A large accessory protein interactome is rewired across environments. Liu Z, Miller D, Li F, Liu X, Levy SF. bioRxiv. 2020.
High-resolution lineage tracking reveals travelling wave of adaptation in laboratory yeast. Ba ANN, Cvijovic I, Echenique JIR, Lawrence KR, Rego-Costa A, Liu X, Levy SF, Desai MM. Nature. 2019, 575: 494.
iSeq 2.0: A Modular and Interchangeable Toolkit for Interaction Screening in Yeast. Liu X, Liu Z, Dziulko AK, Li F, Miller D, Morabito RD, Francois D, Levy SF. Cell Systems. 2019, 8: 338.
Improved discovery of genetic interactions using CRISPRiSeq across multiple environments. Jaffe M, Dziulko AK, Smith JD, St.Onge RP, Levy SF, Sherlock, G. Genome Research. 2019, 29: 668.
The dynamics of genetic diversity during the early stages of clonal evolution. Blundell JR, Schwartz K, Francois D, Fisher DS, Sherlock G, Levy SF. Nature Ecology and Evolution. 2019, 3: 293.
Single-cell copy number variant detection reveals the dynamics and diversity of adaptation. Lauer S, Avecilla G, Spealman P, Sethia G, Brandt N, Levy SF, Gresham D. PLoS Biology. 2018, 16: e3000069.
Unbiased Fitness Estimation of Pooled Barcode or Amplicon Sequencing Studies. Li F, Salit ML, Levy SF. Cell Systems. 2018, 7: 521.
Robust colony recognition for high-throughput growth analysis from suboptimal low-magnification brightfield micrographs. Plavskin Y, Li S, Ziv N, Levy SF, Siegal ML. bioRxiv. 2018, 253724.
Bartender: a fast and accurate clustering algorithm to count barcode reads. Zhao L, Liu Z, Levy SF, Wu S. Bioinformatics. 2017, 34: 739.
A scalable double-barcode sequencing platform for characterization of dynamic protein-protein interactions.. Schlecht U, Liu Z, Blundell JR, St. Onge RP, Levy SF. Nature Communications. 2017, 8: 15586.
A method for high‐throughput production of sequence‐verified DNA libraries and strain collections. Smith JD, Schlecht U, Xu W, Suresh S, Horecka J, Proctor M, Aiyar R, Bennett R, Chu A, Li Y, Roy K, Davis R, Steinmetz L, Hyman R, Levy SF, St.Onge RP. Molecular Systems Biology. 2017, 13: 913.
Gene architectures that minimize cost of gene expression. Frumkin I, Rotman A, Schirman D, Li F, Zahavi L, Mordret E, Asraf O, Shaham G, Tuller T, Wu S, Levy SF, Pilpel Y. Molecular Cell. 2017, 65: 142-153.
iSeq: a new double-barcode method for detecting dynamic genetic interactions in yeast. Jaffe M, Sherlock G, Levy SF. G3: Genes| Genomes| Genetics 2017, 7: 143-153.
Highlighted in G3: Genes| Genomes| Genetics.
Development of a Comprehensive Genotype-to-Fitness Map of Adaptation-Driving Mutations in Yeast. Venkataram S, Dunn B, Li Y, Argawala A, Chang J, Ebel E, Geiler-Samerotte K, Herissant L, Bundell JR, Levy SF, Fisher DS, Sherlock G, Petrov DA. Cell 2016, 167: 1585-96.
Highlighted in Nature Reviews Genetics.
Cellular Heterogeneity: Benefits Besides Bet-Hedging. Levy SF. Current Biology 2016, 26: R355-357.
Quantitative evolutionary dynamics using high-resolution lineage tracking. Levy SF, Blundell JR, Venkataram S, Petrov DA, Fisher DS, Sherlock G. Nature 2015, 519: 181-6.
Beyond genome sequencing: Lineage tracking with barcodes to study the dynamics of evolution, infection, and cancer. Blundell JR, Levy SF. Genomics 2014, 104: 417-30
Histone variant HTZ1 shows extensive epistasis with, but does not confer robustness to, new mutations. Richardson JB, Uppendahl LD, Traficante MK, Levy SF, Siegal ML. PLoS Genetics 2013, 9: e1003733
Bet hedging in yeast by heterogeneous, age-correlated expression of a stress protectant. Levy SF, Ziv N, Siegal ML. PLoS Biology 10: e1001327 (2012).
Highlighted in PLoS Biology.
The robustness continuum. Levy SF, Siegal ML. Evolutionary Systems Biology, Advances in Experimental Medicine and Biology, 2012, 751: 431-52.
Polygenic cis-regulatory adaptation in the evolution of yeast pathogenicity. Fraser HB, Levy SF, Chavan A, Shah HB, Kowli S, Perez JC, Zhou Y, Siegal ML, Sinha H Genome Research, 2012, 10: 1930-9.
Network Hubs Buffer Environmental Variation in Saccharomyces cerevisiae. Levy SF, Siegal ML Genome Research, 2012, 10: 1930-9. PLoS Biology, 2008, 6: e264.
Editors’ Choice in Science.
Highlighted in Nature Genetics.
Highlighted in Nature Reviews Genetics.
FTDP-17 Mutations in Tau Alter the Regulation Microtubule Dynamics – an “Alternative Core” Model for Normal and Pathological Tau Action. LeBoeuf AC, Levy SF, Gaylord MR, Bhattacharya A, Singh AK, Jordan MA, Wilson L, Feinstein SC. J Biol. Chem., 2008, 283: 36406-15.
General Modeling and Visualization Tool for Comparing Different Members of a Group: Application to Understanding Tau-Mediated Regulation of Microtubule Dynamics. Bhattacharya A, Levy SF, LeBoeuf AC, Gaylord, MR, Wilson L, Singh AK, Feinstein SC. BMC Bioinformatics, 2008, 9: 339-351.
Somatodendritic microRNAs identified by laser capture and multiplex RT-PCR. Kye MJ, Liu T, Levy SF, Xu NL, Groves BB, Bonneau R, Lao K, Kosik KS. RNA., 2007, 13: 1224-34.
Three- and Four- Repeat Tau Regulate the Dynamics of Two Distinct Microtubule Subpopulations in Qualitatively Different Manners: Implications for Neurodegeneration. Levy SF, LeBoeuf AC, Massie MR, Jordan MA, Wilson L, Feinstein SC. J Biol. Chem., 2005, 280: 13520-8.