Stephen Nayfach

Publication Activity (10 Years)

Years Active: 2015-2023
Publications (10 Years): 7

Top Topics

Gene Expression Data

Quantitative Analysis

Escherichia Coli

Top Venues

Nucleic Acids Res.

PLoS Comput. Biol.

Publications

Chunyu Zhao, Boris Dimitrov, Miriam Goldman, Stephen Nayfach, Katherine S. Pollard
MIDAS2: Metagenomic Intra-species Diversity Analysis System. Bioinform. 39 (1) (2023)
Antonio Pedro Camargo, Stephen Nayfach, I-Min A. Chen, Krishnaveni Palaniappan, Anna Ratner, Ken Chu, Stephan Ritter, T. B. K. Reddy, Supratim Mukherjee, Frederik Schulz, Lee Call, Russell Y. Neches, Tanja Woyke, Natalia N. Ivanova, Emiley A. Eloe-Fadrosh, Nikos Kyrpides, Simon Roux
IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata. Nucleic Acids Res. 51 (D1) (2023)
Simon Roux, A. David Páez-Espino, I-Min A. Chen, Krishna Palaniappan, Anna Ratner, Ken Chu, T. B. K. Reddy, Stephen Nayfach, Frederik Schulz, Lee Call, Russell Y. Neches, Tanja Woyke, Natalia N. Ivanova, Emiley A. Eloe-Fadrosh, Nikos Kyrpides
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses. Nucleic Acids Res. 49 (Database-Issue) (2021)
Stephen Nayfach, Zhou Jason Shi, Rekha Seshadri, Katherine S. Pollard, Nikos Kyrpides
New insights from uncultivated genomes of the global human gut microbiome. Nat. 568 (7753) (2019)
Patrick H. Bradley, Stephen Nayfach, Katherine S. Pollard
Phylogeny-corrected identification of microbial gene families relevant to human gut colonization. PLoS Comput. Biol. 14 (8) (2018)
Stephen Nayfach, Patrick H. Bradley, Stacia K. Wyman, Timothy J. Laurent, Alexander G. Williams, Jonathan A. Eisen, Katherine S. Pollard, Thomas J. Sharpton
Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes. PLoS Comput. Biol. 11 (11) (2015)
Stephen Nayfach, Michael A. Fischbach, Katherine S. Pollard
MetaQuery: a web server for rapid annotation and quantitative analysis of specific genes in the human gut microbiome. Bioinform. 31 (20) (2015)