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:: categories. The p-value cut-off for calling DE genes (x-axis) influences the p-value of subsequent GO

Local Crop Planting Systems Enhance Insecticide-Mediated Displacement of Two Invasive Leafminer Fly

Creator:: Gao, Yulin, Reitz, Stuart R., Wei, Qingbo, Yu, Wenyan, Zhang, Zhi, and Lei, Zhongren
Abstract:: Liriomyza sativae and L. trifolii are highly invasive leafminer pests of vegetable crops that have invaded southern China in recent years. Liriomyza sativae was the first of these species to invade China, but it is now being displaced by L. trifolii. The rate and extent of this displacement vary across...
Resource Type:: Article
Full Text:: towel gourd, there was a significant treatment x time interaction demonstrating that the composition of

Does Temperature-Mediated Reproductive Success Drive the Direction of Species Displacement in Two Invasive Species of Leafminer Fly?

Creator:: Wang, Haihong, Reitz, Stuart R., Xiang, Juncheng, Smagghe, Guy, and Lei, Zhongren
Abstract:: Liriomyza sativae and L. trifolii (Diptera: Agromyzidae) are two highly invasive species of leafmining flies, which have become established as pests of horticultural crops throughout the world. In certain regions where both species have been introduced, L. sativae has displaced L. trifolii, whereas the opposite has occurred in other regions....
Resource Type:: Article
Full Text:: bisection method and the Euler-Lotka equation: X? x~0 e{r xz1ð Þ lxmx~1 ð1Þ Displacement between Two

Regional Contingencies in the Relationship between Aboveground Biomass and Litter in the World’s Grasslands

Creator:: O’Halloran, Lydia R., Chu, Chengjin, Bakker, Jonathan D., Davies, Kendi F., Du, Guozhen, Firn, Jennifer, Hagenah, Nicole, Hofmockel, Kirsten S., Knops, Johannes M. H., Li, Wei, Melbourne, Brett A., Borer, Elizabeth T., Morgan, John W., Orrock, John L., Prober, Suzanne M., Stevens, Carly J., Seabloom, Eric W., MacDougall, Andrew S., Cleland, Elsa E., McCulley, Rebecca L., Hobbie, Sarah, Harpole, W. Stan, and DeCrappeo, Nicole M.
Abstract:: Based on regional-scale studies, aboveground production and litter decomposition are thought to positively covary, because they are driven by shared biotic and climatic factors. Until now we have been unable to test whether production and decomposition are generally coupled across climatically dissimilar regions, because we lacked replicated data collected within...
Resource Type:: Article
Full Text:: , Parton WJ, Stohlgren T, Zheng D, Bachelet D, et al. (2008) Global Net Primary Production Predicted from

Mechanistic Insights into Validoxylamine A 7’-Phosphate Synthesis by VldE Using the Structure of the Entire Product Complex

Creator:: Cavalier, Michael C., Yim, Young-Sun, Asamizu, Shumpei, Neau, David, Almabruk, Khaled H., Mahmud, Taifo, and Lee, Yong-Hwan
Abstract:: The pseudo-glycosyltransferase VldE catalyzes non-glycosidic C-N coupling between an unsaturated cyclitol and a saturated aminocyclitol with the conservation of the stereochemical configuration of the substrates to form validoxylamine A 7'-phosphate, the biosynthetic precursor of the antibiotic validamycin A. To study the molecular basis of its mechanism, the three-dimensional structures of...
Resource Type:: Article
Full Text:: various liganded states using X-ray crystallographic techniques. The structure of VldE was solved by

Positive Impact of Nutritional Interventions on Serum Symmetric Dimethylarginine and Creatinine Concentrations in Client-Owned Geriatric Dogs

Creator:: Hall, Jean A., MacLeay, Jennifer, Yerramilli, Maha, Obare, Edward, Yerramilli, Murthy, Schiefelbein, Heidi, Paetau-Robinson, Inke, and Jewell, Dennis E.
Abstract:: A prospective study was conducted in client-owned geriatric dogs to evaluate the short-term effects of a test food on serum symmetric dimethylarginine (SDMA) and creatinine (Cr) concentrations. Test food contained functional lipids (fish oil), antioxidants (lipoic acid, vitamins C and E), L-carnitine, botanicals (fruits and vegetables), controlled sodium concentration, and...
Resource Type:: Article
Full Text:: requirement (RER) for each animal calculated by the formula: RER = 70 x (ideal body weight in kg) 0.75 with

Positive Impact of Nutritional Interventions on Serum Symmetric Dimethylarginine and Creatinine Concentrations in Client-Owned Geriatric Cats

Creator:: Hall, Jean A., MacLeay, Jennifer, Yerramilli, Maha, Obare, Edward, Yerramilli, Murthy, Schiefelbein, Heidi, Paetau-Robinson, Inke, and Jewell, Dennis E.
Abstract:: A prospective study was conducted in client-owned geriatric cats to evaluate the short- term effects of a test food on serum symmetric dimethylarginine (SDMA) and creatinine (Cr) concentrations. Test food contained functional lipids (fish oil), antioxidants (vitamins C and E), L-carnitine, botanicals (vegetables), highly bioavailable protein, and amino acid supplements....
Resource Type:: Article
Full Text:: animal calculated by the formula: RER = 70 x (ideal body weight in kg) 0.75 with instructions to obtain

How Effective Are DNA Barcodes in the Identification of African Rainforest Trees?

Creator:: Parmentier, Ingrid, Duminil, Jérôme, Kuzmina, Maria, Philippe, Morgane, Thomas, Duncan W., Kenfack, David, Chuyong, George B., Cruaud, Corinne, and Hardy, Olivier J.
Abstract:: Background: DNA barcoding of rain forest trees could potentially help biologists identify species and discover new ones. However, DNA barcodes cannot always distinguish between closely related species, and the size and completeness of barcode databases are key parameters for their successful application. We test the ability of rbcL, matK and...
Resource Type:: Article
Full Text:: an tl y in th e ir b ar co d in g su cc e ss (% co rr e ct id e n ti fi ca ti o n , x 2 te st s

Circadian Regulation of Glutathione Levels and Biosynthesis in Drosophila melanogaster

Creator:: Beaver, Laura M., Klichko, Vladimir I., Chow, Eileen S., Kotwica-Rolinska, Joanna, Williamson, Marisa, Orr, William C., Radyuk, Svetlana N., and Giebultowicz, Jadwiga M.
Abstract:: Circadian clocks generate daily rhythms in neuronal, physiological, and metabolic functions. Previous studies in mammals reported daily fluctuations in levels of the major endogenous antioxidant, glutathione (GSH), but the molecular mechanisms that govern such fluctuations remained unknown. To address this question, we used the model species Drosophila, which has a...
Resource Type:: Article
Full Text:: 4: e6469. 14. Xu K, Zheng X, Sehgal A (2008) Regulation of feeding and metabolism by neuronal and

Clostridium difficile Spore-Macrophage Interactions: Spore Survival

Creator:: Paredes-Sabja, Daniel, Cofre-Araneda, Glenda, Brito-Silva, Christian, Pizarro-Guajardo, Marjorie, and Sarker, Mahfuzur R.
Abstract:: Background: Clostridium difficile is the main cause of nosocomial infections including antibiotic associated diarrhea, pseudomembranous colitis and toxic megacolon. During the course of Clostridium difficile infections (CDI), C. difficile undergoes sporulation and releases spores to the colonic environment. The elevated relapse rates of CDI suggest that C. difficile spores has...
Resource Type:: Article
Full Text:: permeabilized with 0.06% Triton X-100 in DPBS for 15 min at room temperature, rinsed three times with DPBS

ScholarsArchive@OSU

Length Bias Correction in Gene Ontology Enrichment Analysis Using Logistic Regression

Local Crop Planting Systems Enhance Insecticide-Mediated Displacement of Two Invasive Leafminer Fly

Does Temperature-Mediated Reproductive Success Drive the Direction of Species Displacement in Two Invasive Species of Leafminer Fly?

Regional Contingencies in the Relationship between Aboveground Biomass and Litter in the World’s Grasslands

Mechanistic Insights into Validoxylamine A 7’-Phosphate Synthesis by VldE Using the Structure of the Entire Product Complex

Positive Impact of Nutritional Interventions on Serum Symmetric Dimethylarginine and Creatinine Concentrations in Client-Owned Geriatric Dogs

Positive Impact of Nutritional Interventions on Serum Symmetric Dimethylarginine and Creatinine Concentrations in Client-Owned Geriatric Cats

How Effective Are DNA Barcodes in the Identification of African Rainforest Trees?

Circadian Regulation of Glutathione Levels and Biosynthesis in Drosophila melanogaster

Clostridium difficile Spore-Macrophage Interactions: Spore Survival

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