Yifei Huang

Assistant Professor of Biology

Research Summary

Developing novel bioinformatic methods and using them to address fundamental questions in evolutionary genomics and medical genomics.

Graduate Students

Huck Affiliations

Publication Tags

Proteins Genes Substitution Reactions Conservation Substitution Phylogenetics Protein Protein Structure Servers Tertiary Protein Structure Gtp Binding Proteins Phylogeny Gene Model Genome Amino Acids Sequence Alignment Rna Sequence Analysis Patch Metagenomics Web Server Space Simulation Multiple Sequence Alignment Efficiency Bayesian Inference

Most Recent Papers

Phastweb

Ritika Ramani, Katie Krumholz, Yi Fei Huang, Adam Siepel, 2019, Bioinformatics on p. 2320-2322

Scikit-ribo Enables Accurate Estimation and Robust Modeling of Translation Dynamics at Codon Resolution

Han Fang, Yifei Huang, Aditya Radhakrishnan, Adam Siepel, Gholson J. Lyon, Michael C. Schatz, 2018, Cell Systems on p. 180-191.e4

Nascent RNA sequencing reveals a dynamic global transcriptional response at genes and enhancers to the natural medicinal compound celastrol

Noah Dukler, Gregory T. Booth, Yi Fei Huang, Nathaniel Tippens, Colin T. Waters, Charles G. Danko, John T. Lis, Adam Siepel, 2017, Genome research on p. 1816-1829

Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data

Yi Fei Huang, Brad Gulko, Adam Siepel, 2017, Nature Genetics on p. 618-624

Robust high-performance nanoliter-volume single-cell multiple displacement amplification on planar substrates

Kaston Leung, Anders Klaus, Bill K. Lin, Emma Laks, Justina Biele, Daniel Lai, Ali Bashashati, Yifei Huang, Radhouane Aniba, Michelle Moksa, Adi Steif, Anne Marie Mes-Masson, Martin Hirst, Sohrab P. Shah, Samuel Aparicio, Carl L. Hansen, 2016, Proceedings of the National Academy of Sciences of the United States of America on p. 8484-8489

Func Patch

Yi Fei Huangy, G. Brian Golding, 2015, Bioinformatics on p. 523-531

Phylogenetic Gaussian Process Model for the Inference of Functionally Important Regions in Protein Tertiary Structures

Yi Fei Huang, G. Brian Golding, 2014, PLoS computational biology

Inferring sequence regions under functional divergence in duplicate genes

Yi Fei Huang, G. Brian Golding, 2012, Bioinformatics on p. 176-183

Evidence against the energetic cost hypothesis for the short introns in highly expressed genes

Yi Fei Huang, Deng Ke Niu, 2008, BMC Evolutionary Biology

Most-Cited Papers

Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data

Yi Fei Huang, Brad Gulko, Adam Siepel, 2017, Nature Genetics on p. 618-624

Robust high-performance nanoliter-volume single-cell multiple displacement amplification on planar substrates

Kaston Leung, Anders Klaus, Bill K. Lin, Emma Laks, Justina Biele, Daniel Lai, Ali Bashashati, Yifei Huang, Radhouane Aniba, Michelle Moksa, Adi Steif, Anne Marie Mes-Masson, Martin Hirst, Sohrab P. Shah, Samuel Aparicio, Carl L. Hansen, 2016, Proceedings of the National Academy of Sciences of the United States of America on p. 8484-8489

Inferring sequence regions under functional divergence in duplicate genes

Yi Fei Huang, G. Brian Golding, 2012, Bioinformatics on p. 176-183

Phylogenetic Gaussian Process Model for the Inference of Functionally Important Regions in Protein Tertiary Structures

Yi Fei Huang, G. Brian Golding, 2014, PLoS computational biology

Func Patch

Yi Fei Huangy, G. Brian Golding, 2015, Bioinformatics on p. 523-531

Nascent RNA sequencing reveals a dynamic global transcriptional response at genes and enhancers to the natural medicinal compound celastrol

Noah Dukler, Gregory T. Booth, Yi Fei Huang, Nathaniel Tippens, Colin T. Waters, Charles G. Danko, John T. Lis, Adam Siepel, 2017, Genome research on p. 1816-1829

Scikit-ribo Enables Accurate Estimation and Robust Modeling of Translation Dynamics at Codon Resolution

Han Fang, Yifei Huang, Aditya Radhakrishnan, Adam Siepel, Gholson J. Lyon, Michael C. Schatz, 2018, Cell Systems on p. 180-191.e4

Phastweb

Ritika Ramani, Katie Krumholz, Yi Fei Huang, Adam Siepel, 2019, Bioinformatics on p. 2320-2322