3,304 research outputs found
Fiction and the Ontological Landscape
The paper examines fictional ontologies in relation to the distinction between sacred and profane ontologies. This distinction suggests that most cultures organize their worldview into various ontological landscapes. Several types of such landscapes are examined and fiction is characterized as a peripheral ontology used for ludic and instructional purposes
Rocaglates induce gain-of-function alterations to eIF4A and eIF4F
Rocaglates are a diverse family of biologically active molecules that have gained tremendous interest in recent years due to their promising activities in pre-clinical cancer studies. As a result, this family of compounds has been significantly expanded through the development of efficient synthetic schemes. However, it is unknown whether all of the members of the rocaglate family act through similar mechanisms of action. Here, we present a comprehensive study comparing the biological activities of >200 rocaglates to better understand how the presence of different chemical entities influences their biological activities. Through this, we find that most rocaglates preferentially repress the translation of mRNAs containing purine-rich 5' leaders, but certain rocaglates lack this bias in translation repression. We also uncover an aspect of rocaglate mechanism of action in which the pool of translationally active eIF4F is diminished due to the sequestration of the complex onto RNA.P50 GM067041 - NIGMS NIH HHS; R24 GM111625 - NIGMS NIH HHS; R35 GM118173 - NIGMS NIH HHSPublished versio
Airborne Visible/Infrared Imaging Spectrometer (AVIRIS) onboard calibration system
The AVIRIS instrument uses an onboard calibration system to provide auxiliary calibration data. The system consist of a tungsten halogen cycle lamp imaged onto a fiber bundle through an eight position filter wheel. The fiber bundle illuminates the back side of the foreoptics shutter during a pre-run and post-run calibration sequence. The filter wheel contains two neutral density filters, five spectral filters and one blocked position. This paper reviews the general workings of the onboard calibrator system and discusses recent modifications
Coexistence of nonequilibrium density and equilibrium energy distribution of quasiparticles in a superconducting qubit
The density of quasiparticles typically observed in superconducting qubits
exceeds the value expected in equilibrium by many orders of magnitude. Can this
out-of-equilibrium quasiparticle density still possess an energy distribution
in equilibrium with the phonon bath? Here, we answer this question
affirmatively by measuring the thermal activation of charge-parity switching in
a transmon qubit with a difference in superconducting gap on the two sides of
the Josephson junction. We then demonstrate how the gap asymmetry of the device
can be exploited to manipulate its parity.Comment: Updated acknowledgements, corrected typo
Extracellular electrical signals in a neuron-surface junction: model of heterogeneous membrane conductivity
Signals recorded from neurons with extracellular planar sensors have a wide
range of waveforms and amplitudes. This variety is a result of different
physical conditions affecting the ion currents through a cellular membrane. The
transmembrane currents are often considered by macroscopic membrane models as
essentially a homogeneous process. However, this assumption is doubtful, since
ions move through ion channels, which are scattered within the membrane.
Accounting for this fact, the present work proposes a theoretical model of
heterogeneous membrane conductivity. The model is based on the hypothesis that
both potential and charge are distributed inhomogeneously on the membrane
surface, concentrated near channel pores, as the direct consequence of the
inhomogeneous transmembrane current. A system of continuity equations having
non-stationary and quasi-stationary forms expresses this fact mathematically.
The present work performs mathematical analysis of the proposed equations,
following by the synthesis of the equivalent electric element of a
heterogeneous membrane current. This element is further used to construct a
model of the cell-surface electric junction in a form of the equivalent
electrical circuit. After that a study of how the heterogeneous membrane
conductivity affects parameters of the extracellular electrical signal is
performed. As the result it was found that variation of the passive
characteristics of the cell-surface junction, conductivity of the cleft and the
cleft height, could lead to different shapes of the extracellular signals
New calibration techniques for the Airborne Visible/Infrared Imaging Spectrometer (AVIRIS)
Recent laboratory calibrations of the Airborne Visible/Infrared Imaging Spectrometer (AVIRIS) include new methods for the characterization of the geometric, spectral, temporal and radiometric properties of the sensor. New techniques are desired in order to: (1) increase measurement accuracy and precision, (2) minimize measurement time and expense, (3) prototype new field and inflight calibration systems, (4) resolve measurement ambiguities, and (5) add new measurement dimensions. One of the common features of these new methods is the use of the full data collection and processing power of the AVIRIS instrument and data facility. This allows the collection of large amounts of calibration data in a short period of time and is well suited to modular data analysis routines
Genes in the postgenomic era
We outline three very different concepts of the gene - 'instrumental', 'nominal', and 'postgenomic'. The instrumental gene has a critical role in the construction and interpretation of experiments in which the relationship between genotype and phenotype is explored via hybridization between organisms or directly between nucleic acid molecules. It also plays an important theoretical role in the foundations of disciplines such as quantitative genetics and population genetics. The nominal gene is a critical practical tool, allowing stable communication between bioscientists in a wide range of fields grounded in well-defined sequences of nucleotides, but this concept does not embody major theoretical insights into genome structure or function. The post-genomic gene embodies the continuing project of understanding how genome structure supports genome function, but with a deflationary picture of the gene as a structural unit. This final concept of the gene poses a significant challenge to conventional assumptions about the relationship between genome structure and function, and between genotype and phenotype
Human plasma and serum extracellular small RNA reference profiles and their clinical utility
Circulating extracellular RNAs (exRNAs) have the potential to serve as biomarkers for a wide range of medical conditions. However, limitations in existing exRNA isolation methods and a lack of knowledge on parameters affecting exRNA variability in human samples may hinder their successful discovery and clinical implementation. Using combinations of denaturants, reducing agents, proteolysis, and revised organic extraction, we developed an automated, high-throughput approach for recovery of exRNAs and exDNA from the same biofluid sample. We applied this method to characterize exRNAs from 312 plasma and serum samples collected from 13 healthy volunteers at 12 time points over a 2-month period. Small RNA cDNA library sequencing identified nearly twofold increased epithelial-, muscle-, and neuroendocrine-cell–specific miRNAs in females, while fasting and hormonal cycle showed little effect. External standardization helped to detect quantitative differences in erythrocyte and platelet-specific miRNA contributions and in miRNA concentrations between biofluids. It also helped to identify a study participant with a unique exRNA phenotype featuring a miRNA signature of up to 20-fold elevated endocrine-cell–specific miRNAs and twofold elevated total miRNA concentrations stable for over 1 year. Collectively, these results demonstrate an efficient and quantitative method to discern exRNA phenotypes and suggest that plasma and serum RNA profiles are stable over months and can be routinely monitored in long-term clinical studies
Continuous Symmetries of Difference Equations
Lie group theory was originally created more than 100 years ago as a tool for
solving ordinary and partial differential equations. In this article we review
the results of a much more recent program: the use of Lie groups to study
difference equations. We show that the mismatch between continuous symmetries
and discrete equations can be resolved in at least two manners. One is to use
generalized symmetries acting on solutions of difference equations, but leaving
the lattice invariant. The other is to restrict to point symmetries, but to
allow them to also transform the lattice.Comment: Review articl
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