Shawn W. Polson

发表

Fast and sensitive protein sequence homology searches using hierarchical cluster BLAST

Daniel J. Nasko, K. Eric Wommack, Barbra D. Ferrell, 2018, bioRxiv.

An Integrated Approach for Interpretation of Clinical NGS Genomic Variant Data

Cathy H. Wu, Hongzhan Huang, Shawn W. Polson, 2013, AMIA.

Iroki: automatic customization and visualization of phylogenetic trees

K. Eric Wommack, Shawn W. Polson, Ryan M. Moore, 2020, PeerJ.

Pressing needs of biomedical text mining in biocuration and beyond: opportunities and challenges

Zhiyong Lu, Ioannis Xenarios, Johanna R. McEntyre, 2016, Database J. Biol. Databases Curation.

Community annotation and bioinformatics workforce development in concert—Little Skate Genome Annotation Workshops and Jamborees

Cathy H. Wu, Hongzhan Huang, Cecilia N. Arighi, 2012, Database J. Biol. Databases Curation.

No-boundary thinking in bioinformatics research

Jason H. Moore, Xiuzhen Huang, Zhongming Zhao, 2013, BioData Mining.

Computational clustering for viral reference proteomes

Peter B. McGarvey, Jian Zhang, Cathy H. Wu, 2016, Bioinform..

A reference genome of the Chinese hamster based on a hybrid assembly strategy

Shawn W. Polson, Madolyn L. MacDonald, Kelvin H. Lee, 2018, Biotechnology and bioengineering.

Evaluation of a Transposase Protocol for Rapid Generation of Shotgun High-Throughput Sequencing Libraries from Nanogram Quantities of DNA

Shawn W. Polson, Rachel L. Marine, J. Ravel, 2011, Applied and Environmental Microbiology.

VIROME: a standard operating procedure for analysis of viral metagenome sequences

Daniel J. Nasko, Shawn W. Polson, Jaysheel D. Bhavsar, 2012, Standards in genomic sciences.

Caught in the middle with multiple displacement amplification: the myth of pooling for avoiding multiple displacement amplification bias in a metagenome

Daniel J. Nasko, Shawn W. Polson, Rachel L. Marine, 2014, Microbiome.

Impacts of Poultry House Environment on Poultry Litter Bacterial Community Composition

K. Eric Wommack, Shawn W. Polson, Jacques Ravel, 2011, PloS one.

Groundtruthing Next-Gen Sequencing for Microbial Ecology–Biases and Errors in Community Structure Estimates from PCR Amplicon Pyrosequencing

K. Eric Wommack, Shawn W. Polson, Ian R. McDonald, 2012, PloS one.

PCR-based assay for detection of four coral pathogens

Shawn W. Polson, C. Woodley, J. Higgins, 2008 .

PASV: Automatic protein partitioning and validation using conserved residues

Daniel J. Nasko, Barbra D. Ferrell, Shawn W. Polson, 2021, bioRxiv.

SkateBase, an elasmobranch genome project and collection of molecular resources for chondrichthyan fishes

Cathy H. Wu, Shawn W. Polson, Chuming Chen, 2014, F1000Research.

High-fat-diet-mediated dysbiosis promotes intestinal carcinogenesis independently of obesity

Shawn W. Polson, Thomas Kirchner, Claudia Pommerenke, 2014, Nature.

Genome Sequence and Methylome of Soil Bacterium Gemmatirosa kalamazoonensis KBS708T, a Member of the Rarely Cultivated Gemmatimonadetes Phylum

Shawn W. Polson, J. Korlach, K. Wommack, 2014, Genome Announcements.

Aerobic and anaerobic iron oxidizers together drive denitrification and carbon cycling at marine iron-rich hydrothermal vents

Shawn W. Polson, C. Chan, Rebecca Vandzura, 2020, The ISME Journal.

Understanding ER+ Breast Cancer Dormancy Using Bioinspired Synthetic Matrices for Long-Term 3D Culture and Insights into Late Recurrence.

Cathy H. Wu, Shawn W. Polson, April M. Kloxin, 2020, Advanced biosystems.

Validating the Cyc2 Neutrophilic Iron Oxidation Pathway Using Meta-omics of Zetaproteobacteria Iron Mats at Marine Hydrothermal Vents

Shawn W. Polson, B. Glazer, C. Chan, 2020, mSystems.

Validating the Cyc2 Neutrophilic Iron Oxidation Pathway Using Meta-omics of Zetaproteobacteria Iron Mats at Marine Hydrothermal Vents

Shawn W. Polson, B. Glazer, C. Chan, 2020, mSystems.

Complete Genome Sequence of Microbacterium sp. Strain 10M-3C3, Isolated from an Extremely Phosphorus-Poor Lake

Shawn W. Polson, J. Maresca, Olga Shevchenko, 2019, Microbiology Resource Announcements.

The Tudor-domain protein TDRD7, mutated in congenital cataract, controls the heat shock protein HSPB1 (HSP27) and lens fiber cell morphology

Shawn W. Polson, V. Fowler, S. Lachke, 2020, Human molecular genetics.

Oyster Calcifying Fluid Harbors Persistent and Dynamic Autochthonous Bacterial Populations That May Aid in Shell Formation.

Shawn W. Polson, Eric G Sakowski, K. E. Wommack, 2020, Marine ecology progress series.

Spontaneously Produced Lysogenic Phages Are an Important Component of the Soybean Bradyrhizobium Mobilome

Barbra D. Ferrell, Shawn W. Polson, J. Dums, 2022, bioRxiv.

CRISPR Spacers Indicate Preferential Matching of Specific Virioplankton Genes

Daniel J. Nasko, Barbra D. Ferrell, Shawn W. Polson, 2018, mBio.

Polygenic inheritance of cryptorchidism susceptibility in the LE/orl rat.

Shawn W. Polson, Suzanne M. McCahan, Modupeore O. Adetunji, 2016, Molecular human reproduction.

Metagenomic Analysis of a Concrete Bridge Reveals a Microbial Community Dominated by Halophilic Bacteria and Archaea

Shawn W. Polson, M. Shaw, J. Maresca, 2023, Microbiology spectrum.

Complete Genome Sequence of Vibrio parahaemolyticus Environmental Strain UCM-V493

Shawn W. Polson, L. Katz, C. Tarr, 2014, Genome Announcements.

An integrated approach for analyzing clinical genomic variant data from next-generation sequencing.

Cathy H. Wu, Shawn W. Polson, E. Crowgey, 2015, Journal of biomolecular techniques : JBT.

Multiple Megaplasmids Confer Extremely High Levels of Metal Tolerance in Alteromonas Strains

Shawn W. Polson, R. Hill, K. Cusick, 2019, Applied and Environmental Microbiology.

Aurantimonas coralicida gen. nov., sp. nov., the causative agent of white plague type II on Caribbean scleractinian corals.

Shawn W. Polson, L. Richardson, W. Lubitz, 2003, International journal of systematic and evolutionary microbiology.

Novel Viral DNA Polymerases From Metagenomes Suggest Genomic Sources of Strand-Displacing Biochemical Phenotypes

Barbra D. Ferrell, Shawn W. Polson, Ryan M. Moore, 2022, Frontiers in Microbiology.

Light Modulates the Physiology of Nonphototrophic Actinobacteria

Shawn W. Polson, Jaysheel D. Bhavsar, J. Maresca, 2019, Journal of bacteriology.

Identification of bacteria associated with a disease affecting the marine sponge Ianthella basta in New Britain, Papua New Guinea

Shawn W. Polson, Garriett W Smith, T. Goreau, 2006, Marine Ecology Progress Series.

Genome sequencing and transcript analysis of Hemileia vastatrix reveal expression dynamics of candidate effectors dependent on host compatibility

Shawn W. Polson, Chuming Chen, Nicole Donofrio, 2019, PloS one.

k-mer-Based Metagenomics Tools Provide a Fast and Sensitive Approach for the Detection of Viral Contaminants in Biopharmaceutical and Vaccine Manufacturing Applications Using Next-Generation Sequencing

Shawn W. Polson, Madolyn L. MacDonald, Kelvin H. Lee, 2021, mSphere.

The etiology of white pox, a lethal disease of the Caribbean elkhorn coral, Acropora palmata

Shawn W. Polson, D. Santavy, E. Peters, 2002, Proceedings of the National Academy of Sciences of the United States of America.

Reannotation of the Ribonucleotide Reductase in a Cyanophage Reveals Life History Strategies Within the Virioplankton

Shawn W. Polson, Ryan M. Moore, Amelia O. Harrison, 2018, bioRxiv.

Microbial disease causation in marine invertebrates: problems, practices, and future prospects

Shawn W. Polson, K. Ritchie, Garriett W Smith, 2001, Hydrobiologia.

Relationship of Vibrio Species Infection and Elevated Temperatures to Yellow Blotch/Band Disease in Caribbean Corals

Shawn W. Polson, R. J. Martinez, Garriett W Smith, 2004, Applied and Environmental Microbiology.

Investigation of allele specific expression in various tissues of broiler chickens using the detection tool VADT

Shawn W. Polson, M. Tomlinson, B. Abasht, 2021, Scientific Reports.

Genotyping-by-Sequencing to Predict Resistance to Lima Bean Downy Mildew in a Diversity Panel.

Shawn W. Polson, N. Donofrio, R. Wisser, 2016, Phytopathology.

Iroki: automatic customization and visualization of phylogenetic trees

K. Eric Wommack, Shawn W. Polson, Ryan M. Moore, 2017, bioRxiv.

Towards an integrative view of virus phenotypes

Barbra D. Ferrell, Shawn W. Polson, Jason P. Gleghorn, 2021, Nature Reviews Microbiology.

Functional viral metagenomics and the next generation of molecular tools.

Shawn W. Polson, David Mead, Ronald Godiska, 2010, Trends in microbiology.

Caught in the middle with multiple displacement amplification: the myth of pooling for avoiding multiple displacement amplification bias in a metagenome

Daniel J. Nasko, Shawn W. Polson, Rachel L. Marine, 2014, Microbiome.

The effect of nutrient deposition on bacterial communities in Arctic tundra soil.

Shawn W. Polson, Edward A G Schuur, Shawn W Polson, 2010, Environmental microbiology.

Ribonucleotide reductases reveal novel viral diversity and predict biological and ecological features of unknown marine viruses

Daniel J. Nasko, Shawn W. Polson, S. Williamson, 2014, Proceedings of the National Academy of Sciences.

Novel chaperonins are prevalent in the virioplankton and demonstrate links to viral biology and ecology

Daniel J. Nasko, Shawn W. Polson, Rachel L. Marine, 2017, The ISME Journal.

Shotgun metagenomics indicates novel family A DNA polymerases predominate within marine virioplankton

Shawn W. Polson, S. Williamson, Eric G Sakowski, 2013, The ISME Journal.

Optimizing the indirect extraction of prokaryotic DNA from soils

Shawn W. Polson, Kurt E. Williamson, S. Williamson, 2011 .

Identification of Chondrocyte Genes and Signaling Pathways in Response to Acute Joint Inflammation

Shawn W. Polson, Mei‐qing Wang, Liyun Wang, 2019, Scientific Reports.

Diffuse flow environments within basalt- and sediment-based hydrothermal vent ecosystems harbor specialized microbial communities

Shawn W. Polson, B. Campbell, Charles K. Lee, 2013, Front. Microbiol..

Family A DNA Polymerase Phylogeny Uncovers Diversity and Replication Gene Organization in the Virioplankton

Daniel J. Nasko, Barbra D. Ferrell, Shawn W. Polson, 2018, Front. Microbiol..

Bacteriophages against Vibrio coralliilyticus and Vibrio tubiashii: Isolation, Characterization, and Remediation of Larval Oyster Mortalities

Shawn W. Polson, C. Langdon, J. Uknalis, 2021, Applied and Environmental Microbiology.

Phased Genotyping-by-Sequencing Enhances Analysis of Genetic Diversity and Reveals Divergent Copy Number Variants in Maize

Shawn W. Polson, Yuan Ji, Subhajit Sengupta, 2017, G3: Genes, Genomes, Genetics.

Molecular diversity of diazotrophs in oligotrophic tropical seagrass bed communities.

Shawn W. Polson, M. Friez, C. R. Lovell, 2002, FEMS microbiology ecology.

Development of novel filtering criteria to analyze RNA-sequencing data obtained from the murine ocular lens during embryogenesis

Shawn W. Polson, S. Lachke, M. Duncan, 2014, Genomics data.

Ubiquitous, B12-dependent virioplankton utilizing ribonucleotide-triphosphate reductase demonstrate interseasonal dynamics and associate with a diverse range of bacterial hosts in the pelagic ocean

Barbra D. Ferrell, Shawn W. Polson, Ryan M. Moore, 2023, bioRxiv.

Identification of microbes associated with coralline lethal algal disease and its relationship to glacial ice melt (global warming)

Shawn W. Polson, M. Littler, D. S. Littler, 2005 .

Polyphasic analysis reveals correlation between phenotypic and genotypic analysis in soybean bradyrhizobia (Bradyrhizobium spp.).

Shawn W. Polson, J. Fuhrmann, K. E. Wommack, 2020, Systematic and applied microbiology.

Draft Genome Sequence of a Natural Root Isolate, Bacillus subtilis UD1022, a Potential Plant Growth-Promoting Biocontrol Agent

Shawn W. Polson, H. Bais, D. J. Sherrier, 2015, Genome Announcements.

Urbanization pressures alter tree rhizosphere microbiomes

Shawn W. Polson, T. Trammell, C. Rosier, 2018, Scientific Reports.

Deletion of Fibroblast growth factor 9 globally and in skeletal muscle results in enlarged tuberosities at sites of deltoid tendon attachments

Shawn W. Polson, Jaysheel D. Bhavsar, D. Ornitz, 2021, bioRxiv.

Direct Assessment of Viral Diversity in Soils by Random PCR Amplification of Polymorphic DNA

Shawn W. Polson, Jaysheel D. Bhavsar, J. Fuhrmann, 2013, Applied and Environmental Microbiology.

Direct assessment of viral diversity in soils using RAPD-PCR 1 2

Shawn W. Polson, Jaysheel D. Bhavsar, J. Fuhrmann, 2013 .

Identification of Chondrocyte Genes and Signaling Pathways in Response to Acute Joint Inflammation

Shawn W. Polson, Mei‐qing Wang, Liyun Wang, 2019, Scientific Reports.

Whole-Genome Sequence of the Cyanobacterium Synechococcus sp. Strain WH 8101

Shawn W. Polson, M. Marston, 2020, Microbiology Resource Announcements.

Metagenomic Contrasts of Viruses in Soil and Aquatic Environments

Shawn W. Polson, Jaysheel D. Bhavsar, Kurt E. Williamson, 2011 .

Allele specific expression in various tissues of Gallus gallus domesticus

Shawn W. Polson, D. Doren, R. Wisser, 2018 .

Unraveling the viral tapestry (from inside the capsid out)

Shawn W. Polson, S. Wilhelm, K. E. Wommack, 2011, The ISME Journal.

Supplemental Text, Figures, and Tables for manuscript "Validating the Cyc2 neutrophilic Fe oxidation pathway using meta-omics of Zetaproteobacteria iron mats at marine hydrothermal vents"

Shawn W. Polson, B. Glazer, C. Chan, 2020 .