Index Catalog // ScholarsArchive@OSU

Length Bias Correction in Gene Ontology Enrichment Analysis Using Logistic Regression

Creator:: Mi, Gu, Di, Yanming, Emerson, Sarah, Cumbie, Jason S., and Chang, Jeff H.
Abstract:: When assessing differential gene expression from RNA sequencing data, commonly used statistical tests tend to have greater power to detect differential expression of genes encoding longer transcripts. This phenomenon, called "length bias", will influence subsequent analyses such as Gene Ontology enrichment analysis. In the presence of length bias, Gene Ontology...
Resource Type:: Article
Full Text:: Enrichment Analysis Using Logistic Regression Gu Mi1*, Yanming Di1,2, Sarah Emerson1, Jason S. Cumbie2,3

Lymphocytic Choriomeningitis Virus Infection in FVB Mouse Produces Hemorrhagic Disease

Creator:: Schnell, Frederick J., Sundholm, Sarah, Crumley, Stacy, Iversen, Patrick L., and Mourich, Dan V.
Abstract:: The viral family Arenaviridae includes a number of viruses that can cause hemorrhagic fever in humans. Arenavirus infection often involves multiple organs and can lead to capillary instability, impaired hemostasis, and death. Preclinical testing for development of antiviral or therapeutics is in part hampered due to a lack of an...
Resource Type:: Article
Full Text:: in FVB Mouse Produces Hemorrhagic Disease Frederick J. Schnell1, Sarah Sundholm1, Stacy Crumley1

High-Throughput Sequencing of Arabidopsis microRNAs : Evidence for Frequent Birth and Death of MIRNA Genes

Creator:: Fahlgren, Noah, Howell, Miya D., Kasschau, Kristin D., Sullivan, Christopher M., Cumbie, Jason S., Givan, Scott A., Law, Theresa F., Grant, Sarah R., Dangl, Jeffrey L., and Carrington, James C.
Abstract:: In plants, microRNAs (miRNAs) comprise one of two classes of small RNAs that function primarily as negative regulators at the posttranscriptional level. Several MIRNA genes in the plant kingdom are ancient, with conservation extending between angiosperms and the mosses, whereas many others are more recently evolved. Here, we use deep...
Resource Type:: Article
Full Text:: . Law3, Sarah R. Grant3, Jeffery L. Dangl3, James C. Carrington1* 1 Center for Genome Research and

A Multi-Year Longitudinal Study of Water Quality Parameters in Four Salmon-Bearing and Recreational Streams on Mount Hood, Oregon

Creator:: Wasowski, Ronald, Alexander, David, Kolmes, Steven, Banet, Nathan, Card, Amy, Haines, Morgan, Kolmes, Elijah, Northcutt, Kelly, Roemer, Derek, and Webber, Sarah
Abstract:: Four streams-Clear Fork, Lost Creek, Camp Creek and Still Creek-in northwestern Oregon's Sandy River Basin were monitored for temperature, dissolved oxygen levels, and fecal bacterial concentrations in a multi-year analysis examining stream health for recreational users and anchor habitat for Pacific Salmon. Temperatures were recorded using micro -T temperature loggers...
Resource Type:: Article
Full Text:: , Kelly Northcutt1,6, Derek Roemer1,7, Sarah Webber1,8 1 Environmental Science Department, University of

The plant phenology monitoring design for The National Ecological Observatory Network

Creator:: Elmendorf, Sarah C., Jones, Katherine D., Cook, Benjamin I., Diez, Jeffrey M., Enquist, Carolyn A. F., Hufft, Rebecca A., Jones, Matthew O., Mazer, Susan J., Miller-Rushing, Abraham J., Moore, David J. P., Schwartz, Mark D., and Weltzin, Jake F.
Abstract:: Phenology is an integrative science that comprises the study of recurring biological activities or events. In an era of rapidly changing climate, the relationship between the timing of those events and environmental cues such as temperature, snowmelt, water availability, or day length are of particular interest. This article provides an...
Resource Type:: Article
Full Text:: phenology monitoring design for The National Ecological Observatory Network Sarah C. Elmendorf,1,2

In Vivo Quantification Reveals Extensive Natural Variation in Mitochondrial Form and Function in Caenorhabditis briggsae

Creator:: Hicks, Kiley A., Howe, Dana K., Leung, Aubrey, Denver, Dee R., and Estes, Suzanne
Abstract:: In We have analyzed natural variation in mitochondrial form and function among a set of Caenorhabditis briggsae isolates known to harbor mitochondrial DNA structural variation in the form of a heteroplasmic nad5 gene deletion (nad5 Delta) that correlates negatively with organismal fitness. We performed in vivo quantification of 24 mitochondrial...
Resource Type:: Article
Full Text:: . Howe2, Aubrey Leung2, Dee R. Denver2, Suzanne Estes1* 1 Biology Department, Portland State University

Absolute humidity and the seasonal onset of influenza in the continental United States

Creator:: Shaman, Jeffrey, Pitzer, Virginia E., Viboud, Cecile, Grenfell, Bryan T., and Lipsitch, Marc
Abstract:: Corrections 18 Mar 2010: Shaman J, Pitzer VE, Viboud C, Grenfell BT, Lipsitch M (2010) Correction: Absolute Humidity and the Seasonal Onset of Influenza in the Continental United States. PLOS Biology 8(3): 10.1371/annotation/35686514-b7a9-4f65-9663-7baefc0d63c0. 15 Mar 2010: Shaman J, Pitzer VE, Viboud C, Grenfell BT, Lipsitch M (2010) Correction: Absolute Humidity...
Resource Type:: Article
Full Text:: of states (average r.0.7, minimum r.0.5, see Methods and Table 3). Some Table 1. Association of

Study of Organic Semiconductors Using Time-Resolved Charge Measurements at the Microscale

Creator:: Wallace, Richard
Abstract:: Understanding charge transfer in organic semiconductors is important for developing devices like organic light emitting diodes and flexible electronics. Optical tweezers have been used in many disciplines for trapping, manipulating, and analyzing microscopic objects such as microspheres, micro-organisms, and other colloidal particles. Using optical tweezers, studies have measured the average...
Resource Type:: Undergraduate Thesis
Full Text:: anthradithiophene (ADT) derivative with functional groups, R and R’ (a) and the chemical structure of PCBM (b). The

Genome-Wide Profiling and Analysis of Arabidopsis siRNAs

Creator:: Kasschau, Kristin D., Fahlgren, Noah, Chapman, Elisabeth J., Sullivan, Christopher M., Cumbie, Jason S., Givan, Scott A., and Carrington, James C.
Abstract:: Eukaryotes contain a diversified set of small RNA-guided pathways that control genes, repeated sequences, and viruses at the transcriptional and posttranscriptional levels. Genome-wide profiles and analyses of small RNAs, particularly the large class of 24-nucleotide (nt) short interfering RNAs (siRNAs), were done for wild-type Arabidopsis thaliana and silencing pathway mutants...
Resource Type:: Article
Full Text:: -nt small Figure 4. Analysis of Small RNAs Proximal to Transposons and Retroelements (T/R) (A

Growing our vision together : forming a sustainability community within the American Library Association

Creator:: Filar Williams, Beth, Charney, Madeleine, and Smith, Bonnie
Abstract:: As long-standing keepers of democracy and information stewardship, library professionals are a natural fit for advocating and promoting sustainability within their communities. From seed libraries to Occupy Wall Street libraries, their view of sustainability extends beyond environmental concerns to include community activism, economic development, and social equity. Empowering people, facilitating...
Resource Type:: Article
Full Text:: dialogue for the greater library community. In 2000, ALA’s president, Sarah Ann Long, supported

ScholarsArchive@OSU

Length Bias Correction in Gene Ontology Enrichment Analysis Using Logistic Regression

Lymphocytic Choriomeningitis Virus Infection in FVB Mouse Produces Hemorrhagic Disease

High-Throughput Sequencing of Arabidopsis microRNAs : Evidence for Frequent Birth and Death of MIRNA Genes

A Multi-Year Longitudinal Study of Water Quality Parameters in Four Salmon-Bearing and Recreational Streams on Mount Hood, Oregon

The plant phenology monitoring design for The National Ecological Observatory Network

In Vivo Quantification Reveals Extensive Natural Variation in Mitochondrial Form and Function in Caenorhabditis briggsae

Absolute humidity and the seasonal onset of influenza in the continental United States

Study of Organic Semiconductors Using Time-Resolved Charge Measurements at the Microscale

Genome-Wide Profiling and Analysis of Arabidopsis siRNAs

Growing our vision together : forming a sustainability community within the American Library Association

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