Miracle-dz/UniFAR-FTUs huggingface dataset:
Natural language indicators of differential gene regulation in the human immune system

Significance Social genomics research has identified a conserved transcriptional response to adversity (CTRA) that may contribute to social disparities in health. This study identified systematic individual differences in natural language use that track CTRA gene expression more closely than do conventional self-report measures of stress, anxiety, or depression. These language style markers may provide a useful behavioral indicator of the neurobiological processes that mediate social influences on gene expression in immune cells. Adverse social conditions have been linked to a conserved transcriptional response to adversity (CTRA) in circulating leukocytes that may contribute to social gradients in disease. However, the CNS mechanisms involved remain obscure, in part because CTRA gene-expression profiles often track external social–environmental variables more closely than they do self-reported internal affective states such as stress, depression, or anxiety. This study examined the possibility that variations in patterns of natural language use might provide more sensitive indicators of the automatic threat-detection and -response systems that proximally regulate autonomic induction of the CTRA. In 22,627 audio samples of natural speech sampled from the daily interactions of 143 healthy adults, both total language output and patterns of function-word use covaried with CTRA gene expression. These language features predicted CTRA gene expression substantially better than did conventional self-report measures of stress, depression, and anxiety and did so independently of demographic and behavioral factors (age, sex, race, smoking, body mass index) and leukocyte subset distributions. This predictive relationship held when language and gene expression were sampled more than a week apart, suggesting that associations reflect stable individual differences or chronic life circumstances. Given the observed relationship between personal expression and gene expression, patterns of natural language use may provide a useful behavioral indicator of nonconsciously evaluated well-being (implicit safety vs. threat) that is distinct from conscious affective experience and more closely tracks the neurobiological processes involved in peripheral gene regulation.
Transients modelling by pruned wavelet trees

A process for recovering particulate carbon from the effluent gas stream from a partial oxidation synthesis gas generator by scrubbing the effluent gas with water in a scrubbing zone to form a carbon-water dispersion, by mixing said dispersion in a mixing zone with liquid organic extractant comprising a mixture of the liquid organic by-products from the oxo or oxyl process, optionally in admixture with a light liquid-hydrocarbon fuel fraction, to produce a clarified water layer and a carbon-extractant dispersion, by separating and recycling said clarified water to said scrubbing zone, by separating said carbon-extractant dispersion and introducing same into a fractional-distillation zone in admixture with fresh liquid-hydrocarbon fuel feedstock, by recycling a light fraction from said distillation zone to said mixing zone as said liquid organic extractant, and by introducing a pumpable bottoms carbon slurry from said distillation zone into said synthesis-gas generator as at least a portion of the fuel.
Indications for postoperative radiotherapy in laryngeal carcinoma: A panel of tumor tissue markers for predicting locoregional recurrence in surgically treated carcinoma. A pilot study

Combining primary surgery with postoperative radiotherapy (RT) significantly reduces locoregional recurrence rates in selected patients with laryngeal squamous cell carcinoma (SCC). A prognostic model was used to see if associating laryngeal SCC tissue markers (mammary serine protease inhibitor [MASPIN], CD105, angiogenin [ANG], and nm23‐H1) with conventional criteria could better discriminate higher‐risk patients warranting postoperative RT.
CD4+T cells do not mediate within-host competition between genetically diverse malaria parasites

Ecological interactions between microparasite populations in the same host are an important source of selection on pathogen traits such as virulence and drug resistance. In the rodent malaria model Plasmodium chabaudi in laboratory mice, parasites that are more virulent can competitively suppress less virulent parasites in mixed infections. There is evidence that some of this suppression is due to immune-mediated apparent competition, where an immune response elicited by one parasite population suppress the population density of another. This raises the question whether enhanced immunity following vaccination would intensify competitive interactions, thus strengthening selection for virulence in Plasmodium populations. Using the P. chabaudi model, we studied mixed infections of virulent and avirulent genotypes in CD4+T cell-depleted mice. Enhanced efficacy of CD4+T cell-dependent responses is the aim of several candidate malaria vaccines. We hypothesized that if immune-mediated interactions were involved in competition, removal of the CD4+T cells would alleviate competitive suppression of the avirulent parasite. Instead, we found no alleviation of competition in the acute phase, and significant enhancement of competitive suppression after parasite densities had peaked. Thus, the host immune response may actually be alleviating other forms of competition, such as that over red blood cells. Our results suggest that the CD4+-dependent immune response, and mechanisms that act to enhance it such as vaccination, may not have the undesirable affect of exacerbating within-host competition and hence the strength of this source of selection for virulence.
Lack of temperature control in infants with abnormalities of central nervous system

The temperature control of 11 infants with severe abnormalities of the central nervous system has been investigated. 4 were normothermic and 7 poikilothermic. Necropsy of the latter showed that either the hypothalamus was absent or disorganized, or the long tracts through the brainstem were unidentifiable, or in one case interrupted by a cervical myelocele. The lateral horn cells, sympathetic nervous system, and brown fat appeared normal. Where the normal reflex responses to warm and cool stimuli were absent, direct stimulation of the effector organs was attempted. Noradrenaline both stimulated heat production and constricted the peripheral skin vessels. Surprisingly, local application of pilocarpine or acetyl choline failed to stimulate the sweat glands which appeared normal at necropsy.
Evidence that Spinach Leaves Express Not Calsequestrin' Calreticulin but

l h e presence of either calreticulin (CRI or calsequestrin (CS)-like proteins in spinach (Spinacia oleracea L.) leaves has been previously described. Here we report the purification from spinach leaves of two highly acidic (isoelectric point 5.2) Ca*+-binding proteins of 56 and 54 kD by means of DEAE-cellulose chromatography followed by phenyl-Sepharose chromatography in the presence of ZnZ+ (i.e. under experimental conditions that allowed the purification of CR from human liver). On the other hand, we failed to identify any protein sharing with animal CS the ability to bind to phenyl-Sepha-rose in the absence of Ca2+. Based on the N-terminal amino acid sequence, the 56- and 54-kD spinach Ca2+-binding proteins were identified as two distinct isoforms of CR. Therefore, we conclude that CR, and not CS, is expressed in spinach leaves. The 56-kD spinach CR isoform was found to be glycosylated, as judged by ligand blot techniques with concanavalin A and affinity chromatography with concanavalin A-Sepharose. Furthermore, the 56-kD CR was found to differ from rabbit liver CR in amino acid sequence, peptide mapping after partia1 digestion with Staphylococcus aureus V8 protease, pH-dependent shift of electrophoretic mobility, and immunological cross-reactivity with an antiserum raised to spinach CR, indicating a low degree of structural homology with animal CRs.
Intact interference and inhibitory functions in participants with bipolar disorder and their first-degree relatives

Introduction: Bipolar disorder (BD) is considered a highly heritable disorder. Several cognitive endophenotypes, such as executive functions and verbal memory, have been suggested. A key component of executive functioning is inhibition, a complex construct consisting of various subtypes. Only some of these subtypes have been investigated in BD participants and their relatives. Recent findings suggest that difficulties with more basic functions such as processing speed may account for some of the deficits observed in BD. This possibility has not been explored for inhibitory functions. Method: The current study investigated interference, behavioral and cognitive inhibition, and set-shifting in 36 BD participants, 24 of their unaffected first-degree relatives, and 40 healthy controls. We first used analysis of variance to assess group differences. This was followed by a second analysis in which we controlled for age and processing speed. Results: Group performances after adjustment for age and processing speed were similar in tasks assessing interference and inhibition. However, shifting to a different task set required more time in BD participants than in controls even after adjustment for age and processing speed. BD relatives appeared to show a similar slowing but findings did not reach significance. Conclusions: The findings suggest that responses to interference and inhibitory functions may be preserved in BD participants; however, set-shifting abilities appear to be impaired in BD participants and may be affected in their relatives. Our findings further underline the importance of adjusting for more basic functions such as processing speed when evaluating neuropsychological functions.
Decreased Phenotypic Susceptibility to Etravirine in Patients with Predicted Genotypic Sensitivity

Background A sensitive, phenotypic reverse transcriptase (RT)-based drug susceptibility assay for the detection of etravirine (ETR) resistance in patient isolates was developed and compared with the results from direct sequencing and ultra-deep pyrosequencing (UDPS). Methods Samples were obtained from 15 patients with antiretroviral therapy (ART) failure and from five non-nucleoside reverse transcriptase inhibitor (NNRTI)-naïve patients of whom four were infected by an NNRTI-resistant strain (transmitted drug resistance, TDR). In five patients, two consecutive samples (a and b) were taken for follow up of the virological response. HIV-1 RT was purified and drug susceptibility (IC50) to ETR was estimated. Direct sequencing was performed in all samples and UDPS in samples from nine patients. Results Increased IC50 to ETR was found in samples from 13 patients where direct sequencing predicted resistance in only four. UDPS identified additional (N = 11) NNRTI resistance associated mutations (RAMs) in six of nine tested patients. During early failure, IC50 increases were observed in three of six patients without any ETR-RAMs detected by direct sequencing. In further two patients, who stopped NNRTI before sampling, increased IC50 values were found shortly after, despite absence of ETR-RAMs. In two patients who had stopped NNRTI for >1 year, a concordance between phenotype and genotypes was found. Two patients with TDR had increased IC50 despite no ETR-RAMs were detected by direct sequencing. UDPS revealed additional ETR-RAMs in four patients with a discrepancy between phenotype and direct sequencing. Conclusions The RT-based phenotypic assay showed decreased ETR susceptibility in patients where direct sequencing predicted ETR-sensitive virus. This increased phenotypic sensitivity was to a large extent supported by UDPS and treatment history. Our method could be valuable for further studies on the phenotypic kinetics of NNRTI resistance. The clinical relevance remains to be studied in larger patient-populations.
Transferring impedance control strategies between heterogeneous systems via apprenticeship learning

We present a novel method for designing controllers for robots with variable impedance actuators. We take an imitation learning approach, whereby we learn impedance modulation strategies from observations of behaviour (for example, that of humans) and transfer these to a robotic plant with very different actuators and dynamics. In contrast to previous approaches where impedance characteristics are directly imitated, our method uses task performance as the metric of imitation, ensuring that the learnt controllers are directly optimised for the hardware of the imitator. As a key ingredient, we use apprenticeship learning to model the optimisation criteria underlying observed behaviour, in order to frame a correspondent optimal control problem for the imitator. We then apply local optimal feedback control techniques to find an appropriate impedance modulation strategy under the imitator's dynamics. We test our approach on systems of varying complexity, including a novel, antagonistic series elastic actuator and a biologically realistic two-joint, six-muscle model of the human arm.
Full Length Research Paper Multivariable Ripple-Free Deadbeat Control

The design of multivariable ripple-free deadbeat controllers is a complex task. One approach which has shown promise for solving multivariable ripple-free deadbeat control (MRFDC) problems is the use of Diophantine equation parameters. The problem of solving robust multivariable ripple free deadbeat with time delays has not been solved. This paper proposes a hybrid two degree of freedom controller utilizing the parameterization of Diophantine equation to build a multivariable ripple-free deadbeat control (MRFDC). The important feature of the proposed approach is that it combines the concept of multivariable input with robust ripplefree deadbeat control. Simulation results show that the output signal tracks the input sinusoidal signal in short settling time.
Interaction of sea ice floe size, ocean eddies, and sea ice melting

The effect of the horizontal size of sea ice floes on sea ice melting is commonly formulated using the ratio between side and basal floe area. This leads to the conclusion that floe size is not important for sea ice evolution when floes exceed about 30 m. This paper considers a mutual interaction between floe size, ocean circulation, and melting. We find that lateral density gradients form at the boundaries of floes and drive ocean‐mixed‐layer instability and energetic eddies that spread from the ice edge. The resulting circulation mixes heat horizontally, melting floes near their edges. Idealized ocean model experiments show that the sea ice response is sensitive to floe size in the range of 1–50 km, considerably larger than previously assumed important, as smaller floes melt more rapidly per unit ice area. It is proposed that the role of eddies and floe size distribution should be incorporated into current climate models.
Electrophysiological correlates of implicit valenced self-processing in high vs. low self-esteem individuals

We provide the first high-temporal resolution account of the self-esteem implicit association test (IAT; Greenwald & Farnham, 2000) to highlight important similarities and differences between the cognitive processes corresponding to implicit valenced self-processing in high vs. low self-esteem individuals. We divided individuals into high and low self-esteem groups based on the Rosenberg self-esteem scale (Rosenberg, 1965) and administered the self-esteem IAT while recording electroencephalographic data. We show that the P2 captured group (high vs. low self-esteem) differences, the N250 and the late parietal positivity (LPP) captured differences corresponding to category pairing (self/positive vs. self/negative pairing), and the N1, P2, and P300–400 components captured interactions between self-esteem groups and whether the self was paired with positive or negative categories in the IAT. Overall, both high and low self-esteem groups were sensitive to the distinction between positive and negative information in relation to the self (me/negative generally displayed larger event-related potential amplitudes than me/positive), but for high self-esteem individuals, this difference was generally larger, earlier, and most pronounced over left-hemisphere electrodes. These electrophysiological differences may reflect differences in attentional resources devoted to teasing apart these two oppositely valenced associations. High self-esteem individuals appear to devote more automatic (early) attentional resources to strengthen the distinction between positively or negatively valenced information in relation to the self.
Identification of an Atypical Grb2 Carboxyl-terminal SH3 Domain Binding Site in Gab Docking Proteins Reveals Grb2-dependent and -independent Recruitment of Gab1 to Receptor Tyrosine Kinases*

The Gab family of docking proteins is phosphorylated in response to various growth factors and cytokines and serves to recruit multiple signaling proteins. Gab1 acts downstream from the Met-hepatocyte growth factor receptor, and Gab1 overexpression promotes Met-dependent morphogenesis of epithelial cells. Recruitment of Gab1 to Met or epidermal growth factor (EGF) receptors requires a receptor-binding site for the Grb2 adapter protein and a proline-rich domain in Gab1, defined as the Met-binding domain. To determine the requirement for Grb2 in Gab1 recruitment, we have mapped two Grb2 carboxyl-terminal SH3 domain binding sites conserved in Gab1 and related protein Gab2. One corresponds to a canonical Grb2-binding motif, whereas the second, located within the Gab1 Met-binding domain, requires the proline and arginine residues of an atypical PXXXR motif. The PXXXR motif is required but not sufficient for Grb2 binding, whereas an extended motif, PX3RX2KPX7PLD, conserved in Gab proteins as well as the Grb2/Gads-docking protein, Slp-76, efficiently competes binding of Grb2 or Gads adapter proteins. The association of Gab1 with Grb2 is required for Gab1 recruitment to the EGF receptor but not the Met receptor. Hence different mechanisms of Gab1 recruitment may reflect the distinct biological functions for Gab1 downstream from the EGF and Met receptors.
The comparison between motor imagery and verbal rehearsal on the learning of sequential movements

Mental practice refers to the cognitive rehearsal of a physical activity. It is widely used by athletes to enhance their performance and its efficiency to help train motor function in people with physical disabilities is now recognized. Mental practice is generally based on motor imagery (MI), i.e., the conscious simulation of a movement without its actual execution. It may also be based on verbal rehearsal (VR), i.e., the silent rehearsal of the labels associated with an action. In this study, the effect of MI training or VR on the learning and retention of a foot-sequence task was investigated. Thirty right-footed subjects, aged between 22 and 37 years old (mean: 27.4 ± 4.1 years) and randomly assigned to one of three groups, practiced a serial reaction time task involving a sequence of three dorsiflexions and three plantar flexions with the left foot. One group (n = 10) mentally practiced the sequence with MI for 5 weeks, another group (n = 10) mentally practiced the sequence with VR of the foot positions for the same duration, and a control group (n = 10) did not practice the sequence mentally. The time to perform the practiced sequence as well as an unpracticed sequence was recorded before training, immediately after training and 6 months after training (retention). The main results showed that the speed improvement after training was significantly greater in the MI group compared to the control group and tended to be greater in the VR group compared to the control group. The improvement in performance did not differ in the MI and VR groups. At retention, however, no difference in response times was found among the three groups, indicating that the effect of mental practice did not last over a long period without training. Interestingly, this pattern of results was similar for the practiced and non-practiced sequence. Overall, these results suggest that both MI training and VR help to improve motor performance and that mental practice may induce non-specific effects.
Depth Estimation Using Monocular and Stereo Cues

Depth estimation in computer vision and robotics is most commonly done via stereo vision (stereopsis), in which images from two cameras are used to triangulate and estimate distances. However, there are also numerous monocular visual cues--such as texture variations and gradients, defocus, color/haze, etc. --that have heretofore been little exploited in such systems. Some of these cues apply even in regions without texture, where stereo would work poorly. In this paper, we apply a Markov Random Field (MRF) learning algorithm to capture some of these monocular cues, and incorporate them into a stereo system. We show that by adding monocular cues to stereo (triangulation) ones, we obtain significantly more accurate depth estimates than is possible using either monocular or stereo cues alone. This holds true for a large variety of environments, including both indoor environments and unstructured outdoor environments containing trees/forests, buildings, etc. Our approach is general, and applies to incorporating monocular cues together with any off-the-shelf stereo system.
Influence of sleep on symptom improvement and return to work in clinical burnout.

OBJECTIVES The current study examined the extent to which symptom improvement and full return to work occurs among clinically burnt-out employees and what the influence of concurring sleep problems is with respect to health recovery. METHODS Fifty-nine burnt-out employees on extended sick leave assessed their symptoms for 2 weeks using an electronic diary. After 6 months, the measurements were repeated. Symptom levels were compared with those of a healthy reference group that was assessed only once. RESULTS After 6 months, all burnout symptoms had decreased significantly, and full return to work was achieved by 37% of the burnt-out individuals. The symptom levels at 6 months of follow-up among those who had fully returned to work were similar to healthy levels and significantly lower than the levels of those still on sick leave. The persons who benefited poorly from sleep at baseline had higher exhaustion levels at follow-up than those who benefited from sleep. Trouble falling asleep and less refreshing sleep at baseline hampered eventual full work resumption. CONCLUSIONS The results show that a significant number of clinically burnt-out employees is able to recover in a 6-month period and that sleep plays an important role both in symptom improvement and in return to work.