Now showing items 1-11 of 11

    • 9-Genes Reinforce the Phylogeny of Holometabola and Yield Alternate Views on the Phylogenetic Placement of Strepsiptera 

      McKenna, Duane D; Farrell, Brian Dorsey (Public Library of Science, 2010)
      Background: The extraordinary morphology, reproductive and developmental biology, and behavioral ecology of twisted wing parasites (order Strepsiptera) have puzzled biologists for centuries. Even today, the phylogenetic ...
    • The Case for Selection at CCR5-Δ32 

      Walsh, Emily; Schaffner, Steve F; Varilly, Patrick; Fry, Ben; Hutcheson, Holli B; Cullen, Mike; Mikkelsen, Tarjei S; Roy, Jessica; Patterson, Nick; Sabeti, Pardis Christine; Cooper, Richard; Reich, David Emil; Altshuler, David Matthew; O'Brien, Stephen James; Lander, Eric Steven (Public Library of Science, 2005)
      The C-C chemokine receptor 5, 32 base-pair deletion (CCR5-Δ32) allele confers strong resistance to infection by the AIDS virus HIV. Previous studies have suggested that CCR5-Δ32 arose within the past 1,000 y and rose to ...
    • Empirical Bayes Analysis of Quantitative Proteomics Experiments 

      Margolin, Adam A.; Ong, Shao-En; Schenone, Monica; Gould, Robert; Schreiber, Stuart L.; Carr, Steven A.; Golub, Todd R. (Public Library of Science, 2009)
      Background: Advances in mass spectrometry-based proteomics have enabled the incorporation of proteomic data into systems approaches to biology. However, development of analytical methods has lagged behind. Here we describe ...
    • Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains 

      Rheinbay, Esther; Endoh, Mitsuhiro; Mikkelsen, Tarjei S.; Nusbaum, Chad; Xie, Xiaohui; Adli, Mazhar; Kasif, Simon; Ptaszek, Leon M.; Koseki, Haruhiko; van Steensel, Bas; Ku, Manching; Koche, Richard Patrick; Mendenhall, Eric M; Presser, Aviva; Chi, Andrew S.; Cowan, Chad A.; Lander, Eric Steven; Bernstein, Bradley E. (Public Library of Science, 2008)
      In embryonic stem (ES) cells, bivalent chromatin domains with overlapping repressive (H3 lysine 27 tri-methylation) and activating (H3 lysine 4 tri-methylation) histone modifications mark the promoters of more than 2,000 ...
    • Genomic Hotspots for Adaptation: The Population Genetics of Müllerian Mimicry in the Heliconius melpomene Clade 

      Baxter, Simon W.; Nadeau, Nicola J.; Maroja, Luana S.; Wilkinson, Paul; Counterman, Brian A.; Dawson, Anna; Beltran, Margarita; Perez-Espona, Silvia; Ferguson, Laura; Davidson, Claire; Glithero, Rebecca; Mallet, James; Joron, Mathieu; ffrench-Constant, Richard H.; Jiggins, Chris D.; Chamberlain, Nicola L; Clark, Richard; McMillan, W. Owen; Kronforst, Marcus (Public Library of Science, 2010)
      Wing patterning in Heliconius butterflies is a longstanding example of both Müllerian mimicry and phenotypic radiation under strong natural selection. The loci controlling such patterns are “hotspots” for adaptive evolution ...
    • High-Resolution Mutation Mapping Reveals Parallel Experimental Evolution in Yeast 

      Segrè, Ayellet V; Murray, Andrew W.; Leu, Jun-Yi (Public Library of Science, 2006)
      Understanding the genetic basis of evolutionary adaptation is limited by our ability to efficiently identify the genomic locations of adaptive mutations. Here we describe a method that can quickly and precisely map the ...
    • ISEV position paper: extracellular vesicle RNA analysis and bioinformatics 

      Hill, Andrew F.; Pegtel, D. Michiel; Lambertz, Ulrike; Leonardi, Tommaso; O'Driscoll, Lorraine; Pluchino, Stefano; Ter-Ovanesyan, Dmitry; Nolte-‘t Hoen, Esther N.M. (Co-Action Publishing, 2013)
      Extracellular vesicles (EVs) are the collective term for the various vesicles that are released by cells into the extracellular space. Such vesicles include exosomes and microvesicles, which vary by their size and/or protein ...
    • Modeling Mitral Valve Leaflets from Three-Dimensional Ultrasound 

      Howe, Robert D.; Schneider, Robert J.; Burke, William Conroy; Marx, Gerald Ross; Del Nido, Pedro J. (Springer Science + Business Media, 2011)
      The geometry of the mitral leaflets, most commonly viewed using three-dimensional ultrasound, is an important input for mechanical models predicting valve closure. Current methods for leaflet modeling from ultrasound either ...
    • Molecular Basis of Filamin A-FilGAP Interaction and Its Impairment in Congenital Disorders Associated with Filamin A Mutations 

      Heikkinen, Outi; Pentikäinen, Olli T.; Kasza, Karen E.; Kupiainen, Olga; Permi, Perttu; Kilpeläinen, Ilkka; Ylänne, Jari; Nakamura, Fumihiko; Osborn, Teresia M.; Weitz, David A.; Hartwig, John Henry; Stossel, Thomas Peter (Public Library of Science, 2009)
      Background: Mutations in filamin A (FLNa), an essential cytoskeletal protein with multiple binding partners, cause developmental anomalies in humans. Methodology/principal findings: We determined the structure of the 23rd ...
    • Single-Nucleosome Mapping of Histone Modifications in S. cerevisiae 

      Liu, Chih Long; Kaplan, Tommy; Kim, Minkyu; Friedman, Nir; Rando, Oliver J; Buratowski, Stephen; Schreiber, Stuart L. (Public Library of Science, 2005)
      Covalent modification of histone proteins plays a role in virtually every process on eukaryotic DNA, from transcription to DNA repair. Many different residues can be covalently modified, and it has been suggested that these ...
    • A Src-Like Inactive Conformation in the Abl Tyrosine Kinase Domain 

      Levinson, Nicholas M; Kuchment, Olga; Shen, Kui; Young, Matthew A.; Koldobskiy, Michael; Karplus, Martin; Cole, Philip A; Kuriyan, John (Public Library of Science, 2006)
      The improper activation of the Abl tyrosine kinase results in chronic myeloid leukemia (CML). The recognition of an inactive conformation of Abl, in which a catalytically important Asp-Phe-Gly (DFG) motif is flipped by ...