Index Catalog // ScholarsArchive@OSU

An introduction to the analysis of shotgun metagenomic data

Creator:: Sharpton, Thomas J.
Abstract:: Environmental DNA sequencing has revealed the expansive biodiversity of microorganisms and clarified the relationship between host-associated microbial communities and host phenotype. Shotgun metagenomic DNA sequencing is a relatively new and powerful environmental sequencing approach that provides insight into community biodiversity and function. But, the analysis of metagenomic sequences is complicated...
Resource Type:: Article
Full Text:: introduction to the analysis of shotgun metagenomic data Thomas J. Sharpton* Department of Microbiology and

Oregon and Eldorado; or, Romance of the rivers [Columbia and Amazon]

Creator:: Bulfinch, Thomas, 1796-1867
Abstract:: Gerald W. Williams Collection
Resource Type:: Book
Full Text:: r I s, OREGON AND ELDORADO; OB, ROMANCE OF THE RIVERS. BY THOMAS BULFINCH, AUTHO~ OF "THE

Backbones of evolutionary history test biodiversity theory for microbes

Creator:: O'Dwyer, James P., Kembel, Steven W., and Sharpton, Thomas J.
Abstract:: Identifying the ecological and evolutionary mechanisms that determine biological diversity is a central question in ecology. In microbial ecology, phylogenetic diversity is an increasingly common and relevant means of quantifying community diversity, particularly given the challenges in defining unambiguous species units from environmental sequence data. We explore patterns of phylogenetic...
Resource Type:: Article

Triclosan Exposure Is Associated with Rapid Restructuring of the Microbiome in Adult Zebrafish

Creator:: Gaulke, Christopher A., Barton, Carrie L., Proffitt, Sarah, Tanguay, Robert L., and Sharpton, Thomas J.
Abstract:: Growing evidence indicates that disrupting the microbial community that comprises the intestinal tract, known as the gut microbiome, can contribute to the development or severity of disease. As a result, it is important to discern the agents responsible for microbiome disruption. While animals are frequently exposed to a diverse array...
Resource Type:: Article

Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome

Creator:: Quandt, C. Alisha, Kohler, Annegret, Hesse, Cedar N., Sharpton, Thomas J., Martin, Francis, and Spatafora, Joseph W.
Abstract:: Many obligate symbiotic fungi are difficult to maintain in culture, and there is a growing need for alternative approaches to obtaining tissue and subsequent genomic assemblies from such species. In this study, the genome of Elaphomyces granulatus was sequenced from sporocarp tissue. The genome assembly remains on many contigs, but...
Resource Type:: Article
Full Text:: Quandt,1*† Annegret Kohler,2 Cedar N. Hesse,3 Thomas J. Sharpton,4,5 Francis Martin2 and Joseph W

Aging and serum MCP-1 are associated with gut microbiome composition in a murine model

Creator:: Conley, Melissa N., Wong, Carmen P., Duyck, Kyle M., Hord, Norman, Ho, Emily, and Sharpton, Thomas J.
Abstract:: Introduction. Age is the primary risk factor for major human chronic diseases, including cardiovascular disorders, cancer, type 2 diabetes, and neurodegenerative diseases. Chronic, low-grade, systemic inflammation is associated with aging and the progression of immunosenescence. Immunosenescence may play an important role in the development of age-related chronic disease and the...
Resource Type:: Article

Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes

Creator:: Nayfach, Stephen, Bradley, Patrick H., Wyman, Stacia K., Laurent, Timothy J., Williams, Alex, Eisen, Jonathan A., Pollard, Katherine S., and Sharpton, Thomas J.
Abstract:: Shotgun metagenomic DNA sequencing is a widely applicable tool for characterizing the functions that are encoded by microbial communities. Several bioinformatic tools can be used to functionally annotate metagenomes, allowing researchers to draw inferences about the functional potential of the community and to identify putative functional biomarkers. However, little is...
Resource Type:: Article
Full Text:: ., ... & Sharpton, T. J. (2015). Automated and accurate estimation of gene family abundance from shotgun

Exome capture from saliva produces high quality genomic and metagenomic data

Creator:: Kidd, Jeffrey M., Sharpton, Thomas J., Bobo, Dean, Norman, Paul J., Martin, Alicia R., Carpenter, Meredith L., Sikora, Martin, Gignoux, Christopher R., Nemat-Gorgani, Neda, Adams, Alexandra, Guadalupe, Moraima, Guo, Xiaosen, Feng, Qiang, Li, Yingrui, Liu, Xiao, Parham, Peter, Hoal, Eileen G., Feldman, Marcus W., Pollard, Katherine S., Wall, Jeffrey D., Bustamante, Carlos D., and Henn, Brenna M.
Abstract:: BACKGROUND: Targeted capture of genomic regions reduces sequencing cost while generating higher coverage by allowing biomedical researchers to focus on specific loci of interest, such as exons. Targeted capture also has the potential to facilitate the generation of genomic data from DNA collected via saliva or buccal cells. DNA samples...
Resource Type:: Article

Comment on “Peak flow responses to clear-cutting and roads in small and large basins, Western Cascades, Oregon: A second opinion” by R. B. Thomas and W. F. Megahan

Creator:: Jones, J. A. and Grant, G. E.
Abstract:: Thomas and Megahan [1998] provide a thoughtful reanalysis of our earlier paper [Jones and Grant, 1996]. Thomas and Megahan [1998] (hereinafter referred to as T&M) reacted to three assertions made by Jones and Grant [1996] (hereinafter referred to as J&G): (1) "forest harvesting has increased peak discharges by as much...
Resource Type:: Article
Full Text:: second opinion" by R. B. Thomas and W. F. Megahan J. A. Jones Department of Geosciences, Oregon State

Thomas Hobbes and the Duke of Newcastle: A Study in the Mutuality of Patronage before the Establishment of the Royal Society

Creator:: Sarasohn, Lisa T.
Abstract:: This study shows how patronage framed and fashioned the careers of Thomas Hobbes and his patron William Cavendish, the earl of Newcastle. Newcastle's protection allowed Hobbes to articulate heterodox ideas without immediate fear of reprisal. It also enabled him to solidify his status as a gentleman and the intellectual equal...
Resource Type:: Article
Full Text:: Science in Hobbes's Politics," in Perspectives on Thomas Hobbes, ed. G. A. J. Rogers and Alan Ryan

ScholarsArchive@OSU

An introduction to the analysis of shotgun metagenomic data

Oregon and Eldorado; or, Romance of the rivers [Columbia and Amazon]

Backbones of evolutionary history test biodiversity theory for microbes

Triclosan Exposure Is Associated with Rapid Restructuring of the Microbiome in Adult Zebrafish

Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome

Aging and serum MCP-1 are associated with gut microbiome composition in a murine model

Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes

Exome capture from saliva produces high quality genomic and metagenomic data

Comment on “Peak flow responses to clear-cutting and roads in small and large basins, Western Cascades, Oregon: A second opinion” by R. B. Thomas and W. F. Megahan

Thomas Hobbes and the Duke of Newcastle: A Study in the Mutuality of Patronage before the Establishment of the Royal Society

Limit your search

Academic Affiliation

Advisor

Commencement Year

Committee Member

Conference Name

Conference Section/Track

Creator

Contributor

Date

Decade

Degree Field

Degree Level

Degree Name

File Format

Language

License

Location

Non-Academic Affiliation

Peer Reviewed

Resource Type

Rights Statement

Subject

Search Constraints

Search Results

Limit your search