Index Catalog // ScholarsArchive@OSU

Gramene 2016: comparative plant genomics and pathway resources

Creator:: Tello-Ruiz, Marcela K., Stein, Joshua, Wei, Sharon, Preece, Justin, Olson, Andrew, Naithani, Sushma, Amarasinghe, Vindhya, Dharmawardhana, Palitha, Jiao, Yinping, Mulvaney, Joseph, Kumari, Sunita, Chougule, Kapeel, Elser, Justin, Wang, Bo, Thomason, James, Bolser, Daniel M., Kerhornou, Arnaud, Walts, Brandon, Fonseca, Nuno A., Huerta, Laura, Keays, Maria, Tanga, Y. Amy, Parkinson, Helen, Fabregat, Antonio, McKay, Sheldon, Weiser, Joel, D'Eustachio, Peter, Stein, Lincoln, Petryszak, Robert, Kersey, Paul J., Jaiswal, Pankaj, and Ware, Doreen
Abstract:: Gramene (http://www.gramene.org) is an online resource for comparative functional genomics in crops and model plant species. Its two main frameworks are genomes (collaboration with Ensembl Plants) and pathways (The Plant Reactome and archival BioCyc databases). Since our last NAR update, the database website adopted a new Drupal management platform. The...
Resource Type:: Article

The Role of Arabidopsis RNA-Dependent RNA Polymerase Genes 3, 4 and 5 in Antiviral Defense

Creator:: Lowery, Nicholas C.
Abstract:: RNA silencing plays a critical role in plant defense against viral infection. Plants use virusderived small interfering RNA to target and silence invading viruses. The antiviral silencing pathway can be broken down into three conceptual stages: initiation, amplification, and systemic movement. The molecular mechanisms of silencing initiation are not well...
Resource Type:: Honors College Thesis
Full Text:: -Ruiz H., A. Takeda, E. J. Chapman, C. M. Sullivan, N. Fahlgren, K. J. Brempelis, and J. C. Carrington

AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture

Creator:: Harper, Lisa, Campbell, Jacqueline, Cannon, Steve, Carson, James, Condon, Bradford, Cooper, Laurel, Dunn, Nathan, Elsik, Christine G., Farmer, Andrew, Ficklin, Stephen P., Grant, David, Grau, Emily, Cannon, Ethalinda K. S., Herndon, Nic, Hu, Zhi-Liang, Humann, Jodi, Jaiswal, Pankaj, Jonquet, Clement, Laporte, Marie-Angelique, Larmande, Pierre, Lazo, Gerard, McCarthy, Fiona, Menda, Naama, Jung, Sook, Mungall, Christopher J., Munoz-Torres, Monica C., Naithani, Sushma, Nelson, Rex, Nesdill, Daureen, Park, Carissa, Reecy, James, Reiser, Leonore, Sanderson, Lacey-Anne, Sen, Taner Z., Poelchau, Monica, Staton, Margaret, Subramaniam, Sabarinath, Tello-Ruiz, Marcela Karey, Unda, Victor, Unni, Deepak, Wang, Liya, Ware, Doreen, Wegrzyn, Jill, Williams, Jason, Woodhouse, Margaret, Walls, Ramona, Yu, Jing, Main, Doreen, Andorf, Carson, Arnaud, Elizabeth, Berardini, Tanya Z., and Birkett, Clayton
Abstract:: The future of agricultural research depends on data. The sheer volume of agricultural biological data being produced today makes excellent data management essential. Governmental agencies, publishers and science funders require datamanagement plans for publicly funded research. Furthermore, the value of data increases exponentially when they are properly stored, described, integrated...
Resource Type:: Article
Full Text:: , Taner Z. Sen19, Margaret Staton10, Sabarinath Subramaniam7, Marcela Karey Tello-Ruiz25, Victor Unda3

A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress

Creator:: Dharmawardhana, Palitha, Ren, Liya, Amarasinghe, Vindhya, Monaco, Marcela, Thomason, Jim, Ravenscroft, Dean, McCouch, Susan, Ware, Doreen, and Jaiswal, Pankaj
Abstract:: Background: Functional annotations of large plant genome projects mostly provide information on gene function and gene families based on the presence of protein domains and gene homology, but not necessarily in association with gene expression or metabolic and regulatory networks. These additional annotations are necessary to understand the physiology, development...
Resource Type:: Article
Full Text:: regulation under biotic stress Palitha Dharmawardhana1, Liya Ren2, Vindhya Amarasinghe1, Marcela Monaco2, Jim

Measurement of K⁺ production in charged-current ν[subscript]μ interactions

Creator:: Marshall, C. M., Aliaga, L., Altinok, O., Bellantoni, L., Bercellie, A., Betancourt, M., Bodek, A., Bravar, A., Budd, H., Cai, T., Carneiro, M. F., Chvojka, J., da Motta, H., Devan, J., Dytman, S. A., Díaz, G. A., Eberly, B., Endress, E., Felix, J., Fields, L., Filkins, A., Fine, R., Gago, A. M., Galindo, R., Gallagher, H., Ghosh, A., Golan, T., Gran, R., Griswold, S., Harris, D. A., Higuera, A., Hurtado, K., Kiveni, M., Kleykamp, J., Kordosky, M., Le, T., Maher, E., Majoros, I., Manly, S., Mann, W. A., Martinez Caicedo, D. A., McFarland, K. S., McGivern, C. L., McGowan, A. M., Messerly, B., Miller, J., Mislivec, A., Morfín, J. G., Mousseau, J., Naples, D., Nelson, J. K., Norrick, A., Nuruzzaman, Osta, J., Paolone, V., Park, J., Patrick, C. E., Perdue, G. N., Rakotondravohitra, L., Ramirez, M. A., Ransome, R. D., Ray, H., Ren, L., Rimal, D., Rodrigues, P. A., Rosenberg, M., Ruterbories, D., Schellman, H., Schmitz, D. W., Shadler, L. A., Simon, C., Solano Salinas, C. J., Sánchez, S. F., Tice, B. G., Valencia, E., Walton, T., Wang, Z., Watkins, P., Wiley, K., Wolcott, J., Wospakrik, M., Zhang, D., and MINERvA Collaboration
Abstract:: Production of Kþ mesons in charged-current νμ interactions on plastic scintillator (CH) is measured using MINERvA exposed to the low-energy NuMI beam at Fermilab. Timing information is used to isolate a sample of 885 charged-current events containing a stopping Kþ which decays at rest. The differential cross section in Kþ...
Resource Type:: Article
Full Text:: . Higuera,1,9,† K. Hurtado,7,13 M. Kiveni,5 J. Kleykamp,1 M. Kordosky,2 T. Le,4,14 E. Maher,15 I. Majoros

Maize Metabolic Network Construction and Transcriptome Analysis

Creator:: Monaco, Marcela K., Sen, Taner Z., Dharmawardhana, Palitha D., Ren, Liya, Schaeffer, Mary, Naithani, Sushma, Amarasinghe, Vindhya, Thomason, Jim, Harper, Lisa, Gardiner, Jack, Cannon, Ethalinda K.S., Lawrence, Carolyn J., Ware, Doreen, and Jaiswal, Pankaj
Abstract:: A framework for understanding the synthesis and catalysis of metabolites and other biochemicals by proteins is crucial for unraveling the physiology of cells. To create such a framework for Zea mays L. subsp. mays (maize), we developed MaizeCyc, a metabolic network of enzyme catalysts, proteins, carbohydrates, lipids, amino acids, secondary...
Resource Type:: Article
Full Text:: Marcela K. Monaco, Taner Z. Sen, Palitha D. Dharmawardhana, Liya Ren, Mary Schaeffer, Sushma Naithani

Gramene 2013: comparative plant genomics resources

Creator:: Monaco, Marcela K., Stein, Joshua, Naithani, Sushma, Wei, Sharon, Dharmawardhana, Palitha, Kumari, Sunita, Amarasinghe, Vindhya, Youens-Clark, Ken, Thomason, James, Preece, Justin, Pasternak, Shiran, Olson, Andrew, Jiao, Yinping, Lu, Zhenyuan, Bolser, Dan, Kerhornou, Arnaud, Staines, Dan, Walts, Brandon, Wu, Guanming, D'Eustachio, Peter, Haw, Robin, Croft, David, Kersey, Paul J., Stein, Lincoln, Jaiswal, Pankaj, and Ware, Doreen
Abstract:: Gramene (http://www.gramene.org) is a curated online resource for comparative functional genomics in crops and model plant species, currently hosting 27 fully and 10 partially sequenced reference genomes in its build number 38. Its strength derives from the application of a phylogenetic framework for genome comparison and the use of ontologies...
Resource Type:: Article

Is platelet rich plasma (PRP) the other alternative? A review and current research

Creator:: Ho, Louisa K. K.
Abstract:: Platelet-rich plasma (PRP) has been applied as a hemostatic agent since the 1970s, and a potent source of autologous growth factors since the 1990s. PRP is rich in growth factors such as platelet derived growth factor (PDGF), vascular endothelial growth factor (VEGF), transforming growth factor-β (TGF-β), fibroblast growth factor (FGF)...
Resource Type:: Masters Thesis

Development of a singulation device for stonefly larva

Creator:: Williams, Kate S. (Kate Shreeve)
Abstract:: Population counts of aquatic insects can be a credible indicator of the overall health of a waterway. Stonefly (Plecoptera) larva are very sensitive to chemicals present within the waterway, however obtaining population counts of the larvae can be very labor intensive and thus costly. The BugID project has been working...
Resource Type:: Masters Thesis
Full Text:: : ______________________________________________ Robert K. Paasch Population counts of aquatic insects can be a credible indicator of the

The Case for Remote Monitoring: Evidence from Kenya

Creator:: Dunn, Zachary A.
Abstract:: International development projects aimed at alleviating poverty often fall short when it comes to capacity for operation and maintenance. As a case in point, today it is estimated one-third of all African wells have fallen into disrepair due to lack of effective management, corresponding to as many as 250,000 broken...
Resource Type:: Capstone Project
Full Text:: Monitoring: Evidence from Kenya Abstract approved: Sally K. Gallagher International development projects

ScholarsArchive@OSU

Gramene 2016: comparative plant genomics and pathway resources

The Role of Arabidopsis RNA-Dependent RNA Polymerase Genes 3, 4 and 5 in Antiviral Defense

AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture

A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress

Measurement of K⁺ production in charged-current ν[subscript]μ interactions

Maize Metabolic Network Construction and Transcriptome Analysis

Gramene 2013: comparative plant genomics resources

Is platelet rich plasma (PRP) the other alternative? A review and current research

Development of a singulation device for stonefly larva

The Case for Remote Monitoring: Evidence from Kenya

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