Katherine S. Pollard

According to our database, Katherine S. Pollard authored at least 22 papers between 2003 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

MIDAS2: Metagenomic Intra-species Diversity Analysis System.

Chunyu Zhao, Boris Dimitrov, Miriam Goldman, Stephen Nayfach, Katherine S. Pollard

Bioinform., January, 2023

2022

Scalable Microbial Strain Inference in Metagenomic Data Using StrainFacts.

Byron J. Smith, Xiangpeng Li, Zhou Jason Shi, Adam R. Abate, Katherine S. Pollard

Frontiers Bioinform., 2022

CellWalkR: an R package for integrating and visualizing single-cell and bulk data to resolve regulatory elements.

Pawel F. Przytycki, Katherine S. Pollard

Bioinform., 2022

2020

phylogenize: correcting for phylogeny reveals genes associated with microbial distributions.

Patrick H. Bradley, Katherine S. Pollard

Bioinform., 2020

2019

New insights from uncultivated genomes of the global human gut microbiome.

Stephen Nayfach, Zhou Jason Shi, Rekha Seshadri, Katherine S. Pollard, Nikos Kyrpides

Nat., 2019

2018

Phylogeny-corrected identification of microbial gene families relevant to human gut colonization.

Patrick H. Bradley, Stephen Nayfach, Katherine S. Pollard

PLoS Comput. Biol., 2018

2017

Unboxing cluster heatmaps.

Sophie Engle, Sean Whalen, Alark Joshi, Katherine S. Pollard

BMC Bioinform., 2017

Features that define the best ChIP-seq peak calling algorithms.

Reuben Thomas, Sean Thomas, Alisha K. Holloway, Katherine S. Pollard

Briefings Bioinform., 2017

2015

Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes.

Stephen Nayfach, Patrick H. Bradley, Stacia K. Wyman, Timothy J. Laurent, Alexander G. Williams, Jonathan A. Eisen, Katherine S. Pollard, Thomas J. Sharpton

PLoS Comput. Biol., 2015

Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species.

Aram Avila-Herrera, Katherine S. Pollard

BMC Bioinform., 2015

MetaQuery: a web server for rapid annotation and quantitative analysis of specific genes in the human gut microbiome.

Stephen Nayfach, Michael A. Fischbach, Katherine S. Pollard

Bioinform., 2015

2014

Integrating Diverse Datasets Improves Developmental Enhancer Prediction.

Genevieve D. Erwin, Nir Oksenberg, Rebecca M. Truty, Dennis Kostka, Karl K. Murphy, Nadav Ahituv, Katherine S. Pollard, John A. Capra

PLoS Comput. Biol., 2014

2012

ProteinHistorian: Tools for the Comparative Analysis of Eukaryote Protein Origin.

John A. Capra, Alexander G. Williams, Katherine S. Pollard

PLoS Comput. Biol., 2012

Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource.

Thomas J. Sharpton, Guillaume Jospin, Dongying Wu, Morgan G. I. Langille, Katherine S. Pollard, Jonathan A. Eisen

BMC Bioinform., 2012

G-NEST: a gene neighborhood scoring tool to identify co-conserved, co-expressed genes.

Danielle G. Lemay, William F. Martin, Angie S. Hinrichs, Monique Rijnkels, J. Bruce German, Ian Korf, Katherine S. Pollard

BMC Bioinform., 2012

2011

PhylOTU: A High-Throughput Procedure Quantifies Microbial Community Diversity and Resolves Novel Taxa from Metagenomic Data.

Thomas J. Sharpton, Samantha J. Riesenfeld, Steven W. Kembel, Joshua Ladau, James P. O'Dwyer, Jessica L. Green, Jonathan A. Eisen, Katherine S. Pollard

PLoS Comput. Biol., 2011

PHAST and RPHAST: phylogenetic analysis with space/time models.

Melissa J. Hubisz, Katherine S. Pollard, Adam C. Siepel

Briefings Bioinform., 2011

2010

High-throughput sequencing of the DBA/2J mouse genome.

Xusheng Wang, Richa Agarwala, John A. Capra, Zugen Chen, Deanna M. Church, Daniel C. Ciobanu, Zhengsheng Li, Lu Lu, Khyobeni Mozhui, Megan K. Mulligan, Stanley F. Nelson, Katherine S. Pollard, William Taylor, Donald B. Thomason, Robert W. Williams

BMC Bioinform., 2010

2007

Gene regulatory networks in lactation: identification of global principles using bioinformatics.

Danielle G. Lemay, Margaret C. Neville, Michael Rudolph, Katherine S. Pollard, J. Bruce German

BMC Syst. Biol., 2007

2006

The UCSC Archaeal Genome Browser.

Kevin L. Schneider, Katherine S. Pollard, Robert Baertsch, Andy Pohl, Todd M. Lowe

Nucleic Acids Res., 2006

New Methods for Detecting Lineage-Specific Selection.

Adam C. Siepel, Katherine S. Pollard, David Haussler

Proceedings of the Research in Computational Molecular Biology, 2006

2003

Multiple Testing for Gene Expression Data: An Investigation of Null Distributions with Consequences for the Permutation Test.

Katherine S. Pollard, Mark J. van der Laan

Proceedings of the International Conference on Mathematics and Engineering Techniques in Medicine and Biological Scienes, 2003