2023

Chaung, Kaitlin, Tavor Baharav, George Henderson, Ivan Zheludev, Peter Wang, and Julia Salzman. “SPLASH: A Statistical, Reference-Free Genomic Algorithm Unifies Biological Discovery”., Cell, 186, no. 25 (December 7, 2023): 5440-56. https://doi.org/10.1016/j.cell.2023.10.028.

Chen, Vivian, Milo Johnson, Lucas Lucas Hérissant, Parris Humphrey, David Yuan, Yuping Li, Atish Agarwala, Samuel Hoelscher, Dmitri Petrov, Michael Desai, and Gavin Sherlock. “Evolution of Haploid and Diploid Populations Reveals Common, Strong, and Variable Pleiotropic Effects in Non-Home Environments”., eLife, 12 (October 20, 2023). https://doi.org/10.7554/eLife.92899.

Li, Taibo, Nicole Ferarro, Benjamin Strober, Francois Aguet, Silva Kasela, Marios Arvanitis, Bohan Ni, Laurens Wiel, Elliot Hershberg, Kristin Ardlie, Dan Arking, Rebecca Beer, Jennifer Brody, Thomas Blackwell, Clary Clish, Stacey Gabriel, Gerszten Robert, Xiuqing Guo, Namrata Gupta, W. Craig Johnson, and Stephen Montgomery. “The Functional Impact of Rare Variation across the Regulatory Cascade”, Cell Genomics, 3, no. 10 (October 11, 2023). https://doi.org/10.1016/j.xgen.2023.100401.

Moots, Hannah, Margaret Antonio, Susanna Sawyer, Jeffrey Spence, Victoria Oberreiter, Clemens Wei, Michaela Lucci, Yahia Cherifi, Francesco La Pastina, Francesco Genchi, Elisa Praxmeier, Brina Zagorc, Olivia Cheronet, Kadir Özdoğan, Lea Demetz, Selma Amrani, Francesa Candilio, Daniela De Angelis, Gabriella Gasperetti, Daniel Fernandes, Ziyue Gao, Mounir Fantar, Alfredo Coppa, Jonathan Pritchard, and Ron Pinhasi. “A Genetic History of Continuity and Mobility in the Iron Age Central Mediterranean”, Nature Ecology & Evolution, 7 (August 17, 2023): 1515–1524. https://doi.org/10.1038/s41559-023-02143-4.

Jones, Andrew, F. William Townes, Didong Li, and Barbara Engelhardt. “Alignment of Spatial Genomics Data Using Deep Gaussian Processes”, Nature Methods, 20 (August 17, 2023): 1379–1387. https://doi.org/10.1038/s41592-023-01972-2.

Mooney, Jazlyn, Lily Agranat-Tamir, Jonathan Pritchard, and Noah Rosenberg. “On the Number of Genealogical Ancestors Tracing to the Source Groups of an Admixed Population”, Genetics, 224, no. 3 (July 6, 2023). https://doi.org/10.1093/genetics/iyad079.

Kinsler, Grant, Kara Schmidlin, Daphne Newell, Rachel Eder, Sam Apodaca, Grace Lam, Dmitri Petrov, and Kerry Geiler-Samerotte. “Extreme Sensitivity of Fitness to Environmental Conditions: Lessons from #1BigBatch”, Journal of Molecular Evolution, 91 (May 27, 2023): 293–310. https://doi.org/10.1007/s00239-023-10114-3.

Denton, Kaleda, Yoav Ram, and Marcus Feldman. “Conditions That Favour Cumulative Cultural Evolution”, Philosophical Transactions of the Royal Society B, 378, no. 1872 (March 13, 2023). https://doi.org/10.1098/rstb.2021.0400.

Mathur, Shaili, and Noah Rosenberg. “ All Galls Are Divided into Three or More Parts: Recursive Enumeration of Labeled Histories for Galled Trees”, Algorithms for Molecular Biology, 18, no. 1 (February 13, 2023). https://doi.org/10.1186/s13015-023-00224-4.

López-Nandam, Elora, Rebecca Albright, Erik Hanson, Elizabeth Sheets, and Stephen Palumbi. “Mutations in Coral Soma and Sperm Imply Lifelong Stem Cell Renewal and Cell Lineage Selection”., Proceedings of the Royal Society, 290, no. 1991 (January 25, 2023). https://doi.org/10.1098/rspb.2022.1766.

Starr, Alexander, David Gokhman, and Hunter Fraser. “Accounting for Cis-Regulatory Constraint Prioritizes Genes Likely to Affect Species-Specific Traits”, Genome Biology, 24, no. 1 (January 19, 2023). https://doi.org/10.1186/s13059-023-02846-8.

Chen, Heidi, Yatish Turakhia, Gill Bejerano, and David Kingsley. “Whole-Genome Comparisons Identify Repeated Regulatory Changes Underlying Convergent Appendage Evolution in Diverse Fish Lineages”, Molecular Biology and Evolution, 40, no. 9 (2023). https://doi.org/10.1093/molbev/msad188.