Publications

Xu C, Xu J, Bulusu KC, Pan H, Elemento O.  2026.  BEACON: predicting side effects and therapeutics outcomes to drugs by Bridging knowlEdge grAph with CONtextual language model.. bioRxiv.

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.

Ruan J, Bond DA, Shah B, Allan JN, Rutherford SC, Gribbin C, Chen Z, Bhinder B, Tam W, Rossi D et al..  2026.  MRD-driven initial therapy of acalabrutinib and lenalidomide plus rituximab or obinutuzumab for mantle cell lymphoma.. Blood Adv. 10(4):1381-1394.

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.

Xu C, Us I, Cohen-Setton J, Milo M, Sidders B, Fitzgibbon J, Melnick AM, Pan H, Bulusu KC, Elemento O.  2026.  PAIRWISE: Deep Learning-based Prediction of Effective Personalized Drug Combinations in Cancer.. Res Sq.

De Boni L, Claridge S, Nath S, Tofani K, Stein BD, Park E, Steiner S, Elemento O, Pauli C, Hopkins BD.  2026.  Placing purines in precision medicine: Targeting a metabolic reliance in KRAS-mutant tumors.. iScience. 29(3):114954.

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)

Nazzaro M, Mardis ER, Canella A, Bhinder B, Elemento O, Behbehani G, Currier M, Glaspell A, Lee DA, Cripe TP et al..  2026.  Trabectedin decreases myeloid resistance to improve the efficacy of anti-PD1 immunotherapy and delay glioma malignant progression.. Mol Ther Oncol. 34(1):201147.

Purkayastha S, Park J, Beyer S, Chandra A, Markowitz SM, Lerman BB, Elemento O, Krumsiek J, Lo JC, Cheung JW.  2026.  Utilization of Serum Metabolomics and Polygenic Risk Scores in a Novel Risk Stratification Tool for the Prediction of Incident Atrial Fibrillation.. Circ Arrhythm Electrophysiol. :e013858.

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.

Yoffe L, Bhinder B, Kang SWook, Zhang H, Singh A, Ravichandran H, Markowitz G, Martin M, Kim J, Zhang C et al..  2025.  Acquisition of discrete immune suppressive barriers contributes to the initiation and progression of preinvasive to invasive human lung cancer.. bioRxiv.

Setzen SA, Andreadis K, Elemento O, Rameau A.  2025.  AI-Powered Laryngoscopy: Exploring the Future With Google Gemini.. Laryngoscope. 135(6):1851-1853.

Bose A, Liu W, Yoo P, Sami A, Boniecki MT, Deshpande M, Osman M, Nguyen D, Castillo UD, Giannakakou P et al..  2025.  APOBEC3A-Induced DNA Damage Drives Polymerase θ Dependency and Synthetic Lethality in Cancer.. bioRxiv.

Nazha A, Elemento O, Ahuja S, Lam B, Miles M, Shouval R, McWeeney S, Sirhan S, Srisuwananukorn A, Haferlach T.  2025.  Artificial intelligence in hematology.. Blood. 146(19):2283-2292.

Moothedan E, Boyer M, Watts S, Abdel-Aty Y, Ghosh S, Rameau A, Sigaras A, Elemento O, Bensoussan Y.  2025.  The Bridge2AI-voice application: initial feasibility study of voice data acquisition through mobile health.. Front Digit Health. 7:1514971.

Razavian N, Batchu-Green P, Chowdhry V, Elemento O, Rajpurkar P, Saria S, Shah NH, Topol EJ.  2025.  Catalyzing Health AI by Fixing Payment Systems.. NEJM AI. 2(12)

Nauseef JT, Chu TR, Hooper WF, Alonso A, Oku A, Geiger H, Goldstein ZR, Shah M, Sigouros M, Manohar J et al..  2025.  A complex phylogeny of lineage plasticity in metastatic castration resistant prostate cancer.. NPJ Precis Oncol. 9(1):91.

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.  Corrigendum to "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 (2025) 155798].. Pathol Res Pract. 266:155825.

Kim YE, Dobko M, Li H, Shao T, Periyakoil P, Tipton C, Colasacco C, Serpedin A, Elemento O, Sabuncu M et al..  2025.  A Deep-Learning Model for Multi-class Audio Classification of Vocal Fold Pathologies in Office Stroboscopy.. Laryngoscope. 135(7):2428-2436.

Ohara K, Assaad MAl, McNulty SN, Alnajar H, Sboner A, Wilkes DC, He F, Xiang JZhaoying, Mathew S, Elemento O et al..  2025.  Detection of rare and novel gene fusions in patients with diffuse glioma: An institutional retrospective study.. J Neuropathol Exp Neurol. 84(3):269-271.

Windon A, Assaad MAl, Hadi K, Mendelson N, Hissong E, Deshpande A, Tranquille M, Mclee J, Levine MF, Patel M et al..  2025.  Emerging molecular phenotypes and potential therapeutic targets in esophageal and gastric adenocarcinoma unearthed by whole genome and transcriptome analyses.. Pathol Res Pract. 266:155788.

Assaad MAl, Hadi K, Tu J, Levine MF, Patel M, Deshpande A, Manohar J, Sigouros M, Sboner A, Chapman-Davis E et al..  2025.  Enhancing the detection of clinically relevant biomarkers in advanced uterine and tubo-ovarian carcinomas through genome-wide analysis.. Pathol Res Pract. 266:155773.

Cheng APellan, Widman AJ, Arora A, Rusinek I, Sossin A, Rajagopalan S, Midler N, Hooper WF, Murray RM, Halmos D et al..  2025.  Error-corrected flow-based sequencing at whole-genome scale and its application to circulating cell-free DNA profiling.. Nat Methods. 22(5):973-981.