Short paired-end reads trump long single-end reads for expression analysis. - Adam H. Freedman; John M. Gaspar; Timothy B. Sackton (BMC Bioinform., 2020)

HieRFIT: a hierarchical cell type classification tool for projections from complex single-cell atlas datasets. - Yasin Kaymaz; Florian Ganglberger; Ming Tang; Christian Haslinger; Francesc Fernández-Albert; Nathan Lawless; Timothy B. Sackton (Bioinform., 2021)

Evaluating single-cell cluster stability using the Jaccard similarity index. - Ming Tang; Yasin Kaymaz; Brandon L. Logeman; Stephen Eichhorn; Zhengzheng S. Liang; Catherine Dulac; Timothy B. Sackton (Bioinform., 2021)

A phylogenetic method linking nucleotide substitution rates to rates of continuous trait evolution. - Patrick Gemmell; Timothy B. Sackton; Scott V. Edwards; Jun S. Liu (PLoS Comput. Biol., 2024)