Rebecca Deek

  • Assistant Professor

My research focuses on statistical methods for omics data, with an emphasis on metagenomics and multiomics integration. As sequencing technologies continue to advance and their adoption in large-scale medical studies grows, many unique statistical and computational challenges cannot be addressed with existing techniques thus requiring methodological innovation. I also work closely with clinicians to analyze genetic, bulk transcriptomic, proteomic, metabolomic, and metagenomic data, as well as their interplay, and determine their impact on human health. Broadly, my research interests are in statistical and machine learning methods for large and complex data sets, motivated by real world applications. More information can be found on my homepage


2023 | University of Pennsylvania, Philadelphia, PA | PhD in Biostatistics

2018 | Columbia University, New York, NY | MS in Biostatistics

2016 | New Jersey Institute of Technology and Rutgers University, Newark, NJ | BS in Biological Sciences


BIOST2025 | Biostatistics Seminar | Fall 2023, Spring 2024

Selected Publications
  • Deek RA, Li H. Inference of microbial covariation networks using copula models with mixture margins. Bioinformatics. 2023. 39(7):btad413.
  • McGinniss JE, Whiteside SA, Deek RA, Simon-Soro A, Graham-Wooten J, Oyster M, Brown MD, Cantu E, Diamond JM, Li H, Christie JD, Bushman FD, Collman RG. The lung allograft microbiome associates with pepsin, inflammation, and primary graft dysfunction. American Journal of Respiratory and Critical Care Medicine. 2022. 206(12):1508-21.
  • Deek MP, Van der Eecken K, Sutera P, Deek RA, Fonteyne V, Mendes AA, Decaestecker K, Kiess AP, Lumen N, Phillips R, De Bruycker A, Mishra M, Rana Z, Molitoris J, Lambert B, Delrue L, Wang H, Lowe K, Verbeke S, Van Dorpe J, Bultijnck R, Villeirs G, De Man K, Ameye F, Song DY, DeWeese T, Paller CJ, Feng FY, Wyatt A, Pienta KJ, Diehn M, Bentzen SM, Joniau S, Vanhaverbeke F, De Meerleer G, Antonarakis ES, Lotan TL, Berlin A, Siva S, Ost P, Tran PT. Long-term outcomes and genetic predictors of response to metastasis-directed therapy versus observation in oligometastatic prostate cancer: analysis of STOMP and ORIOLE trials. Journal of clinical oncology. 2022. 40(29):3377-82.
  • Wei S, Yin D, Yu S, Lin X, Savani MR, Du K, Ku Y, Wu D, Li S, Liu H, Tian M, Chen Y, Bowie M, Hariharan S, Waitkus M, Keir S, Sugarman E, Deek RA, Labrie M, Khasraw M, Lu Y, Mills G, Herlyn H, Wu K, Liu L, Wei Z, Flaherty K, Abdullah K, Zhang G, and Ashley D. Antitumor activity of a mitochondrial-targeted HSP90 inhibitor in gliomas. Clinical Cancer Research. 2022. 28(10):2180-95.
  • Deek RA, Li H. A zero-inflated latent dirichlet allocation model for microbiome studies. Frontiers in Genetics. 2021. 11:602594.
  • Deek RA, Nasser J, Ghanem A, Mardelli M, Khazen G, Salloum AK, Abchee A, Ghassibe-Sabbagh M, Zalloua P. Genome-wide association analysis of HDL-C in a Lebanese cohort. Plos one. 2019. 14(6):e0218443.
  • Chen J, King E, Deek RA, Wei Z, Yu Y, Grill D, Ballman K. An omnibus test for differential distribution analysis of microbiome sequencing data. Bioinformatics. 2018. 34(4):643-51.

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