Inferring sequence regions under functional divergence in duplicate genes. - Yi-Fei Huang 004; Geoffrey Brian Golding (Bioinform., 2012)

Phylogenetic Gaussian Process Model for the Inference of Functionally Important Regions in Protein Tertiary Structures. - Yi-Fei Huang 004; Geoffrey Brian Golding (PLoS Comput. Biol., 2014)

FuncPatch: a web server for the fast Bayesian inference of conserved functional patches in protein 3D structures. - Yi-Fei Huang 004; Geoffrey Brian Golding (Bioinform., 2015)

PhastWeb: a web interface for evolutionary conservation scoring of multiple sequence alignments using phastCons and phyloP. - Ritika Ramani; Katie Krumholz; Yi-Fei Huang 004; Adam C. Siepel (Bioinform., 2019)

An unsupervised deep learning framework for predicting human essential genes from population and functional genomic data. - Troy M. LaPolice; Yi-Fei Huang 004 (BMC Bioinform., 2023)