Index Catalog // ScholarsArchive@OSU

Gramene: a resource for comparative grass genomics

Creator:: Ware, Doreen, Jaiswal, Pankaj, Ni, Junjian, Pan, Xiaokang, Chang, Kuan, Clark, Kenneth, Teytelman, Leonid, Schmidt, Steve, Zhao, Wei, Cartinhour, Samuel, McCouch, Susan, and Stein, Lincoln
Abstract:: Gramene (http://www.gramene.org) is a comparative genome mapping database for grasses and a community resource for rice. Rice, in addition to being an economically important crop, is also a model monocot for understanding other agronomically important grass genomes. Gramene replaces the existing AceDB database ‘RiceGenes’ with a relational database based on...
Resource Type:: Article
Full Text:: Acids Research, 2002, Vol. 30, No. 1 103–105 Gramene: a resource for comparative grass genomics Doreen

Gramene: a growing plant comparative genomics resource

Creator:: Liang, Chengzhi, Jaiswal, Pankaj, Hebbard, Claire, Avraham, Shuly, Buckler, Edward S., Casstevens, Terry, Hurwitz, Bonnie, McCouch, Susan, Ni, Junjian, Pujar, Anuradha, Ravenscroft, Dean, Ren, Liya, Spooner, William, Tecle, Isaak, Thomason, Jim, Tung, Chih-wei, Wei, Xuehong, Yap, Immanuel, Youens-Clark, Ken, Ware, Doreen, and Stein, Lincoln
Abstract:: Gramene (www.gramene.org) is a curated resource for genetic, genomic and comparative genomics data for the major crop species, including rice, maize, wheat and many other plant (mainly grass) species. Gramene is an open-source project. All data and software are freely downloadable through the ftp site (ftp.gramene.org/pub/gramene) and available for use...
Resource Type:: Article
Full Text:: and to develop genetic and physical marker resources. To fully utilize the existing genome annotations

Wind farm potential is higher in prime habitat for uncommon soil crust lichens

Creator:: Root, Heather T., McCune, Myrica, and McCune, Bruce
Abstract:: Introduction: Biotic soil crust communities contribute valuable ecosystem services and biodiversity in steppe ecosystems. The uncommon crust lichens Acarospora schleicheri, Fuscopannaria cyanolepra, Rhizocarpon diploschistidina, and Texosporium sancti-jacobi are associated with fine-textured soils along rivers of the Columbia Basin. A. schleicheri and R. diploschistidina indicate late-successional habitat and may serve as...
Resource Type:: Article
Full Text:: species. However, as these renewable energy resources are developed, we have the opportunity to ensure

Gramene database in 2010: updates and extensions

Creator:: Youens-Clark, Ken, Buckler, Ed, Casstevens, Terry, Chen, Charles, DeClerck, Genevieve, Derwent, Paul, Dharmawardhana, Palitha, Jaiswal, Pankaj, Kersey, Paul, Karthikeyan, A. S., Lu, Jerry, McCouch, Susan R., Ren, Liya, Spooner, William, Stein, Joshua C., Thomason, Jim, Wei, Sharon, and Ware, Doreen
Abstract:: Now in its 10th year, the Gramene database (http://www.gramene.org) has grown from its primary focus on rice, the first fully-sequenced grass genome, to become a resource for major model and crop plants including Arabidopsis, Brachypodium, maize, sorghum, poplar and grape in addition to several species of rice. Gramene began with...
Resource Type:: Article
Full Text:: resource for major model and crop plants including Arabidopsis, Brachypodium, maize, sorghum, poplar and

Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR

Creator:: Van Auken, Kimberly, Fey, Petra, Berardini, Tanya Z., Dodson, Robert, Cooper, Laurel, Li, Donghui, Chan, Juancarlos, Li, Yuling, Basu, Siddhartha, Muller, Hans-Michael, Chisholm, Rex, Huala, Eva, Sternberg, Paul W., and WormBase Consortium
Abstract:: WormBase, dictyBase and The Arabidopsis Information Resource (TAIR) are model organism databases containing information about Caenorhabditis elegans and other nematodes, the social amoeba Dictyostelium discoideum and related Dictyostelids and the flowering plant Arabidopsis thaliana, respectively. Each database curates multiple data types from the primary research literature. In this article, we...
Resource Type:: Article
Full Text:: ............................................................................................................................................................................................................................................................................................. WormBase, dictyBase and The Arabidopsis Information Resource (TAIR) are model organism databases containing

QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice

Creator:: Smita, Shuchi, Lenka, Sangram Keshari, Katiyar, Amit, Jaiswal, Pankaj, Preece, Justin, and Bansal, Kailash Chander
Abstract:: The QlicRice database is designed to host publicly accessible, abiotic stress responsive quantitative trait loci (QTLs) in rice (Oryza sativa) and their corresponding sequenced gene loci. It provides a platform for the data mining of abiotic stress responsive QTLs, as well as browsing and annotating associated traits, their location on...
Resource Type:: Article
Full Text:: Resources (NBPGR), IARI Campus, New Delhi 110012, India *Corresponding author: +91 11 25843697; Fax: +91 11

Sequence verification of synthetic DNA by assembly of sequencing reads

Creator:: Wilson, Mandy L., Cai, Yizhi, Hanlon, Regina, Taylor, Samantha, Chevreux, Bastien, Setubal, João C., Tyler, Brett M., and Peccoud, Jean
Abstract:: Gene synthesis attempts to assemble user-defined DNA sequences with base-level precision. Verifying the sequences of construction intermediates and the final product of a gene synthesis project is a critical part of the workflow, yet one that has received the least attention. Sequence validation is equally important for other kinds of...
Resource Type:: Article
Full Text:: equally important for other kinds of curated clone collections. Ensuring that the physical sequence of a

Detecting continuous lichen abundance for mapping winter caribou forage at landscape spatial scales

Creator:: Nelson, Peter R., Roland, Carl, Macander, Matthew J., and McCune, Bruce
Abstract:: Spatial variation of available food resources can be difficult to accurately quantify for wide ranging organisms at landscape scales. Lichens with usnic acid, a yellowish pigment, constitute a large portion of caribou winter diet across much of their range. We take a new approach of modeling lichen abundances by capitalizing...
Resource Type:: Article
Full Text:: acid Spectral Rangifer tarandus Forage Mapping Landsat 7 Spatial variation of available food resources

Finding Our Way through Phenotypes

Creator:: Deans, Andrew R., Lewis, Suzanna E., Huala, Eva, Anzaldo, Salvatore S., Ashburner, Michael, Balhoff, James P., Blackburn, David C., Blake, Judith A., Burleigh, J. Gordon, Chanet, Bruno, Cooper, Lauren D., Courtot, Mélanie, Csösz, Sándor, Cul, Hong, Dahdul, Wasila, Das, Sandip, Dececchi, T. Alexander, Dettal, Agnes, Diogo, Rui, Druzinsky, Robert E., Dumontier, Michel, Franz, Nico M., Friedrich, Frank, Gkoutos, George V., Haendel, Melissa, Harmon, Luke J., Hayamizu, Terry F., He, Yongqun, Hines, Heather M., Ibrahim, Nizar, Jackson, Laura M., Jaiswal, Pankaj, James-Zorn, Christina, Köhler, Sebastian, Lecointre, Guillaume, Lapp, Hilmar, Lawrence, Carolyn J., Le Novère, Nicolas, Lundberg, John G., Macklin, James, Mast, Austin R., Midford, Peter E., Mikó, István, Mungall, Christopher J., Oellrich, Anika, Osumi-Sutherland, David, Parkinson, Helen, Ramírez, Martín J., Richter, Stefan, Robinson, Peter N., Ruttenberg, Alan, Schulz, Katja S., Segerdell, Erik, Seltmann, Katja C., Sharkey, Michael J., Smith, Aaron D., Smith, Barry, Specht, Chelsea D., Squires, R. Burke, Thacker, Robert W., Thessen, Anne, Fernandez-Triana, Jose, Vihinen, Mauno, Vize, Peter D., Vogt, Lars, Wall, Christine E., Walls, Ramona L., Westerfeld, Monte, Wharton, Robert A., Wirkner, Christian S., Woolley, James B., Yoder, Matthew J., Zorn, Aaron M., and Mabee, Paula
Abstract:: Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human- and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bottleneck to integration across...
Resource Type:: Article
Full Text:: of Information Resources and Library Science, University of Arizona, Tucson, Arizona, United States

Annual cycles of ecological disturbance and recovery underlying the subarctic Atlantic spring plankton bloom

Creator:: Behrenfeld, Michael J., Doney, Scott C., Lima, Ivan, Boss, Emmanuel S., and Siegel, David A.
Abstract:: Satellite measurements allow global assessments of phytoplankton concentrations and, from observed temporal changes in biomass, direct access to net biomass accumulation rates (r). For the subarctic Atlantic basin, analysis of annual cycles in r reveals that initiation of the annual blooming phase does not occur in spring after stratification surpasses...
Resource Type:: Article
Full Text:: early onset time for the blooming phase, that this initiation is largely due to the physical disruption

ScholarsArchive@OSU

Gramene: a resource for comparative grass genomics

Gramene: a growing plant comparative genomics resource

Wind farm potential is higher in prime habitat for uncommon soil crust lichens

Gramene database in 2010: updates and extensions

Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR

QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice

Sequence verification of synthetic DNA by assembly of sequencing reads

Detecting continuous lichen abundance for mapping winter caribou forage at landscape spatial scales

Finding Our Way through Phenotypes

Annual cycles of ecological disturbance and recovery underlying the subarctic Atlantic spring plankton bloom

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