282,085 research outputs found
Detection of large sequence insertions by a hybrid approach that combine de novo assembly and resequencing of medium-coverage genome sequences
No full textLarge sequence insertion (LSI) is one of the structural variations (SVs) that may cause phenotypic differences in plants. To identify the LSIs using medium-coverage sequencing data of four wild soybean (Glycine soja) genotypes, we designed a hybrid approach combining de novo assembly and read mapping. Total reads and reads with both ends unmapped were independently assembled into “ordinary contigs” and “orphan contigs”, respectively, and subjected to pairwise alignment and stringent filtering. This approach predicted 24 LSIs averaging 2,682 bp in size, with no overlap with SVs detected by Pindel, BreakDancer, or ScanIndel, and they were validated by PCR. Compared with the soybean (Glycine max) reference genome, 20 LSIs were located outside genic regions. One of the four LSIs within a genic region, LSI05, is located in the coding DNA sequence region of a protein kinase superfamily gene (Glyma.08G123500). It caused delayed translation initiation and loss of 24 amino acids in the wild soybean genotype CW12. LSI05 was more frequently observed in 29 G. soja accessions than in 34 G. max accessions. Identified LSIs would be genomic resources harboring novel gene contents for studying SVs and improving crops. Moreover, our cost-efficient approach may be applicable to other plant species.The accepted manuscript in pdf format is listed with the files at the bottom of this page. The presentation of the authors' names and (or) special characters in the title of the manuscript may differ slightly between what is listed on this page and what is listed in the pdf file of the accepted manuscript; that in the pdf file of the accepted manuscript is what was submitted by the author
HA-protomer movement and mutagenesis.
No full textEach H7.5 Fab was found to recognize a primary epitope on one HA1 subunit and a second smaller region on an adjacent HA1 subunit. (A) The variable domain of one H7.5 Fab is shown as a purple surface for the heavy chain and as a light purple surface for the light chain. The HA1 subunit primarily recognized by H7.5 Fab is shown as a dark green surface, with the epitope surface color in orange (surface 1). The adjacent subunit that is also contacted by the same Fab was colored in light green, with the epitope region in yellow (surface 2). (B) Top view of the H7.5 epitope on H7 HA before and after H7.5 binding. The estimated buried area surfaces on each HA1 subunit and its predicted Gibbs free energies upon H7.5 binding were analyzed. (C) Interaction between Fab H7.5 and HA primary binding surface 1. The H7.5 antibody is shown as main-chain trace, with the interacting residues that are critical to the H7 recognition shown in sticks. The HA1 subunit with surface 1 is shown in a main-chain trace. The main chain and side chain of H7 HA residues that form direct contacts with H7.5 are shown in stick representation. (D) Interaction between two adjacent protomers and a single Fab. When the H7.5 antibody (purple) is docked onto the closed HA (green) head conformation exhibited in 3M5G, there is a clash with the adjacent protomer (top panel). When the 3M5G HA head is morphed into our model, the increased spacing between the heads alleviates this clash, thereby accommodating the CDRH3 loop (bottom panel). (E) The Kd values of H7.5 or mutated H7.5 Fab binding to the HA1 subunit of H7 (A/Shanghai/2/2013) by biolayer interferometry. (F) Sequence alignment of H7 strains with H3N2 reference strain showing the H7.5 epitope (highlighted in yellow) is well conserved among H7. (G) Amino acid sequence analysis of H7.5 epitope among 13,880 influenza A HA sequences obtained from www.fludb.org showing poor conservation in the H7.5 epitope in subtypes other than H7. CDRH3, complementarity determining region heavy chain 3; Fab, fragment antigen binding; HA, hemagglutinin.</p
HA-COMTD1 does not localize to melanosomes or endolysosomes.
No full textImmortalized melan-Ink4a cells were transiently transfected to express COMTD1 fused with the HA11 epitope at the N-terminus (HA-COMTD1) (A-D) or the HA11 epitope at the C-terminus (COMTD1-HA) (E-H). Two days later, cells were fixed and analyzed by bright field (BF) and dIFM for HA and markers of either mature melanosomes (TYRP1; A, E), early stage melanosomes (PMEL; B, F), late endosomes/ lysosomes (LAMP2 C, G), or early endosomes (STX13; D, H). Individual images of labeled cells or the bright field image are shown in addition to an overlay of HA (green) with the indicated marker (red). Insets show a 7-fold magnified image of the boxed region to emphasize the lack of overlap. Main scale bar, 10 μm; inset scale bar, 2 μm. (PDF)</p
Petites Pieces pour le Piano-Forte / composées par F. G. Ha¨yn
No full textPETITES PIECES POUR LE PIANO-FORTE / COMPOSÉES PAR F. G. HA¨YN
Petites Pieces pour le Piano-Forte / composées par F. G. Ha¨yn (1)
Titelseite (1)
Noten (2
Semiometrics: producing a compositional view of influence
No full textHigh-impact academic papers are not necessarily the most cited. For example, Einstein's 'Special Relativity' paper from 1905 received (and continues to receive) fewer citations from other papers than his 'Brownian Motion" paper of the same year, despite the former radically changing the course of an entire scientific discipline to a much greater extent. Similarly, 'impact' metrics using citation count alone are, it is argued, not adequate for determining the scientific influence of papers, authors or small groups of authors. Although valid, they remain controversial when used to determine influence of larger groups or journals. While the term 'impact' has become closely linked to a journal's citation-based Journal Impact Factor score, this thesis uses the term 'influence' to describe the wider effectiveness of research, combining citation and metadata analysis to allow richer calculations to be performed over large-scale document networks. As a result, more qualitative influence ratings can be determined and a broader outlook on scientific disciplines can be produced. These ratings are best applied using an ontology-based data source, allowing more efficient inference than under a traditional RDBMS system, and allowing easier integration between heterogeneous data sources. These metrics, termed 'Semantic Bibliometrics' or 'Semiometrics', can be applied at a variety of levels of granularity, allowing a compositional framework for impact and influence analysis. This thesis describes the process of data preparation, systems architecture, metric value and data integration for such a system, introducing novel approaches at all four stages, thereby creating a working semiometrics system for determining influence at different semantic levels of granularity
Bibliographie Hilarion G. Petzold 1958 – 2009 mit Anhang als Einführung
No full textDieses Archiv enthält die Gesamtbibliographie der Werke des Autors nebst einiger Texte „Über H. G. Petzold“ im Schlussteil der Bibliographie sowie einen Anhang mit einer Einführung in die Architektur des Werkes in seinem wissenslogischen Aufbau als Ausarbeitung seines „Tree of Science Modells“ (2007).This archive contains the complete bibliography of the author and some texts about H. G. Petzold, moreover an epilogue with an introduction to the architecture of the works in its epistemological structure and composition and as an elaborations of Petzold’s „Tree of Science Modell (2007).https://www.fpi-publikation.de/polyloge/01-2009-petzold-h-g-gesamtbibliographie-h-g-petzold-1958-2009-updating-november2009/peerReviewedpublishedVersio
Dispelling the Myths Behind First-author Citation Counts
No full textWe conducted a full-scale evaluative citation analysis study of scholars in the XML research field to explore just how different from each other author rankings resulting from different citation counting methods actually are, and to demonstrate the capability of emerging data and tools on the Web in supporting more realistic citation counting methods. Our results contest some common arguments for the continued
use of first-author citation counts in the evaluation of scholars, such as high correlations between author rankings by first-author citation counts and other citation
counting methods, and high costs of using more realistic citation counting methods that are not well-supported by the ISI databases. It is argued that increasingly available digital full text research papers make it possible for citation analysis studies to go beyond what the ISI databases have directly supported and to employ more
sophisticated methods
Production of Oryctes nudivirus (OrNV) through the DSIR-Ha-1179 Heteronychus arator cell line
No full textElectron microscopy and host-pathogen bioassays reveal that infective fresh virus inoculant can be produced from long-term stored Oryctes nudivirus using the DSIR-Ha-1179 cell line and the OrNV-V23B isolate was identified as a potential candidate to control to the Oryctes rhinoceros CRB-G variant
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3346: Samuel G. Freedman, author, 2013
No full textPhotograph of author Samuel G. Freedman, at NT Daily Slash meeting in the Mayborn School of Journalism at UNT
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