun Med (Lond). 6(1):5.