Now showing items 170-189 of 501

    • Gene expression and isoform variation analysis using Affymetrix exon arrays 

      Bemmo, Amandine; Benovoy, David; Kwan, Tony; Gaffney, Daniel J; Jensen, Roderick V; Majewski, Jacek (2009-03-23)
      Correction to Bemmo A, Benovoy D, Kwan T, Gaffney DJ, Jensen RV, Majewski J: Gene expression and isoform variation analysis using Affymetrix Exon Arrays. BMC Genomics 2008, 9: 529.
    • Gene Expression and Isoform Variation Analysis using Affymetrix Exon Arrays 

      Bemmo, Amandine; Benovoy, David; Kwan, Tony; Gaffney, Daniel J; Jensen, Roderick V; Majewski, Jacek (2008-11-07)
      Background Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are ...
    • Gene Ontology annotation of the rice blast fungus, Magnaporthe oryzae 

      Meng, Shaowu; Brown, Douglas E; Ebbole, Daniel J; Torto-Alalibo, Trudy; Oh, Yeon Y; Deng, Jixin; Mitchell, Thomas K.; Dean, Ralph A (2009-02-19)
      Background Magnaporthe oryzae, the causal agent of blast disease of rice, is the most destructive disease of rice worldwide. The genome of this fungal pathogen has been sequenced and an automated annotation has recently ...
    • Gene regulatory network reveals oxidative stress as the underlying molecular mechanism of type 2 diabetes and hypertension 

      Jesmin; Rashid, Mahbubur SM; Jamil, Hasan; Hontecillas, Raquel; Bassaganya-Riera, Josep (2010-10-13)
      Background The prevalence of diabetes is increasing worldwide. It has been long known that increased rates of inflammatory diseases, such as obesity (OBS), hypertension (HT) and cardiovascular diseases (CVD) are highly ...
    • Gene Selection for Multiclass Prediction by Weighted Fisher Criterion 

      Xuan, Jianhua; Wang, Yue; Dong, Yibin; Feng, Yuanjian; Wang, Bin; Khan, Javed; Bakay, Maria; Wang, Zuyi; Pachman, Lauren; Winokur, Sara; Chen, Yi-Wen; Clarke, Robert; Hoffman, Eric (2007-07-10)
      Gene expression profiling has been widely used to study molecular signatures of many diseases and to develop molecular diagnostics for disease prediction. Gene selection, as an important step for improved diagnostics, ...
    • Genetic analysis of an F2 intercross between two chicken lines divergently selected for body-weight 

      Wahlberg, Per; Carlborg, Örjan; Foglio, Mario; Tordoir, Xavier; Syvänen, Ann-Christine; Lathrop, Mark; Gut, Ivo G; Siegel, Paul B.; Andersson, Leif (2009-05-27)
      Background We have performed Quantitative Trait Loci (QTL) analysis of an F2 intercross between two chicken lines divergently selected for juvenile body-weight. In a previous study 13 identified loci with effects on ...
    • Genetic analysis of production, physiological, and egg quality traits in heat-challenged commercial white egg-laying hens using 600k SNP array data 

      Rowland, Kaylee; Ashwell, Chris M.; Persia, Michael E.; Rothschild, Max F.; Schmidt, Carl; Lamont, Susan J. (2019-06-25)
      Abstract Background Heat stress negatively affects the welfare and production of chickens. High ambient temperature is considered one of the most ubiquitous abiotic environmental ...
    • Genetic diversity of Brucella ovis isolates from Rio Grande do Sul, Brazil, by MLVA16 

      Dorneles, Elaine Maria S.; Freire, Guilherme N; Dasso, Maurício G; Poester, Fernando P; Lage, Andrey P (2014-07-12)
      Background Ovine epididymitis is predominantly associated with Brucella ovis infection. Molecular characterization of Brucella spp. achieved by multi-locus variable number of tandem repeats (VNTR) analyses (MLVA) have ...
    • Genetic diversity of Plasmodium vivax in clinical isolates from Bangladesh 

      Kibria, Mohammad G; Elahi, Rubayet; Mohon, Abu N; Khan, Wasif A; Haque, Rashidul; Alam, Mohammad S (2015-07-11)
      Background Plasmodium vivax is the second most prevalent human malaria parasite in Bangladesh; however, there are no data of its genetic diversity. Several molecular markers are available where Pvcsp, Pvmsp 1 and Pvmsp 3α ...
    • Genetic stability of Brucella abortus isolates from an outbreak by multiple-locus variable-number tandem repeat analysis (MLVA16) 

      Dorneles, Elaine Maria S.; Santana, Jordana A; Alves, Telma M; Pauletti, Rebeca B; Mol, Juliana Pinto da Silva; Heinemann, Marcos B; Lage, Andrey P (2014-07-11)
      Background Brucellosis caused by Brucella abortus is one of the most important zoonoses in the world. Multiple-locus variable-number tandem repeat analysis (MLVA16) has been shown be a useful tool to epidemiological traceback ...
    • Genetic variants in root architecture-related genes in a Glycine soja accession, a potential resource to improve cultivated soybean 

      Prince, Silvas J.; Li, Song; Qiu, Dan; Maldonado dos Santos, Joao V.; Chai, Chenglin; Joshi, Trupti; Patil, Gunvant; Valliyodan, Babu; Vuong, Tri D.; Murphy, Mackensie; Krampis, Konstantinos; Tucker, Dominic M.; Biyashev, Ruslan; Dorrance, Anne E.; Maroof, M. A. Saghai; Xu, Dong; Shannon, J. G.; Nguyen, Henry T. (2015-02-25)
      Background Root system architecture is important for water acquisition and nutrient acquisition for all crops. In soybean breeding programs, wild soybean alleles have been used successfully to enhance yield and seed ...
    • Genome analysis of a major urban malaria vector mosquito, Anopheles stephensi 

      Jiang, X.; Peery, A.; Hall, B.; Sharma, A.; Chen, X-G.; Waterhouse, R. M.; Komissarov, A.; Riehle, M. M.; Shouche, Y; Sharakhova, Maria V.; Lawson, D.; Pakpour, Nazzy; Arensburger, P.; Davidson, V. L. M.; Eiglmeier, K.; Emrich, S.; George, P.; Kennedy, R. C.; Mane, S. P.; Maslen, G.; Oringanje, C.; Qi, Y.; Settlage, R.; Tojo, M.; Tubio, J. M. C.; Unger, M. F.; Wang, B.; Vernick, K. D.; Ribeiro, J. C.; James, A. A.; Michel, K.; Riehle, M. A.; Luckhart, Shirley; Sharakhov, Igor V.; Tu, Zhijian (Biomed Central Ltd, 2014-01-01)
      Background: Anopheles stephensi is the key vector of malaria throughout the Indian subcontinent and Middle East and an emerging model for molecular and genetic studies of mosquito-parasite interactions. The type form of ...
    • Genome mapping and characterization of the Anopheles gambiae heterochromatin 

      Sharakhova, Maria V.; George, Phillip; Brusentsova, Irina V.; Leman, Scotland C.; Bailey, Jeffrey A.; Smith, Christopher D.; Sharakhov, Igor V. (Biomed Central Ltd, 2010-08-04)
      Background Heterochromatin plays an important role in chromosome function and gene regulation. Despite the availability of polytene chromosomes and genome sequence, the heterochromatin of the major malaria vector Anopheles ...
    • The Genome Reverse Compiler: an explorative annotation tool 

      Warren, Andrew S.; Setubal, João C. (2009-01-27)
      Background As sequencing costs have decreased, whole genome sequencing has become a viable and integral part of biological laboratory research. However, the tools with which genes can be found and functionally characterized ...
    • Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire 

      Lévesque, C. A.; Brouwer, Henk; Cano, Liliana; Hamilton, John P.; Holt, Carson; Huitema, Edgar; Raffaele, Sylvain; Robideau, Gregg P.; Thines, Marco; Win, Joe; Zerillo, Marcelo M.; Beakes, Gordon W.; Boore, Jeffrey L.; Busam, Dana; Dumas, Bernard; Ferriera, Steve; Fuerstenberg, Susan I.; Gachon, Claire M.; Gaulin, Elodie; Govers, Francine; Grenville-Briggs, Laura; Horner, Neil; Hostetler, Jessica; Jiang, Rays H.; Johnson, Justin; Krajaejun, Theerapong; Lin, Haining; Meijer, Harold J.; Moore, Barry; Morris, Paul; Phuntmart, Vipaporn; Puiu, Daniela; Shetty, Jyoti; Stajich, Jason E.; Tripathy, Sucheta; Wawra, Stephan; van West, Pieter; Whitty, Brett R.; Coutinho, Pedro M.; Henrissat, Bernard; Martin, Frank; Thomas, Paul D.; Tyler, Brett M; De Vries, Ronald P.; Kamoun, Sophien; Yandell, Mark; Tisserat, Ned; Buell, C. Robin (2010-07-13)
      Background Pythium ultimum is a ubiquitous oomycete plant pathogen responsible for a variety of diseases on a broad range of crop and ornamental species. Results The P. ultimum genome (42.8 Mb) encodes 15,290 genes and ...
    • Genome-scale modeling using flux ratio constraints to enable metabolic engineering of clostridial metabolism in silico 

      McAnulty, Michael J; Yen, Jiun Y; Freedman, Benjamin G; Senger, Ryan S (2012-05-14)
      Background Genome-scale metabolic networks and flux models are an effective platform for linking an organism genotype to its phenotype. However, few modeling approaches offer predictive capabilities to evaluate potential ...
    • Genome-wide analysis of Aux/IAA and ARF gene families in Populus trichocarpa 

      Kalluri, Udaya C; DiFazio, Stephen P; Brunner, Amy M.; Tuskan, Gerald A (2007-11-06)
      Background Auxin/Indole-3-Acetic Acid (Aux/IAA) and Auxin Response Factor (ARF) transcription factors are key regulators of auxin responses in plants. We identified the suites of genes in the two gene families in Populus ...
    • Genome-wide identification of significant aberrations in cancer genome 

      Yuan, Xiguo; Yu, Guoqiang; Hou, Xuchu; Shih, Ie-Ming; Clarke, Robert; Zhang, Junying; Hoffman, Eric P; Wang, Roger R; Zhang, Zhen; Wang, Yue (2012-07-27)
      Background Somatic Copy Number Alterations (CNAs) in human genomes are present in almost all human cancers. Systematic efforts to characterize such structural variants must effectively distinguish significant consensus ...
    • Genome-wide standing variation facilitates long-term response to bidirectional selection for antibody response in chickens 

      Lillie, Mette; Sheng, Zheya; Honaker, Christa F.; Dorshorst, Ben J.; Ashwell, Christopher M.; Siegel, Paul B.; Carlborg, Örjan (2017-01-18)
      Abstract Background Long-term selection experiments provide a powerful approach to gain empirical insights into adaptation, allowing researchers to uncover the targets of ...
    • Genome-wide transcriptome analyses of developing seeds from low and normal phytic acid soybean lines 

      Redekar, Neelam R.; Biyashev, Ruslan M.; Jensen, Roderick V.; Helm, Richard F.; Grabau, Elizabeth A.; Maroof, M. A. Saghai (2015-12-18)
      Background Low phytic acid (lpa) crops are potentially eco-friendly alternative to conventional normal phytic acid (PA) crops, improving mineral bioavailability in monogastric animals as well as decreasing phosphate ...