A new approach to analyzing gene expression time series data. - Ziv Bar-Joseph; Georg K. Gerber; David K. Gifford; Tommi S. Jaakkola; Itamar Simon (RECOMB, 2002)

Continuous Representations of Time-Series Gene Expression Data. - Ziv Bar-Joseph; Georg K. Gerber; David K. Gifford; Tommi S. Jaakkola; Itamar Simon (J. Comput. Biol., 2003)

Automated Discovery of Functional Generality of Human Gene Expression Programs. - Georg K. Gerber; Robin D. Dowell; Tommi S. Jaakkola; David K. Gifford (PLoS Comput. Biol., 2007)

Discovering homotypic binding events at high spatial resolution. - Yuchun Guo; Georgios Papachristoudis; Robert C. Altshuler; Georg K. Gerber; Tommi S. Jaakkola; David K. Gifford; Shaun Mahony (Bioinform., 2010)

Inferring Dynamic Signatures of Microbes in Complex Host Ecosystems. - Georg K. Gerber; Andrew B. Onderdonk; Lynn Bry (PLoS Comput. Biol., 2012)

The Human Microbiome: Informatics Challenges and Opportunities. - Alexander V. Alekseyenko; Michael J. Becich; Todd Z. DeSantis; Jack A. Gilbert; Georg K. Gerber (AMIA, 2016)

Robust and Scalable Models of Microbiome Dynamics. - Travis E. Gibson; Georg K. Gerber (ICML, 2018)

Benchmarking and Evaluation of AI Models in Biology: Outcomes and Recommendations from the CZI Virtual Cells Workshop. - Elizabeth Fahsbender; Alma Andersson; Jeremy Ash; Polina Binder; Daniel Burkhardt; Benjamin Chang 009; Georg K. Gerber; Anthony Gitter; Patrick Godau; Ankit Gupta; Genevieve Haliburton; Siyu He; et al. (CoRR, 2025)