Translational signatures and mRNA levels are highly correlated in human stably expressed genes

BACKGROUND: Gene expression is one of the most relevant biological processes of living cells. Due to the relative small population sizes, it is predicted that human gene sequences are not strongly influenced by selection towards expression efficiency. One of the major problems in estimating to what extent gene characteristics can be selected to maximize expression efficiency is the wide variation that exists in RNA and protein levels among physiological states and different tissues. Analyses of datasets of stably expressed genes (i.e. with consistent expression between physiological states and tissues) would provide more accurate and reliable measurements of associations between variations of a specific gene characteristic and expression, and how distinct gene features work to optimize gene expression. RESULTS: Using a dataset of human genes with consistent expression between physiological states we selected gene sequence signatures related to translation that can predict about 42% of mRNA variation. The prediction can be increased to 51% when selecting genes that are stably expressed in more than 1 tissue. These genes are enriched for translation and ribosome biosynthesis processes and have higher translation efficiency scores, smaller coding sequences and 3(′) UTR sizes and lower folding energies when compared to other datasets. Additionally, the amino acid frequencies weighted by expression showed higher correlations with isoacceptor tRNA gene copy number, and smaller absolute correlation values with biosynthetic costs. CONCLUSION: Our results indicate that human gene sequence characteristics related to transcription and translation processes can co-evolve in an integrated manner in order to optimize gene expression

Modelling the effect of 3D temperature and chemistry on the cross-correlation signal of transiting ultra-hot Jupiters: A study of 5 chemical species on WASP-76b

Ultra-hot Jupiters are perfect targets for transmission spectroscopy. However, their atmospheres feature strong spatial variations in temperature, chemistry, dynamics, cloud coverage, and scale height. This makes transit observations at high spectral resolution challenging to interpret. In this work, we model the cross-correlation signal of five chemical species (Fe, CO, H$_\text{2}$O, OH, and TiO) on WASP-76b, a benchmark ultra-hot Jupiter. We compute phase-dependent high-resolution transmission spectra of 3D SPARC/MITgcm models. The spectra are obtained with gCMCRT, a 3D Monte-Carlo radiative-transfer code. We find that, on top of atmospheric dynamics, the phase-dependent Doppler shift of the absorption lines in the planetary rest frame is shaped by the combined effect of planetary rotation and the unique 3D spatial distribution of chemical species. For species probing the dayside (e.g., refractories or molecules like CO and OH), the two effects act in tandem, leading to increasing blueshifts with orbital phase. For species that are depleted on the dayside (e.g., H$_\text{2}$O and TiO), the two effects act in an opposite manner, and could lead to increasing redshifts during the transit. This behaviour yields species-dependent offsets from a planet's expected $K_\text{p}$ value that can be much larger than planetary wind speeds. The offsets are usually negative for refractory species. We provide an analytical formula to estimate the size of a planet's $K_\text{p}$ offsets, which can serve as a prior for atmospheric retrievals. We conclude that observing the phase-resolved absorption signal of multiple species is key to constraining the 3D thermochemical structure and dynamics of ultra-hot Jupiters.Comment: 21 pages, 14 figures, resubmitted to MNRAS after minor revision

Histologic and Histomorphometric Analysis of Posterior Region of the Human Temporomandibular Disc

Objective The aim of this study was to analyze histologic and histomorphometric features of the articular disc in groups with and without disc displacement. Study design A sample of 39 temporomandibular joints TMJs (31 case specimens, 8 control specimens) from 28 patients (mean age 31.2 years) were recruited for this study. The patients were considered to be affected and treated surgically with disc repositioning when presenting painful clinical signs of disc displacement after unsuccessful nonsurgical treatment for at least 6 months. Of the control patients, 4 presented condyle fracture which required opening to be reduced for treatment, and 4 displayed active condyle hyperplasia. The posterior region of the disc was removed and sent for histologic and histomorphometric analysis. Histologic (hematoxylin-eosin) and histomorphometric (picro-Sirius red) analyses were performed. Statistically significant differences between the analyzed groups were accessed through the chi-squared test (P ≤ .05). The Mann-Whitney U test was used to observe the differences between mean values when variables did not present normal distribution [Kolmogorov-Smirnov(a) test]. Results There were no significant differences between the groups in relation to the parameters studied by histologic and histomorphometric analysis (using or not using polarization). Conclusions To the limits of this study, there were no significant histologic and histomorphometric differences in the articular disc between groups with and without TMJ dysfunction

Experiencing a significant win and its sociodemographic and motivational predictors: A comparative analysis of pure-chance gamblers from Poland and France

Research on the relationship between wins and gambling behavior often focuses on winning considerably large amounts of money. It seems, however, that it is not the amount of the win, but the significance that the player assigns to the win, that exerts a decisive influence on gambling behavior. Therefore, in this study we adopted the concept of significant win: a win perceived by gamblers as important to them. The research aimed to discover what kind of wins are experienced as significant and what factors explain experiencing wins as significant. This study, conducted in Poland (N = 3,143) and France (N = 5,692), also had a comparative goal: discovering intercultural differences in experiencing significant wins. A computer-assisted web survey was administered to gamblers who engaged in pure-chance gambling, where the participant does not influence the outcome of the gamble after the initial bet is placed - selected from representative samples in both countries. We used logistic regression models to examine predictors of significant win experience in both countries and the differences between the countries. The results demonstrated that Polish gamblers more frequently considered a win significant when it was accompanied by strong, often negative emotions and was higher in monetary value normalized in terms of average monthly personal income, than French gamblers. French gamblers more frequently associated a significant win with a positive experience. The common predictors of a significant win experience in both countries were: being in debt, experiencing the win of a close person, gambling in a game of pure chance other than lotteries, more systematic pursuit of gambling, self-enhancement motivation, and coping motivation to gamble. Age at initiation into gambling was a significant predictor only in the French sample, whereas a financial motivation was a significant predictor in the Polish one. The results confirmed that the subjective perception of gambling wins is only partially related to the amounts of wins, which has practical implications for planning prevention strategies

Decomposing the Iron Cross-Correlation Signal of the Ultra-Hot Jupiter WASP-76b in Transmission using 3D Monte-Carlo Radiative Transfer

Ultra-hot Jupiters are tidally locked gas giants with dayside temperatures high enough to dissociate hydrogen and other molecules. Their atmospheres are vastly non-uniform in terms of chemistry, temperature and dynamics, and this makes their high-resolution transmission spectra and cross-correlation signal difficult to interpret. In this work, we use the SPARC/MITgcm global circulation model to simulate the atmosphere of the ultra-hot Jupiter WASP-76b under different conditions, such as atmospheric drag and the absence of TiO and VO. We then employ a 3D Monte-Carlo radiative transfer code, HIRES-MCRT, to self-consistently model high-resolution transmission spectra with iron (Fe I) lines at different phases during the transit. To untangle the structure of the resulting cross-correlation map, we decompose the limb of the planet into four sectors, and we analyse each of their contributions separately. Our experiments demonstrate that the cross-correlation signal of an ultra-hot Jupiter is primarily driven by its temperature structure, rotation and dynamics, while being less sensitive to the precise distribution of iron across the atmosphere. We also show that the previously published iron signal of WASP-76b can be reproduced by a model featuring iron condensation on the leading limb. Alternatively, the signal may be explained by a substantial temperature asymmetry between the trailing and leading limb, where iron condensation is not strictly required to match the data. Finally, we compute the $K_{p}-V_{sys}$ maps of the simulated WASP-76b atmospheres, and we show that rotation and dynamics can lead to multiple peaks that are displaced from zero in the planetary rest frame.Comment: Accepted for publication in MNRAS, 25 pages, 24 figure