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Katherine S. Pollard
Person information
- affiliation: University of California San Francisco, Institute for Human Genetics, USA
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2020 – today
- 2023
- [j19]Chunyu Zhao
, Boris Dimitrov, Miriam Goldman, Stephen Nayfach
, Katherine S. Pollard:
MIDAS2: Metagenomic Intra-species Diversity Analysis System. Bioinform. 39(1) (2023) - 2022
- [j18]Byron J. Smith
, Xiangpeng Li, Zhou Jason Shi, Adam R. Abate, Katherine S. Pollard:
Scalable Microbial Strain Inference in Metagenomic Data Using StrainFacts. Frontiers Bioinform. 2 (2022) - 2020
- [j17]Patrick H. Bradley, Katherine S. Pollard:
phylogenize: correcting for phylogeny reveals genes associated with microbial distributions. Bioinform. 36(4): 1289-1290 (2020)
2010 – 2019
- 2019
- [j16]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): 505-510 (2019) - 2018
- [j15]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) - 2017
- [j14]Reuben Thomas, Sean Thomas, Alisha K. Holloway, Katherine S. Pollard:
Features that define the best ChIP-seq peak calling algorithms. Briefings Bioinform. 18(3): 441-450 (2017) - [j13]Sophie Engle
, Sean Whalen, Alark Joshi
, Katherine S. Pollard:
Unboxing cluster heatmaps. BMC Bioinform. 18(S-2): 63:1-63:15 (2017) - 2015
- [j12]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): 3368-3370 (2015) - [j11]Aram Avila-Herrera, Katherine S. Pollard:
Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species. BMC Bioinform. 16: 268:1-268:18 (2015) - [j10]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) - 2014
- [j9]Genevieve D. Erwin, Nir Oksenberg, Rebecca M. Truty, Dennis Kostka, Karl K. Murphy, Nadav Ahituv
, Katherine S. Pollard, John A. Capra:
Integrating Diverse Datasets Improves Developmental Enhancer Prediction. PLoS Comput. Biol. 10(6) (2014) - 2012
- [j8]Danielle G. Lemay
, William F. Martin, Angie S. Hinrichs
, Monique Rijnkels, J. Bruce German, Ian Korf, Katherine S. Pollard:
G-NEST: a gene neighborhood scoring tool to identify co-conserved, co-expressed genes. BMC Bioinform. 13: 253 (2012) - [j7]Thomas J. Sharpton
, Guillaume Jospin
, Dongying Wu, Morgan G. I. Langille
, Katherine S. Pollard, Jonathan A. Eisen
:
Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource. BMC Bioinform. 13: 264 (2012) - [j6]John A. Capra, Alexander G. Williams, Katherine S. Pollard:
ProteinHistorian: Tools for the Comparative Analysis of Eukaryote Protein Origin. PLoS Comput. Biol. 8(6) (2012) - 2011
- [j5]Melissa J. Hubisz
, Katherine S. Pollard, Adam C. Siepel
:
PHAST and RPHAST: phylogenetic analysis with space/time models. Briefings Bioinform. 12(1): 41-51 (2011) - [j4]Thomas J. Sharpton
, Samantha J. Riesenfeld
, Steven W. Kembel
, Joshua Ladau, James P. O'Dwyer, Jessica L. Green, Jonathan A. Eisen
, Katherine S. Pollard:
PhylOTU: A High-Throughput Procedure Quantifies Microbial Community Diversity and Resolves Novel Taxa from Metagenomic Data. PLoS Comput. Biol. 7(1) (2011) - 2010
- [j3]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:
High-throughput sequencing of the DBA/2J mouse genome. BMC Bioinform. 11(S-4): O7 (2010)
2000 – 2009
- 2007
- [j2]Danielle G. Lemay
, Margaret C. Neville, Michael Rudolph, Katherine S. Pollard, J. Bruce German:
Gene regulatory networks in lactation: identification of global principles using bioinformatics. BMC Syst. Biol. 1: 56 (2007) - 2006
- [j1]Kevin L. Schneider, Katherine S. Pollard, Robert Baertsch, Andy Pohl, Todd M. Lowe:
The UCSC Archaeal Genome Browser. Nucleic Acids Res. 34(Database-Issue): 407-410 (2006) - [c2]Adam C. Siepel
, Katherine S. Pollard, David Haussler:
New Methods for Detecting Lineage-Specific Selection. RECOMB 2006: 190-205 - 2003
- [c1]Katherine S. Pollard, Mark J. van der Laan:
Multiple Testing for Gene Expression Data: An Investigation of Null Distributions with Consequences for the Permutation Test. METMBS 2003: 3-9
Coauthor Index
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