Casey S. Greene

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Department: Systems Pharmacology and Translational Therapeutics
Graduate Group Affiliations

Contact information
13001 E 17th Pl
Office Q20-E1339
Aurora, CO 80045
B.S. (Chemistry)
Berry College, 2005.
Ph.D. (Computational Genetics)
Dartmouth College, 2009.
Post-Graduate Training
Computational Biology & Functional Genomics, Lewis-Sigler Institute for Integrative Genomics, Princeton University, 2009-2012.
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Description of Itmat Expertise

Dr. Greene's lab develops computational algorithms to accurately integrate large-scale data measuring genome-wide characteristics into computational models of how biological systems function at the cellular and organismal levels.

Description of Research Expertise

Our overarching goal is to transform how we understand complex biological systems by developing and applying computational algorithms that effectively model processes by integrating multiple types of big data from diverse experiments. This allows us to infer the key contextual information required to interpret such data, and facilitates both the computationally driven asking and answering of basic science and translational research questions.

Selected Publications

Pividori M, Greene CS.: A publishing infrastructure for Artificial Intelligence (AI)-assisted academic authoring. J Am Med Inform Assoc Jun 2024.

Zhang S, Heil BJ, Mao W, Chikina M, Greene CS, Heller EA.: MousiPLIER: A Mouse Pathway-Level Information Extractor Model. eNeuro 11: ENEURO, Jun 2024.

Davidson NR, Greene CS.: Analysis of science journalism reveals gender and regional disparities in coverage. Elife 12: RP84855, May 2024.

Davidson NR, Barnard ME, Hippen AA, Campbell A, Johnson CE, Way GP, Dalley BK, Berchuck A, Salas LA, Peres LC, Marks JR, Schildkraut JM, Greene CS, Doherty JA.: Molecular subtypes of high-grade serous ovarian cancer across racial groups and gene expression platforms. Cancer Epidemiol Biomarkers Prev May 2024.

Neff SL, Doing G, Reiter T, Hampton TH, Greene CS, Hogan DA.: Pseudomonas aeruginosa transcriptome analysis of metal restriction in ex vivo cystic fibrosis sputum. Microbiol Spectr 12: e0315723, Apr 2024.

Rando HM, Graim K, Hampikian G, Greene CS.: Many direct-to-consumer canine genetic tests can identify the breed of purebred dogs. J Am Vet Med Assoc 262: 1-8, Feb 2024.

Crawford J, Chikina M, Greene CS.: Optimizer's dilemma: optimization strongly influences model selection in transcriptomic prediction. Bioinform Adv 4: vbae004, Jan 2024.

Zietz M, Himmelstein DS, Kloster K, Williams C, Nagle MW, Greene CS.: The probability of edge existence due to node degree: a baseline for network-based predictions. Gigascience 13: giae001, Jan 2024.

Wiley LK, Shortt JA, Roberts ER, Lowery J, Kudron E, Lin M, Mayer D, Wilson M, Brunetti TM, Chavan S, Phang TL, Pozdeyev N, Lesny J, Wicks SJ, Moore ET, Morgenstern JL, Roff AN, Shalowitz EL, Stewart A, Williams C, Edelmann MN, Hull M, Patton JT, Axell L, Ku L, Lee YM, Jirikowic J, Tanaka A, Todd E, White S, Peterson B, Hearst E, Zane R, Greene CS, Mathias R, Coors M, Taylor M, Ghosh D, Kahn MG, Brooks IM, Aquilante CL, Kao D, Rafaels N, Crooks KR, Hess S, Barnes KC, Gignoux CR.: Building a vertically integrated genomic learning health system: The biobank at the Colorado Center for Personalized Medicine. Am J Hum Genet 111: 11-23, Jan 2024.

Hippen AA, Omran DK, Weber LM, Jung E, Drapkin R, Doherty JA, Hicks SC, Greene CS.: Performance of computational algorithms to deconvolve heterogeneous bulk ovarian tumor tissue depends on experimental factors. Genome Biol 24: 239, Oct 2023.

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Last updated: 07/09/2024
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