Knowledge and Asymmetric Loss

This paper offers a novel account of practical factor effects on knowledge attributions that is consistent with the denial of contextualism, relativism and pragmatic encroachemt. The account goes as follows. Knowledge depends on factors like safety, reliability or probability. In many cases, it is uncertain just how safe, how reliably formed or how probable the target proposition is. This means that we have to estimate these quantities in order to form knowledge judgements. Such estimates of uncertain quantities are independently known to be affected by pragmatic factors. When overestimation is costlier than underestimation, for instance, we tend to underestimate the relevant quantity to avoid greater losses. On the suggested account, high stakes and other pragmatic factors induce such “asymmetric loss functions” on quantities like safety, reliability and probability. This skews our estimates of these quantities and thereby our judgements about knowledge. The resulting theory is an error-theory, but one that rationlizes the error in question.

Measuring Daylight: A Review of Dosimetry in Daylight Photodynamic Therapy

Successful daylight photodynamic therapy (DPDT) relies on the interaction of light, photosensitisers and oxygen. Therefore, the ‘dose’ of light that a patient receives during treatment is a clinically relevant quantity, with a minimum dose for effective treatment recommended in the literature. However, there are many different light measurement methods used in the published literature, which may lead to confusion surrounding reliable and traceable dose measurement in DPDT, and what the most appropriate method of light measurement in DPDT might be. Furthermore, for the majority of practitioners who do not carry out any formal dosimetry and for the patients receiving DPDT, building confidence in the evidence supporting this important treatment option is of key importance. This review seeks to clarify the methodology of DPDT and discusses the literature relating to DPDT dosimetry.

Sleep homeostasis reflects temporally integrated local cortical neuronal activity

The homeostatic regulation of sleep manifests as a relative constancy of its daily amount and intensity. Theoretical descriptions of this phenomenon define “Process S”, a variable with dynamics dependent only on sleep-wake history, whose levels are reflected in electroencephalogram (EEG) slow wave activity (0.5 – 4 Hz) during sleep. Here we developed novel mathematical models of Process S in mice, assuming that its dynamics are a function of the deviation of cortical neuronal firing rates from a locally defined set-point, crucially without explicit knowledge of sleep-wake state. Our results suggest that Process S tracks global sleep-wake history through an integration of local cortical neuronal activity levels over time. We posit that, instead of reflecting sleep-wake-dependent changes in specific variables and serving their homeostatic regulation, Process S may be a time-keeping mechanism which enables individuals to obtain a species-specific and ecologically-relevant quantity of sleep, even in the absence of external temporal information.

Boussinesq convection in a gaseous spherical shell

In this paper, we investigate the dynamics of convection in a spherical shell under the Boussinesq approximation but considering the compressibility which arises from a non zero adiabatic temperature gradient, a relevant quantity for gaseous objects such as stellar or planetary interiors. We find that depth-dependent superiadiabaticity, combined with the use of mixed boundary conditions (fixed flux/fixed temperature), gives rise to unexpected dynamics that were not previously reported.

On the Periodic Gain of the Ribosome Flow Model

We consider a compartmental model for ribosome flow during RNA translation called the RFM. This model includes a set of positive transition rates that control the flow from every site to the consecutive site. It has been shown that when these rates are time-varying and jointly T-periodic every solution of the RFM converges to a unique periodic solution with period T. In other words, the RFM entrains to the periodic excitation. In particular, the protein production rate converges to a unique T-periodic pattern. From a biological point of view, one may argue that the average of the periodic production rate, and not the instantaneous rate, is the relevant quantity. Here, we study a problem that can be roughly stated as: can periodic rates yield a higher average production rate than constant rates? We rigorously formulate this question and show via simulations, and rigorous analysis in one simple case, that the answer is no.

SEARCHING FOR TARGETS ON A MODEL DNA: EFFECTS OF INTER-SEGMENT HOPPING, DETACHMENT, AND RE-ATTACHMENT

For most of the important processes in DNA metabolism, a protein has to reach a specific binding site on the DNA. The specific binding site may consist of just a few base-pairs while the DNA is usually several millions of base-pairs long. How does the protein search for the target site? What is the most efficient mechanism for a successful search? Motivated by these fundamental questions on intracellular biological processes, we have developed a model for searching a specific site on a model DNA by a single protein. We have made a comparative quantitative study on the efficiencies of sliding, inter-segmental hoppings and detachment/re-attachments of the particle during its search for the specific site on the DNA. We also introduce some new quantitative measures of efficiency of a search process by defining a relevant quantity, which can be measured in in-vitro experiments.

Actinic flux and photolysis in water droplets: Mie calculations and geometrical optics limit

Photolysis of water-soluble components inside cloud droplets by ultraviolet/visible radiation may play an important role in atmospheric chemistry. Two earlier studies have suggested that the actinic flux and hence the photolysis frequency within spherical droplets is enhanced relative to that in the surrounding air, but have given different values for this enhancement. Here, we reconcile these discrepancies by noting slight errors in both studies that, when corrected, lead to consistent results. Madronich (1987) examined the geometric (large droplet) limit and concluded that refraction leads to an enhancement factor, averaged over all incident directions, of 1.56. However, the physically relevant quantity is the enhancement of the average actinic flux (rather than the average enhancement factor) which we show here to be 1.26 in the geometric limit. Ruggaber et al. (1997) used Mie theory to derive energy density enhancements slightly larger than 2 for typical droplet sizes, and applied these directly to the calculation of photolysis rates. However, the physically relevant quantity is the actinic flux (rather than the energy density) which is obtained by dividing the energy density by the refractive index of water, 1.33. Thus, the Mie-predicted enhancement for typical cloud droplet sizes is in the range 1.5, only coincidentally in agreement with the value originally given by Madronich. We also investigated the influence of resonances in the actinic flux enhancement. These narrow spikes which are resolved only by very high resolution calculations are orders of magnitude higher than the intermediate values but contribute only little to the actinic flux enhancement when averaged over droplet size distributions. Finally, a table is provided which may be used to obtain the actinic flux enhancement for the photolysis of any dissolved species.

Photolysis frequencies in water droplets: Mie calculations and geometrical optics limit

Photolysis of water-soluble components inside cloud droplets by ultraviolet/visible radiation may play an important role in atmospheric chemistry. Two earlier studies have suggested that the the actinic flux and hence the photolysis frequency within spherical droplets is enhanced relative to that in the surrounding air, but have given different values for this enhancement. Here, we reconcile these discrepancies by noting slight errors in both studies that, when corrected, lead to consistent results. Madronich (1987) examined the geometric (large droplet) limit and concluded that refraction leads to an enhancement factor, averaged over all incident directions, of 1.56. However, the physically relevant quantity is the enhancement of the average actinic flux (rather than the average enhancement factor) which we show here to be 1.26 in the geometric limit. Ruggaber et al. (1997) used Mie theory to derive energy density enhancements slightly larger than 2 for typical droplet sizes, and applied these directly to the calculation of photolysis rates. However, the physically relevant quantity is the actinic flux (rather than the energy density) which is obtained by dividing the energy density by the index of refraction of water, 1.33. Thus, the Mie-predicted enhancement for typical cloud droplet sizes is in the range 1.5, only coincidentally in agreement with the value originally given by Madronich. We also investigated the influence of resonances in the actinic flux enhancement. These narrow spikes which are resolved only by very high resolution calculations are orders of magnitude higher than the intermediate values but contribute only little to the actinic flux enhancement when averaged over droplet size distributions.