An efficient and accurate distance based algorithm to reconstruct tandem duplication trees. - Olivier Elemento; Olivier Gascuel (ECCB, 2002)

An exact and polynomial distance-based algorithm to reconstruct single copy tandem duplication trees. - Olivier Elemento; Olivier Gascuel (J. Discrete Algorithms, 2005)

Revealing Posttranscriptional Regulatory Elements Through Network-Level Conservation. - Chang S. Chan; Olivier Elemento; Saeed Tavazoie (PLoS Comput. Biol., 2005)

Reconstructing the duplication history of tandemly repeated sequences. - Olivier Gascuel; Denis Bertrand; Olivier Elemento (Mathematics of Evolution and Phylogeny, 2007)

DISPARE: DIScriminative PAttern REfinement for Position Weight Matrices. - Isabelle da Piedade; Man-Hung Eric Tang; Olivier Elemento (BMC Bioinform., 2009)

An integrated ChIP-seq analysis platform with customizable workflows. - Eugenia G. Giannopoulou; Olivier Elemento (BMC Bioinform., 2011)

Practical Analysis of Genome Contact Interaction Experiments. - Mark A. Carty; Olivier Elemento (Statistical Genomics, 2016)

A primer on precision medicine informatics. - Andrea Sboner; Olivier Elemento (Briefings Bioinform., 2016)

EthSEQ: ethnicity annotation from whole exome sequencing data. - Alessandro Romanel; Tuo Zhang; Olivier Elemento; Francesca Demichelis (Bioinform., 2017)

The cancer precision medicine knowledge base for structured clinical-grade mutations and interpretations. - Linda Huang; Helen Fernandes; Hamid Zia; Peyman Tavassoli; Hanna Rennert; David Pisapia; Marcin Imielinski; Andrea Sboner; Mark A. Rubin; Michael Kluk; Olivier Elemento (J. Am. Medical Informatics Assoc., 2017)

A Computational Approach for Identifying Synergistic Drug Combinations. - Kaitlyn M. Gayvert; Omar Aly; James Platt; Marcus W. Bosenberg; David F. Stern; Olivier Elemento (PLoS Comput. Biol., 2017)

Breast Cancer Histopathological Image Classification: A Deep Learning Approach. - Mahboubeh Jannesari; Mehdi Habibzadeh; HamidReza Aboulkheyr; Pegah Khosravi; Olivier Elemento; Mehdi Totonchi; Iman Hajirasouliha (BIBM, 2018)

Drug knowledge bases and their applications in biomedical informatics research. - Yongjun Zhu; Olivier Elemento; Jyotishman Pathak; Fei Wang 001 (Briefings Bioinform., 2019)

Deep learning enables robust assessment and selection of human blastocysts after in vitro fertilization. - Pegah Khosravi; Ehsan Kazemi 001; Qiansheng Zhan; Jonas Malmsten; Marco Toschi; Pantelis Zisimopoulos; Alexandros Sigaras; Stuart Lavery; Lee A. D. Cooper; Cristina Hickman; Marcos Meseguer; Zev Rosenwaks; et al. (npj Digit. Medicine, 2019)

Predicting peptide presentation by major histocompatibility complex class I: an improved machine learning approach to the immunopeptidome. - Kevin Michael Boehm; Bhavneet Bhinder; Vijay Joseph Raja; Noah Dephoure; Olivier Elemento (BMC Bioinform., 2019)

Structure-Based Drug-Drug Interaction Detection via Expressive Graph Convolutional Networks and Deep Sets (Student Abstract). - Mengying Sun; Fei Wang 001; Olivier Elemento; Jiayu Zhou (AAAI, 2020)

Graph convolutional networks for computational drug development and discovery. - Mengying Sun; Sendong Zhao; Coryandar Gilvary; Olivier Elemento; Jiayu Zhou; Fei Wang 001 (Briefings Bioinform., 2020)

ABEMUS: platform-specific and data-informed detection of somatic SNVs in cfDNA. - Nicola Casiraghi; Francesco Orlando; Yari Ciani; Jenny Xiang; Andrea Sboner; Olivier Elemento; Gerhardt Attard; Himisha Beltran; Francesca Demichelis; Alessandro Romanel (Bioinform., 2020)

A machine learning and network framework to discover new indications for small molecules. - Coryandar Gilvary; Jamal Elkhader; Neel Madhukar; Claire Henchcliffe; Marcus D. Goncalves; Olivier Elemento (PLoS Comput. Biol., 2020)

Application of Deep Learning on Single-cell RNA Sequencing Data Analysis: A Review. - Matthew Brendel; Chang Su 002; Zilong Bai; Hao Zhang 050; Olivier Elemento; Fei Wang 001 (Genom. Proteom. Bioinform., 2022)

Developing Multi-Disorder Voice Protocols: A team science approach involving clinical expertise, bioethics, standards, and DEI. - Anaïs Rameau; Satrajit Ghosh; Alexandros Sigaras; Olivier Elemento; Jean-Christophe Bélisle-Pipon; Vardit Ravitsky; Maria Powell; Alistair Johnson; David Dorr; Philip R. O. Payne; Micah Boyer; Stephanie Watts; et al. (INTERSPEECH, 2024)

Benchmarking multi-ancestry prostate cancer polygenic risk scores in a real-world cohort. - Yajas Shah; Scott Kulm; Jones T. Nauseef; Zhengming Chen; Olivier Elemento; Kevin H. Kensler; Ravi N. Sharaf (PLoS Comput. Biol., 2024)

The Bridge2AI-voice application: initial feasibility study of voice data acquisition through mobile health. - Elijah Moothedan; Micah Boyer; Stephanie Watts; Yassmeen Abdel-Aty; Satrajit Ghosh; Anaïs Rameau; Alexandros Sigaras; Olivier Elemento; Yael Bensoussan (Frontiers Digit. Health, 2025)

Predicting response to neoadjuvant chemotherapy in muscle-invasive bladder cancer via interpretable multimodal deep learning. - Zilong Bai; Mohamed Osman; Matthew Brendel; Catherine M. Tangen; Thomas W. Flaig; Ian M. Thompson; Melissa Plets; M. Scott Lucia; Dan Theodorescu; Daniel Gustafson; Siamak Daneshmand; Joshua J. Meeks; et al. (npj Digit. Medicine, 2025)