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Search Results: 1 - 10 of 8576 matches for " Adriana;Rotolo "
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Matching MEDLINE/PubMed Data with Web of Science (WoS): A Routine in R language
Daniele Rotolo,Loet Leydesdorff
Computer Science , 2014,
Abstract: We present a novel routine, namely medlineR, based on R-language, that enables the user to match data from MEDLINE/PubMed with records indexed in the ISI Web of Science (WoS) database. The matching allows exploiting the rich and controlled vocabulary of Medical Subject Headings (MeSH) of MEDLINE/PubMed with additional fields of WoS. The integration provides data (e.g. citation data, list of cited reference, full list of the addresses of authors' host organisations, WoS subject categories) to perform a variety of scientometric analyses. This brief communication describes medlineR, the methodology on which it relies, and the steps the user should follow to perform the matching across the two databases. In order to specify the differences from Leydesdorff and Opthof (2013), we conclude the brief communication by testing the routine on the case of the "Burgada Syndrome".
Mitochondrial Ceramide-Rich Macrodomains Functionalize Bax upon Irradiation
Hyunmi Lee,Jimmy A. Rotolo,Judith Mesicek,Tuula Penate-Medina,Andreas Rimner,Wen-Chieh Liao,Xianglei Yin,Govind Ragupathi,Desiree Ehleiter,Erich Gulbins,Dayong Zhai,John C. Reed,Adriana Haimovitz-Friedman,Zvi Fuks,Richard Kolesnick
PLOS ONE , 2012, DOI: 10.1371/journal.pone.0019783
Abstract: Evidence indicates that Bax functions as a “lipidic” pore to regulate mitochondrial outer membrane permeabilization (MOMP), the apoptosis commitment step, through unknown membrane elements. Here we show mitochondrial ceramide elevation facilitates MOMP-mediated cytochrome c release in HeLa cells by generating a previously-unrecognized mitochondrial ceramide-rich macrodomain (MCRM), which we visualize and isolate, into which Bax integrates.
Adenoviral Transduction of Human Acid Sphingomyelinase into Neo-Angiogenic Endothelium Radiosensitizes Tumor Cure
Branka Stancevic, Nira Varda-Bloom, Jin Cheng, John D. Fuller, Jimmy A. Rotolo, Mónica García-Barros, Regina Feldman, Shyam Rao, Ralph R. Weichselbaum, Dror Harats, Adriana Haimovitz-Friedman, Zvi Fuks, Michel Sadelain, Richard Kolesnick
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0069025
Abstract: These studies define a new mechanism-based approach to radiosensitize tumor cure by single dose radiotherapy (SDRT). Published evidence indicates that SDRT induces acute microvascular endothelial apoptosis initiated via acid sphingomyelinase (ASMase) translocation to the external plasma membrane. Ensuing microvascular damage regulates radiation lethality of tumor stem cell clonogens to effect tumor cure. Based on this biology, we engineered an ASMase-producing vector consisting of a modified pre-proendothelin-1 promoter, PPE1(3x), and a hypoxia-inducible dual-binding HIF-2α-Ets-1 enhancer element upstream of the asmase gene, inserted into a replication-deficient adenovirus yielding the vector Ad5H2E-PPE1(3x)-ASMase. This vector confers ASMase over-expression in cycling angiogenic endothelium in vitro and within tumors in vivo, with no detectable enhancement in endothelium of normal tissues that exhibit a minute fraction of cycling cells or in non-endothelial tumor or normal tissue cells. Intravenous pretreatment with Ad5H2E-PPE1(3x)-ASMase markedly increases SDRT cure of inherently radiosensitive MCA/129 fibrosarcomas, and converts radiation-incurable B16 melanomas into biopsy-proven tumor cures. In contrast, Ad5H2E-PPE1(3x)-ASMase treatment did not impact radiation damage to small intestinal crypts as non-dividing small intestinal microvessels did not overexpress ASMase and were not radiosensitized. We posit that combination of genetic up-regulation of tumor microvascular ASMase and SDRT provides therapeutic options for currently radiation-incurable human tumors.
The Interaction of 'Supply', 'Demand', and 'Technological Capabilities' in terms of Medical Subject Headings: A Triple Helix Model of Medical Innovation
Alexander M. Petersen,Daniele Rotolo,Loet Leydesdorff
Computer Science , 2015,
Abstract: We develop a model of innovation that enables us to trace the interplay among three key dimensions of the innovation process: (i) demand of and (ii) supply for innovation, and (iii) technological capabilities available to generate innovation in the forms of products, processes, and services. Building on Triple Helix research, we use entropy statistics to elaborate an indicator of mutual information among these dimensions that can provide indication of reduction of uncertainty. To do so, we focus on the medical context, where uncertainty poses significant challenges to the governance of innovation. The Medical Subject Headings (MeSH) of MEDLINE/PubMed provide us with publication records classified within the categories "Diseases" (C), "Drugs and Chemicals" (D), "Analytic, Diagnostic, and Therapeutic Techniques and Equipment" (E) as knowledge representations of demand, supply, and technological capabilities, respectively. Three case-studies of medical research areas are used as representative 'entry perspectives' of the medical innovation process. These are: (i) Human Papilloma Virus, (ii) RNA interference, and (iii) Magnetic Resonance Imaging. We find statistically significant periods of synergy among demand, supply, and technological capabilities (C-D-E) that points to three-dimensional interactions as a fundamental perspective for the understanding and governance of the uncertainty associated with medical innovation. Among the pairwise configurations in these contexts, the demand-technological capabilities (C-E) provided the strongest link, followed by the supply-demand (D-C) and the supply-technological capabilities (D-E) channels.
Bibliometric Perspectives on Medical Innovation using the Medical Subject Headings (MeSH) of PubMed
Loet Leydesdorff,Daniele Rotolo,Ismael Rafols
Computer Science , 2012,
Abstract: Multiple perspectives on the nonlinear processes of medical innovations can be distinguished and combined using the Medical Subject Headings (MeSH) of the Medline database. Focusing on three main branches-"diseases," "drugs and chemicals," and "techniques and equipment"-we use base maps and overlay techniques to investigate the translations and interactions and thus to gain a bibliometric perspective on the dynamics of medical innovations. To this end, we first analyze the Medline database, the MeSH index tree, and the various options for a static mapping from different perspectives and at different levels of aggregation. Following a specific innovation (RNA interference) over time, the notion of a trajectory which leaves a signature in the database is elaborated. Can the detailed index terms describing the dynamics of research be used to predict the diffusion dynamics of research results? Possibilities are specified for further integration between the Medline database, on the one hand, and the Science Citation Index and Scopus (containing citation information), on the other.
Innovation as a Nonlinear Process, the Scientometric Perspective, and the Specification of an "Innovation Opportunities Explorer"
Loet Leydesdorff,Daniele Rotolo,Wouter de Nooy
Computer Science , 2012,
Abstract: The process of innovation follows non-linear patterns across the domains of science, technology, and the economy. Novel bibliometric mapping techniques can be used to investigate and represent distinctive, but complementary perspectives on the innovation process (e.g., "demand" and "supply") as well as the interactions among these perspectives. The perspectives can be represented as "continents" of data related to varying extents over time. For example, the different branches of Medical Subject Headings (MeSH) in the Medline database provide sources of such perspectives (e.g., "Diseases" versus "Drugs and Chemicals"). The multiple-perspective approach enables us to reconstruct facets of the dynamics of innovation, in terms of selection mechanisms shaping localizable trajectories and/or resulting in more globalized regimes. By expanding the data with patents and scholarly publications, we demonstrate the use of this multi-perspective approach in the case of RNA Interference (RNAi). The possibility to develop an "Innovation Opportunities Explorer" is specified.
Determinants of Patent Citations in Biotechnology: An Analysis of Patent Influence Across the Industrial and Organizational Boundaries
Antonio Messeni Petruzzelli,Daniele Rotolo,Vito Albino
Computer Science , 2014,
Abstract: The present paper extends the literature investigating key drivers leading certain patents to exert a stronger influence on the subsequent technological developments (inventions) than other ones. We investigated six key determinants, as (i) the use of scientific knowledge, (ii) the breadth of the technological base, (iii) the existence of collaboration in patent development, (iv) the number of claims, (v) the scope, and (vi) the novelty, and how the effect of these determinants varies when patent influence - as measured by the number of forward citations the patent received - is distinguished as within and across the industrial and organizational boundaries. We conducted an empirical analysis on a sample of 5671 patents granted to 293 US biotechnology firms from 1976 to 2003. Results reveal that the contribution of the determinants to patent influence differs across the domains that are identified by the industrial and organizational boundaries. Findings, for example, show that the use of scientific knowledge negatively affects patent influence outside the biotechnology industry, while it positively contributes to make a patent more relevant for the assignee's subsequent technological developments. In addition, the broader the scope of a patent the higher the number of citations the patent receives from subsequent non-biotechnology patents. This relationship is inverted-U shaped when considering the influence of a patent on inventions granted to other organizations than the patent's assignee. Finally, the novelty of a patent is inverted-U related with the influence the patent exerts on the subsequent inventions granted across the industrial and organizational boundaries.
What is an emerging technology?
Daniele Rotolo,Diana Hicks,Ben R. Martin
Computer Science , 2015,
Abstract: There is considerable and growing interest in the emergence of novel technologies, especially from the policy-making perspective. Yet as an area of study, emerging technologies lacks key foundational elements, namely a consensus on what classifies a technology as 'emergent' and strong research designs that operationalize central theoretical concepts. The present paper aims to fill this gap by developing a definition of 'emerging technologies' and linking this conceptual effort with the development of a framework for the operationalisation of technological emergence. The definition is developed by combining a basic understanding of the term and in particular the concept of 'emergence' with a review of key innovation studies dealing with definitional issues of technological emergence. The resulting definition identifies five attributes that feature in the emergence of novel technologies. These are: (i) radical novelty, (ii) relatively fast growth, (iii) coherence, (iv) prominent impact, and (v) uncertainty and ambiguity. The framework for operationalising emerging technologies is then elaborated on the basis of the proposed attributes. To do so, we identify and review major empirical approaches (mainly in, although not limited to, the scientometric domain) for the detection and study of emerging technologies (these include indicators and trend analysis, citation analysis, co-word analysis, overlay mapping, and combinations thereof) and elaborate on how these can be used to operationalise the different attributes of emergence.
Journal Portfolio Analysis for Countries, Cities, and Organizations: Maps and Comparisons
Loet Leydesdorff,Gaston Heimeriks,Daniele Rotolo
Computer Science , 2015,
Abstract: Using Web-of-Science data, portfolio analysis in terms of journal coverage can be projected on a base map for units of analysis such as countries, cities, universities, and firms. The units of analysis under study can be compared statistically across the 10,000+ journals. The interdisciplinarity of the portfolios is measured using Rao-Stirling diversity or Zhang et al.'s (in press) improved measure 2D3. At the country level we find regional differentiation (e.g., Latin-American or Asian countries), but also a major divide between advanced and less-developed countries. Israel and Israeli cities outperform other nations and cities in terms of diversity. Universities appear to be specifically related to firms when a number of these units are exploratively compared. The instrument is relatively simple and straightforward, and one can generalize the application to any document set retrieved from WoS. Further instruction is provided online at http://www.leydesdorff.net/portfolio .
Genetically-Directed, Cell Type-Specific Sparse Labeling for the Analysis of Neuronal Morphology
Thomas Rotolo, Philip M. Smallwood, John Williams, Jeremy Nathans
PLOS ONE , 2008, DOI: 10.1371/journal.pone.0004099
Abstract: Background In mammals, genetically-directed cell labeling technologies have not yet been applied to the morphologic analysis of neurons with very large and complex arbors, an application that requires extremely sparse labeling and that is only rendered practical by limiting the labeled population to one or a few predetermined neuronal subtypes. Methods and Findings In the present study we have addressed this application by using CreER technology to non-invasively label very small numbers of neurons so that their morphologies can be fully visualized. Four lines of IRES-CreER knock-in mice were constructed to permit labeling selectively in cholinergic or catecholaminergic neurons [choline acetyltransferase (ChAT)-IRES-CreER or tyrosine hydroxylase (TH)-IRES-CreER], predominantly in projection neurons [neurofilament light chain (NFL)-IRES-CreER], or broadly in neurons and some glia [vesicle-associated membrane protein2 (VAMP2)-IRES-CreER]. When crossed to the Z/AP reporter and exposed to 4-hydroxytamoxifen in the early postnatal period, the number of neurons expressing the human placental alkaline phosphatase reporter can be reproducibly lowered to fewer than 50 per brain. Sparse Cre-mediated recombination in ChAT-IRES-CreER;Z/AP mice shows the full axonal and dendritic arbors of individual forebrain cholinergic neurons, the first time that the complete morphologies of these very large neurons have been revealed in any species. Conclusions Sparse genetically-directed, cell type-specific neuronal labeling with IRES-creER lines should prove useful for studying a wide variety of questions in neuronal development and disease.
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