Browsing ENG: Biomedical Engineering: Scholarly Papers by Title

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Browsing ENG: Biomedical Engineering: Scholarly Papers by Title

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  • Wesson, Daniel W; Carey, Ryan M; Verhagen, Justus V; Wachowiak, Matt (Public Library of Science, 2008-4-8)
    To gain insight into which parameters of neural activity are important in shaping the perception of odors, we combined a behavioral measure of odor perception with optical imaging of odor representations at the level of ...
  • Sebastiani, Paola; Montano, Monty; Puca, Annibale; Solovieff, Nadia; Kojima, Toshio; Wang, Meng C.; Melista, Efthymia; Meltzer, Micah; Fischer, Sylvia E. J.; Andersen, Stacy; Hartley, Stephen H.; Sedgewick, Amanda; Arai, Yasumichi; Bergman, Aviv; Barzilai, Nir; Terry, Dellara F.; Riva, Alberto; Anselmi, Chiara Viviani; Malovini, Alberto; Kitamoto, Aya; Sawabe, Motoji; Arai, Tomio; Gondo, Yasuyuki; Steinberg, Martin H.; Hirose, Nobuyoshi; Atzmon, Gil; Ruvkun, Gary; Baldwin, Clinton T.; Perls, Thomas T. (Public Library of Science, 2009-12-14)
    BACKGROUND. The strong familiality of living to extreme ages suggests that human longevity is genetically regulated. The majority of genes found thus far to be associated with longevity primarily function in lipoprotein ...
  • Dotan-Cohen, Dikla; Kasif, Simon; Melkman, Avraham A. (Oxford University Press, 2009-6-3)
    Motivation: There is a growing interest in improving the cluster analysis of expression data by incorporating into it prior knowledge, such as the Gene Ontology (GO) annotations of genes, in order to improve the biological ...
  • Zheng, Yu; Roberts, Richard J; Kasif, Simon (Public Library of Science, 2004-4-13)
    Genomic sequence variation is the hallmark of life and is key to understanding diversity and adaptation among the numerous microorganisms on earth. Analysis of the sequenced microbial genomes suggests that genes are evolving ...
  • Hu, Zhenjun; Frith, Martin; Niu, Tianhua; Weng, Zhiping (BioMed Central, 2003-1-4)
    BACKGROUND. Many readers will sympathize with the following story. You are viewing a gene sequence in Entrez, and you want to find whether it contains a particular sequence motif. You reach for the browser's "find in page" ...
  • Orsi, Renato H; Borowsky, Mark L; Lauer, Peter; Young, Sarah K; Nusbaum, Chad; Galagan, James E; Birren, Bruce W; Ivy, Reid A; Sun, Qi; Graves, Lewis M; Swaminathan, Bala; Wiedmann, Martin (BioMed Central, 2008-11-13)
    BACKGROUND: While increasing data on bacterial evolution in controlled environments are available, our understanding of bacterial genome evolution in natural environments is limited. We thus performed full genome analyses ...
  • Wang, Xuewei; Wu, Ming; Li, Zheng; Chan, Christina (BioMed Central, 2008-7-7)
    The detection and analysis of steady-state gene expression has become routine. Time-series microarrays are of growing interest to systems biologists for deciphering the dynamic nature and complex regulation of biosystems. ...
  • Shah, Vishal; Sridhar, Sriram; Beane, Jennifer; Brody, Jerome S.; Spira, Avrum (2005-01-01)
    The SIEGE (Smoking Induced Epithelial Gene Expression) database is a clinical resource for compiling and analyzing gene expression data from epithelial cells of the human intra-thoracic airway. This ...
  • Riehl, William J.; Krapivsky, Paul L.; Redner, Sidney; Segrè, Daniel (Public Library of Science, 2010-4-1)
    Metabolic networks perform some of the most fundamental functions in living cells, including energy transduction and building block biosynthesis. While these are the best characterized networks in living systems, understanding ...
  • Hayete, Boris; Gardner, Timothy S; Collins, James J (2007-02-13)
  • Yanai, Itai; DeLisi, Charles (BioMed Central, 2002-10-25)
    Comparative genomics provides at least three methods for identifying functional links between genes: examination of phylogenetic distributions, analysis of conserved proximity and observations of fusions of genes into a ...
  • Oşan, Remus; Zhu, Liping; Shoham, Shy; Tsien, Joe Z. (Public Library of Science, 2007-5-2)
    Recent advances in large-scale ensemble recordings allow monitoring of activity patterns of several hundreds of neurons in freely behaving animals. The emergence of such high-dimensional datasets poses challenges for the ...
  • Plasterer, Thomas N; Smith, Temple F; Mohr, Scott C (BioMed Central, 2001-06-01)
    BACKGROUND. We have constructed Bayesian prior-based, amino-acid sequence profiles for the complete yeast mitochondrial proteome and used them to develop methods for identifying and characterizing the context of protein ...
  • Li, Zheng; Chan, Christina (BioMed Central, 2009-3-10)
    Drug-induced liver toxicity is one of the leading causes of acute liver failure in the United States, exceeding all other causes combined. The objective of this paper is to describe systems biology methods for identifying ...
  • Reddy, T. B. K.; Riley, Robert; Wymore, Farrell; Montgomery, Phillip; DeCaprio, Dave; Engels, Reinhard; Gellesch, Marcel; Hubble, Jeremy; Jen, Dennis; Jin, Heng; Koehrsen, Michael; Larson, Lisa; Mao, Maria; Nitzberg, Michael; Sisk, Peter; Stolte, Christian; Weiner, Brian; White, Jared; Zachariah, Zachariah K.; Sherlock, Gavin; Galagan, James E.; Ball, Catherine A.; Schoolnik, Gary K. (Nucleic Acids Research, 2009-1)
    The effective control of tuberculosis (TB) has been thwarted by the need for prolonged, complex and potentially toxic drug regimens, by reliance on an inefficient vaccine and by the absence of biomarkers of clinical status. ...
  • Gustafson, Adam M; Snitkin, Evan S; Parker, Stephen CJ; DeLisi, Charles; Kasif, Simon (BioMed Central, 2006-10-19)
    BACKGROUND: The identification of genes essential for survival is of theoretical importance in the understanding of the minimal requirements for cellular life, and of practical importance in the identification of potential ...
  • Bais, Manish; McLean, Jody; Sebastiani, Paola; Young, Megan; Wigner, Nathan; Smith, Temple; Kotton, Darrell N.; Einhorn, Thomas A.; Gerstenfeld, Louis C. (Public Library of Science, 2009-5-5)
    Fractures are among the most common human traumas. Fracture healing represents a unique temporarily definable post-natal process in which to study the complex interactions of multiple molecular events that regulate ...
  • Peterson, Matthew W; Colosimo, Marc E (BioMed Central, 2007-10-31)
    BACKGROUND. Phylogenetic trees are widely used to visualize evolutionary relationships between different organisms or samples of the same organism. There exists a variety of both free and commercial tree visualization ...
  • Cui, Jike; Das, Suchismita; Smith, Temple F.; Samuelson, John (Public Library of Science, 2010-8-3)
    BACKGROUND. Trichomonas vaginalis has an unusually large genome (∼160 Mb) encoding ∼60,000 proteins. With the goal of beginning to understand why some Trichomonas genes are present in so many copies, we characterized here ...
  • Murphy, Kevin F.; Adams, Rhys M.; Wang, Xiao; Balázsi, Gábor; Collins, James J. (Oxford University Press, 2010-03-08)
    Synthetic gene networks can be used to control gene expression and cellular phenotypes in a variety of applications. In many instances, however, such networks can behave unreliably due to gene expression noise. Accordingly, ...

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