SmashCell: a software framework for the analysis of single-cell amplified genome sequences. - Eoghan D. Harrington; Manimozhiyan Arumugam; Jeroen Raes; Peer Bork; David A. Relman (Bioinform., 2010)

Comparisons of Distance Methods for Combining Covariates and Abundances in Microbiome Studies. - Julia Fukuyama; Paul J. McMurdie; Les Dethlefsen; David A. Relman; Susan P. Holmes (Pacific Symposium on Biocomputing, 2012)

Reproducible Research Workflow in R for the Analysis of Personalized Human Microbiome Data. - Benjamin J. Callahan; Diana Proctor; David A. Relman; Julia Fukuyama; Susan P. Holmes (PSB, 2016)

Multidomain analyses of a longitudinal human microbiome intestinal cleanout perturbation experiment. - Julia Fukuyama; Laurie Rumker; Kris Sankaran; Pratheepa Jeganathan; Les Dethlefsen; David A. Relman; Susan P. Holmes (PLoS Comput. Biol., 2017)

Multiomics modeling of the immunome, transcriptome, microbiome, proteome and metabolome adaptations during human pregnancy. - Mohammad Sajjad Ghaemi; Daniel B. DiGiulio; Kévin Contrepois; Benjamin J. Callahan; Thuy T. M. Ngo; Brittany Lee-McMullen; Benoit Lehallier; Anna Robaczewska; David Mcilwain; Yael Rosenberg-Hasson; Ronald J. Wong; Cecele Quaintance; et al. (Bioinform., 2019)

Early prediction and longitudinal modeling of preeclampsia from multiomics. - Ivana Maric; Kévin Contrepois; Mira N. Moufarrej; Ina A. Stelzer; Dorien Feyaerts; Xiaoyuan Han; Andy Tang; Natalie Stanley; Ronald J. Wong; Gavin M. Traber; Mathew Ellenberger; Alan L. Chang; et al. (Patterns, 2022)

Toward a framework for risk mitigation of potential misuse of artificial intelligence in biomedical research. - Artem A. Trotsyuk; Quinn Waeiss; Raina Talwar Bhatia; Brandon J. Aponte; Isabella M. L. Heffernan; Devika Madgavkar; Ryan Marshall Felder; Lisa Soleymani Lehmann; Megan J. Palmer; Hank Greely; Russell Wald; Lea Goetz; et al. (Nat. Mac. Intell., 2024)