2,752 research outputs found
Alexander representation of tangles
A tangle is an oriented 1-submanifold of the cylinder whose endpoints lie on
the two disks in the boundary of the cylinder. Using an algebraic tool
developed by Lescop, we extend the Burau representation of braids to a functor
from the category of oriented tangles to the category of Z[t,t^{-1}]-modules.
For (1,1)-tangles (i.e., tangles with one endpoint on each disk) this invariant
coincides with the Alexander polynomial of the link obtained by taking the
closure of the tangle. We use the notion of plat position of a tangle to give a
constructive proof of invariance in this case.Comment: 13 pages, 5 figure
Nuclear ribosomal DNA diversity of a cotton pest (Rotylenchulus reniformis) in the United States
The reniform nematode (Rotylenchulus reniformis) has emerged as a major cotton pest in the United States. A recent analysis of over 20 amphimictic populations of this pest from the US and three othercountries has shown no sequence variation at the nuclear ribosomal internal transcribed spacer (ITS) despite the region’s usual variability. We investigated this unexpected outcome by amplifying, cloningand sequencing two regions of the nuclear ribosomal DNA (18S, ITS1) to ascertain whether any variation occurred within and among populations of reniform nematodes in Alabama, US. Both thenrITS1 and the relatively conserved 18S region showed a fairly substantial amount of variation among populations. The identity among ITS sequences ranged from 1.00 to 0.86, while sequence identity at the18S ranged from 1.00 to 0.948. We conclude that variation does exist in these sequences in reniform nematodes, and the earlier report showing no ribosomal ITS variation in this pest might have beencaused by preferential amplification of a conserved ITS paralog. Current and future application towards resistance in cotton varieties to this pest requires reliable information on the molecular variability of thenematode in cotton-growing areas
The protease inhibitor JO146 demonstrates a critical role for CtHtrA for Chlamydia trachomatis reversion from penicillin persistence
The Chlamydia trachomatis serine protease HtrA (CtHtrA) has recently been demonstrated to be essential during the replicative phase of the chlamydial developmental cycle. A chemical inhibition strategy (serine protease inhibitor JO146) was used to demonstrate this essential role and it was found that the chlamydial inclusions diminish in size and are lost from the cell after CtHtrA inhibition without formation of viable elementary bodies. The inhibitor (JO146) was used in this study to investigate the role of CtHtrA for penicillin persistence and heat stress conditions for Chlamydia trachomatis. JO146 addition during penicillin persistence resulted in only minor reductions (~1 log) in the final viable infectious yield after persistent Chlamydia were reverted from persistence. However, JO146 treatment during the reversion and recovery from penicillin persistence was completely lethal for Chlamydia trachomatis. JO146 was completely lethal when added either during heat stress conditions, or during the recovery from heat stress conditions. These data together indicate that CtHtrA has essential roles during some stress environments (heat shock), recovery from stress environments (heat shock and penicillin persistence), as well as the previously characterized essential role during the replicative phase of the chlamydial developmental cycle. Thus, CtHtrA is an essential protease with both replicative phase and stress condition functions for Chlamydia trachomatis. © 2013 Ong, Marsh, Lawrence, Allan, Timms and Huston
Wikipedia as an encyclopaedia of life
In his 2003 essay E O Wilson outlined his vision for an “encyclopaedia of life” comprising “an electronic page for each species of organism on Earth”, each page containing “the scientific name of the species, a pictorial or genomic presentation of the primary type specimen on which its name is based, and a summary of its diagnostic traits.” Although the “quiet revolution” in biodiversity informatics has generated numerous online resources, including some directly inspired by Wilson's essay (e.g., "http://ispecies.org":http://ispecies.org, "http://www.eol.org":http://www.eol.org), we are still some way from the goal of having available online all relevant information about a species, such as its taxonomy, evolutionary history, genomics, morphology, ecology, and behaviour. While the biodiversity community has been developing a plethora of databases, some with overlapping goals and duplicated content, Wikipedia has been slowly growing to the point where it now has over 100,000 pages on biological taxa. My goal in this essay is to explore the idea that, largely independent of the efforts of biodiversity informatics and well-funded international efforts, Wikipedia ("http://en.wikipedia.org/wiki/Main_Page":http://en.wikipedia.org/wiki/Main_Page) has emerged as potentially the best platform for fulfilling E O Wilson’s vision
Experimental GHZ Entanglement beyond Qubits
The Greenberger-Horne-Zeilinger (GHZ) argument provides an all-or-nothing
contradiction between quantum mechanics and local-realistic theories. In its
original formulation, GHZ investigated three and four particles entangled in
two dimensions only. Very recently, higher dimensional contradictions
especially in three dimensions and three particles have been discovered but it
has remained unclear how to produce such states. In this article we
experimentally show how to generate a three-dimensional GHZ state from
two-photon orbital-angular-momentum entanglement. The first suggestion for a
setup which generates three-dimensional GHZ entanglement from these entangled
pairs came from using the computer algorithm Melvin. The procedure employs
novel concepts significantly beyond the qubit case. Our experiment opens up the
possibility of a truly high-dimensional test of the GHZ-contradiction which,
interestingly, employs non-Hermitian operators.Comment: 6+6 pages, 8 figure
Can modern infrared analyzers replace gas chromatography to measure anesthetic vapor concentrations?
<p>Abstract</p> <p>Background</p> <p>Gas chromatography (GC) has often been considered the most accurate method to measure the concentration of inhaled anesthetic vapors. However, infrared (IR) gas analysis has become the clinically preferred monitoring technique because it provides continuous data, is less expensive and more practical, and is readily available. We examined the accuracy of a modern IR analyzer (M-CAiOV compact gas IR analyzer (General Electric, Helsinki, Finland) by comparing its performance with GC.</p> <p>Methods</p> <p>To examine linearity, we analyzed 3 different concentrations of 3 different agents in O<sub>2</sub>: 0.3, 0.7, and 1.2% isoflurane; 0.5, 1, and 2% sevoflurane; and 1, 3, and 6% desflurane. To examine the effect of carrier gas composition, we prepared mixtures of 1% isoflurane, 1 or 2% sevoflurane, or 6% desflurane in 100% O<sub>2 </sub>(= O<sub>2 </sub>group); 30%O<sub>2</sub>+ 70%N<sub>2</sub>O (= N<sub>2</sub>O group), 28%O<sub>2 </sub>+ 66%N<sub>2</sub>O + 5%CO<sub>2 </sub>(= CO<sub>2 </sub>group), or air. To examine consistency between analyzers, four different M-CAiOV analyzers were tested.</p> <p>Results</p> <p>The IR analyzer response in O<sub>2 </sub>is linear over the concentration range studied: IR isoflurane % = -0.0256 + (1.006 * GC %), R = 0.998; IR sevoflurane % = -0.008 + (0.946 * GC %), R = 0.993; and IR desflurane % = 0.256 + (0.919 * GC %), R = 0.998. The deviation from GC calculated as (100*(IR-GC)/GC), in %) ranged from -11 to 11% for the medium and higher concentrations, and from -20 to +20% for the lowest concentrations. No carrier gas effect could be detected. Individual modules differed in their accuracy (p = 0.004), with differences between analyzers mounting up to 12% of the medium and highest concentrations and up to 25% of the lowest agent concentrations.</p> <p>Conclusion</p> <p>M-CAiOV compact gas IR analyzers are well compensated for carrier gas cross-sensitivity and are linear over the range of concentrations studied. IR and GC cannot be used interchangeably, because the deviations between GC and IR mount up to ± 20%, and because individual analyzers differ unpredictably in their performance.</p
Knot Theory: from Fox 3-colorings of links to Yang-Baxter homology and Khovanov homology
This paper is an extended account of my "Introductory Plenary talk at Knots
in Hellas 2016" conference We start from the short introduction to Knot Theory
from the historical perspective, starting from Heraclas text (the first century
AD), mentioning R.Llull (1232-1315), A.Kircher (1602-1680), Leibniz idea of
Geometria Situs (1679), and J.B.Listing (student of Gauss) work of 1847. We
spend some space on Ralph H. Fox (1913-1973) elementary introduction to diagram
colorings (1956). In the second section we describe how Fox work was
generalized to distributive colorings (racks and quandles) and eventually in
the work of Jones and Turaev to link invariants via Yang-Baxter operators, here
the importance of statistical mechanics to topology will be mentioned. Finally
we describe recent developments which started with Mikhail Khovanov work on
categorification of the Jones polynomial. By analogy to Khovanov homology we
build homology of distributive structures (including homology of Fox colorings)
and generalize it to homology of Yang-Baxter operators. We speculate, with
supporting evidence, on co-cycle invariants of knots coming from Yang-Baxter
homology. Here the work of Fenn-Rourke-Sanderson (geometric realization of
pre-cubic sets of link diagrams) and Carter-Kamada-Saito (co-cycle invariants
of links) will be discussed and expanded.
Dedicated to Lou Kauffman for his 70th birthday.Comment: 35 pages, 31 figures, for Knots in Hellas II Proceedings, Springer,
part of the series Proceedings in Mathematics & Statistics (PROMS
The Role of Appearance in Adolescents’ Experiences of Neurofibromatosis Type 1: A Survey of Young People and Parents
© 2016, National Society of Genetic Counselors, Inc. Neurofibromatosis type 1 (NF1) is a genetic condition which can result in varying degrees of visible difference (disfigurement). Adolescence is a time when appearance concerns become more salient for many young people and is acknowledged as a particularly challenging time for individuals with NF1. There is currently little research into the psychosocial impact of the appearance changes associated with NF1 during this stage of life. In order to address this, surveys of young people with NF1 aged 14–24years (n=73), and parents of young people with NF1 (n=55) were developed following interview studies with these groups. The surveys included the Perceived Stigma Questionnaire, Social Comfort Questionnaire, Body Esteem Scale (appearance subscale) and the Subjective Happiness Scale. Young people and parents identified appearance as central to young peoples’ experience of NF1, however no significant difference was found on measures of body esteem, happiness, stigma or social comfort between those young people who reported their NF1 was noticeable to others and those who reported it was not. Findings from the parent survey indicated that their reports of greater perceived noticeability did relate to greater perceived stigma and lower levels of social comfort. Findings highlight the importance of attending to young people’s concerns around appearance in general and managing the possibility of future appearance changes, rather than the current noticeability of NF1
Cross-species gene expression analysis of species specific differences in the preclinical assessment of pharmaceutical compounds
Animals are frequently used as model systems for determination of safety and efficacy in pharmaceutical research and development. However, significant quantitative and qualitative differences exist between humans and the animal models used in research. This is as a result of genetic variation between human and the laboratory animal. Therefore the development of a system that would allow the assessment of all molecular differences between species after drug exposure would have a significant impact on drug evaluation for toxicity and efficacy. Here we describe a cross-species microarray methodology that identifies and selects orthologous probes after cross-species sequence comparison to develop an orthologous cross-species gene expression analysis tool. The assumptions made by the use of this orthologous gene expression strategy for cross-species extrapolation is that; conserved changes in gene expression equate to conserved pharmacodynamic endpoints. This assumption is supported by the fact that evolution and selection have maintained the structure and function of many biochemical pathways over time, resulting in the conservation of many important processes. We demonstrate this cross-species methodology by investigating species specific differences of the peroxisome proliferatoractivator receptor (PPAR) a response in rat and human
- …