Miracle-dz/UniFAR-FTUs huggingface dataset:
Personal resource profiles of individuals with chronic pain: Sociodemographic and pain interference differences.

PURPOSE/OBJECTIVE Previous studies have demonstrated important associations between personal resources and pain interference. Using latent profile analysis, the present study (a) identified subgroups of individuals with chronic pain who have different personal resource profiles; (b) explored sociodemographic differences among subgroups; and (c) examined how these subgroups differ in pain interference. Research Method/Design: Study 1 is based on daily diary and survey data from 220 individuals with fibromyalgia (FM). Study 2 is based on 4 annual surveys of 483 individuals with long-term neurological/neuromuscular disease or injury, and chronic pain. Modifiable personal resource variables including sense of resilience, social support, pain acceptance, and sleep quality were included in latent profile analyses. RESULTS Three subgroups were identified in both studies: High, Moderate, and Low Personal Resource groups. In both studies, annual income level was significantly different among subgroups. Study 1 results showed a significant between-groups difference in pain interference across 21-days only between High and Moderate Personal Resource groups controlling for the level of pain intensity and depressive symptoms. In Study 2, however, all subgroups were significantly different with respect to their levels of pain interference at baseline over and above various covariates, with the Low Personal Resource group reporting the highest level of pain interference at baseline. These baseline differences remained stable over 4 years. CONCLUSIONS/IMPLICATIONS The findings suggest a robust association between economic disparity and personal resource profiles among individuals with chronic pain. The role of different personal resource profiles in pain interference appears to differ by chronic pain condition. (PsycINFO Database Record (c) 2019 APA, all rights reserved).
A Phylogenetic Study of the ANT Family Points to a preANT Gene as the Ancestor of Basal and euANT Transcription Factors in Land Plants

Comparative genomics has revealed that members of early divergent lineages of land plants share a set of highly conserved transcription factors (TFs) with flowering plants. While gene copy numbers have expanded through time, it has been predicted that diversification, co-option, and reassembly of gene regulatory networks implicated in development are directly related to morphological innovations that led to more complex land plant bodies. Examples of key networks have been deeply studied in Arabidopsis thaliana, such as those involving the AINTEGUMENTA (ANT) gene family that encodes AP2-type TFs. These TFs play significant roles in plant development such as the maintenance of stem cell niches, the correct development of the embryo and the formation of lateral organs, as well as fatty acid metabolism. Previously, it has been hypothesized that the common ancestor of mosses and vascular plants encoded two ANT genes that later diversified in seed plants. However, algae and bryophyte sequences have been underrepresented from such phylogenetic analyses. To understand the evolution of ANT in a complete manner, we performed phylogenetic analyses of ANT protein sequences of representative species from across the Streptophyta clade, including algae, liverworts, and hornworts, previously unrepresented. Moreover, protein domain architecture, selection analyses, and regulatory cis elements prediction, allowed us to propose a scenario of how the evolution of ANT genes occurred. In this study we show that a duplication of a preANT-like gene in the ancestor of embryophytes may have given rise to the land plant-exclusive basalANT and euANT lineages. We hypothesize that the absence of euANT-type and basalANT-type sequences in algae, and its presence in extant land plant species, suggests that the divergence of pre-ANT into basal and eu-ANT clades in embryophytes may have influenced the conquest of land by plants, as ANT TFs play important roles in tolerance to desiccation and the establishment, maintenance, and development of complex multicellular structures which either became more complex or appeared in land plants.
Superior Place Learning of C57BL/6 vs. DBA/2 Mice Following Prior Cued Learning in the Water Maze Depends on Prefrontal Cortical Subregions

The participation of the prefrontal cortex (PFC), hippocampus, and dorsal striatum in switching the learning task from cued to place learning were examined in C57BL/6 and DBA/2 mice, by assessing changed levels of phosphorylated CREB (pCREB). Mice of both strains first received cued training in a water maze for 4 days (4 trials per day), and were then assigned to one of four groups, one with no place training, and three with different durations of place training (2, 4, or 8 days). Both strains showed equal performance in cued training. After the switch to place training, C57BL/6 mice with 2 or 4 days of training performed significantly better than DBA/2 mice, but their superiority disappeared during the second half of an 8 days-place training period. The pCREB levels of these mice were measured 30 min after place training and compared with those of mice that received only cued training. Changes in pCREB levels of C57BL/6 mice were greater in the hippocampal CA3, hippocampal dentate gyrus, orbitofrontal and medial PFC than those of DBA/2 mice, when mice of both received the switched place training for 2 days. We further investigated the roles of orbitofrontal and medial PFC among these brain regions showing strain differences, by destroying each region using selective neurotoxins. C57BL/6 mice with orbitofrontal lesions were slower to acquire the place learning and continued to use the cued search acquired during the cued training phase. These findings indicate that mouse orbitofrontal cortex (OFC) pCREB is associated with behavioral flexibility such as the ability to switch a learning task.
Connexin and Pannexin-Based Channels in Oligodendrocytes: Implications in Brain Health and Disease

Oligodendrocytes are the myelin forming cells in the central nervous system (CNS). In addition to this main physiological function, these cells play key roles by providing energy substrates to neurons as well as information required to sustain proper synaptic transmission and plasticity at the CNS. The latter requires a fine coordinated intercellular communication with neurons and other glial cell types, including astrocytes. In mammals, tissue synchronization is mainly mediated by connexins and pannexins, two protein families that underpin the communication among neighboring cells through the formation of different plasma membrane channels. At one end, gap junction channels (GJCs; which are exclusively formed by connexins in vertebrates) connect the cytoplasm of contacting cells allowing electrical and metabolic coupling. At the other end, hemichannels and pannexons (which are formed by connexins and pannexins, respectively) communicate the intra- and extracellular compartments, serving as diffusion pathways of ions and small molecules. Here, we briefly review the current knowledge about the expression and function of hemichannels, pannexons and GJCs in oligodendrocytes, as well as the evidence regarding the possible role of these channels in metabolic and synaptic functions at the CNS. In particular, we focus on oligodendrocyte-astrocyte coupling during axon metabolic support and its implications in brain health and disease.
Conflict Adaptation in 5-Year-Old Preschool Children: Evidence From Emotional Contexts

This research investigated the individual behavioral and electrophysiological differences during emotional conflict adaptation processes in preschool children. Thirty children (16 girls, mean age 5.44 ± 0.28 years) completed an emotional Flanker task (stimulus-stimulus cognitive control, S-S) and an emotional Simon task (stimulus-response cognitive control, S-R). Behaviorally, the 5-year-old preschool children exhibited reliable congruency sequence effects (CSEs) in the emotional contexts, with faster response times (RTs) and lower error rates in the incongruent trials preceded by an incongruent trial (iI trial) than in the incongruent trials preceded by a congruent trial (cI trial). Regarding electrophysiology, the children demonstrated longer N2 and P3 latencies in the incongruent trials than in the congruent trials during emotional conflict control processes. Importantly, the boys showed a reliable CSE of N2 amplitude when faced with fearful target expression. Moreover, 5-year-old children showed better emotional CSEs in response to happy targets than to fearful targets as demonstrated by the magnitude of CSEs in terms of the RT, error rate, N2 amplitude and P3 latency. In addition, the results demonstrated that 5-year-old children processed S-S emotional conflicts and S-R emotional conflicts differently and performed better on S-S emotional conflicts than on S-R emotional conflicts according to the comparison of the RT-CSE and P3 latency-CSE values. The current study provides insight into how emotionally salient stimuli affect cognitive processes among preschool children.
Monitoring Training Loads and Perceived Stress in Young Elite University Athletes

With increased professionalism in sport there has been a greater interest in the scientific approach to training and recovery of athletes. Applying appropriate training loads along with adequate recovery, is essential in gaining maximal adaptation in athletes, while minimizing harm such as overreaching, overtraining, injury and illness. Although appropriate physical stress is essential, stress for many athletes may come from areas other than training. Stress from may arise from social or environmental pressure, and for many athletes who combine elite athletic training with university study, academic workloads create significant stress which adds to the constant pressure to perform athletically. This research aimed to determine if subjective stressors were associated with counterproductive training adaptations in university athletes. Moreover, it aimed to elucidate if, and when, such stressors are most harmful (i.e., certain times of the academic year or sports training season). We monitored subjective (mood state, energy levels, academic stress, sleep quality/quantity, muscle soreness, training load) and objective (injury and illness) markers in 182 young (18–22 years) elite athletes over a 4-year period using a commercially available software package. Athletes combined full-time university study with elite sport and training obligations. Results suggest athletes were relatively un-stressed with high levels of energy at the beginning of each university semester, however, energy levels deteriorated along with sleep parameters toward the examination periods of the year. A logistical regression indicated decreased levels of perceived mood (0.89, 0.85–0.94, Odds Ratio and 95% confidence limits), sleep duration (0.94, 0.91–0.97) and increased academic stress (0.91, 0.88–0.94) and energy levels (1.07, 1.01–1.14) were able to predict injury in these athletes. Examination periods coincided with the highest stress levels and increased likelihood of illness. Additionally, a sudden and high increase in training workload during the preseason was associated with an elevated incidence of injury and illness (r = 0.63). In conclusion, young elite athletes undertaking full-time university study alongside their training and competition loads were vulnerable to increased levels of stress at certain periods of the year (pre-season and examination time). Monitoring and understanding these stressors may assist coaches and support staff in managing overall stress in these athletes.
Persistence of Effects of VLBW/PT Birth Status and Maternal Emotional Availability (EA) on Child EA Trajectories

Few studies have examined the longitudinal impact of birth status on the infant–mother relationship and on children’s socio-emotional development. In the present study we investigated developmental patterns of such relationships [using the Emotional Availability (EA) Scales] in fullterm and VLBW/PT infants from infancy to emerging school age. Our objectives were to: (a) model the developmental trajectories of EA dimensions (maternal sensitivity, structuring, non-hostility; child responsiveness, involvement) in a VLBW/PT and fullterm sample, (b) identify potential effects of VLBW/PT status on these trajectories, and (c) determine whether the effects of VLBW/PT status on children’s socio-emotional development (child EA) remained after accounting for the effect of maternal EA. Child–mother dyads (n = 109) were observed in home-based interactions (face-to-face and free play) when children were 6, 12, 18, and 57-months-old in fullterm (37–41 weeks, >2500 g; n = 48) and healthy VLBW/PT (26–32 weeks gestation, birth weight 800–1500 g, corrected for gestational age; n = 61) children. Developmental trajectories of maternal and child EA were assessed using multilevel growth modeling in Mplus. Results indicated that, even after controlling for maternal EA, there was a persistent negative effect of VLBW/PT birth status on child EA trajectories. Both initially and over time, VLBW/PT infants lagged behind their fullterm counterparts on levels of responsiveness and involvement with mothers. There was also a persistent positive effect of maternal EA (sensitivity and structuring) on child EA trajectories. Higher average levels of maternal sensitivity and structuring across time were also associated with higher and persistent levels of child responsiveness and involvement of their mothers. Importantly, results held after modeling both effects together, and after controlling for maternal education and child gender. Our results have implications for VLBW/PT children’s development, the parent–child relationship, and integrating family level factors and relationship dimensions in early prevention and intervention programs.
Partial Amino Acid Metabolism and Glutamine Synthesis as the Ammonia Defensive Strategies During Aerial Exposure in Chinese Loach Paramisgurnus dabryanus

The Paramisgurnus dabryanus was exposed to air to assess the changes in plasma, liver and muscle free amino acid (FAA) contents. The FAA concentrations in plasma, liver and muscle of P. dabryanus were significantly affected by aerial exposure (P < 0.05). After 12 h of aerial exposure, the plasma glutamate contents increased significantly (P < 0.05) and reached peak value at 24 h of air exposure. With increasing air exposure time, the plasma alanine contents increased significantly and more dramatically than the control values (P < 0.05). From 24 to 48 h of aerial exposure, the liver free glutamate contents increased significantly and reached the peak value at 48 h of air exposure (P < 0.05). The liver free alanine contents in air exposure group were markedly higher than these values in the control group (P < 0.05). After 72 h of air exposure, the muscle free glutamate contents increased markedly (P < 0.05) and were significantly higher than the control values (P < 0.05). The muscle free alanine contents remained at constant values during the first 12 h of aerial exposure (P > 0.05), thereafter, these concentrations increased significantly until the end of experiment (P < 0.05). Our results showed that glutamate and NH4+ could be used to synthesize glutamine via glutamine synthetase to convert internal ammonia into non-toxic glutamine in P. dabryanus during air exposure. Furthermore, the P. dabryanus could catabolize several certain amino acids, leading alanine form to reduce endogenous ammonia production. The decrease in tissue free glutamate, arginine and proline in P. dabryanus indicated that these certain amino acids should be the starting substrate to be converted to alanine and energy.
CD56dim CD16− Natural Killer Cell Profiling in Melanoma Patients Receiving a Cancer Vaccine and Interferon-α

Natural killer (NK) cells are innate cytotoxic and immunoregulatory lymphocytes that have a central role in anti-tumor immunity and play a critical role in mediating cellular immunity in advanced cancer immunotherapies, such as dendritic cell (DC) vaccines. Our group recently tested a novel recombinant adenovirus-transduced autologous DC-based vaccine that simultaneously induces T cell responses against three melanoma-associated antigens for advanced melanoma patients. Here, we examine the impact of this vaccine as well as the subsequent systemic delivery of high-dose interferon-α2b (HDI) on the circulatory NK cell profile in melanoma patients. At baseline, patient NK cells, particularly those isolated from high-risk patients with no measurable disease, showed altered distribution of CD56dim CD16+ and CD56dim CD16− NK cell subsets, as well as elevated serum levels of immune suppressive MICA, TN5E/CD73 and tactile/CD96, and perforin. Surprisingly, patient NK cells displayed a higher level of activation than those from healthy donors as measured by elevated CD69, NKp44 and CCR7 levels, and enhanced K562 killing. Elevated cytolytic ability strongly correlated with increased representation of CD56dim CD16+ NK cells and amplified CD69 expression on CD56dim CD16+ NK cells. While intradermal DC immunizations did not significantly impact circulatory NK cell activation and distribution profiles, subsequent HDI injections enhanced CD56bright CD16− NK cell numbers when compared to patients that did not receive HDI. Phenotypic analysis of tumor-infiltrating NK cells showed that CD56dim CD16− NK cells are the dominant subset in melanoma tumors. NanoString transcriptomic analysis of melanomas resected at baseline indicated that there was a trend of increased CD56dim NK cell gene signature expression in patients with better clinical response. These data indicate that melanoma patient blood NK cells display elevated activation levels, that intra-dermal DC immunizations did not effectively promote systemic NK cell responses, that systemic HDI administration can modulate NK cell subset distributions and suggest that CD56dim CD16− NK cells are a unique non-cytolytic subset in melanoma patients that may associate with better patient outcome.
A Non-linear Relationship Between Selective Attention and Associated ERP Markers Across the Lifespan

The ability to selectively attend to task-relevant information increases throughout childhood and decreases in older age. Here, we intended to investigate these opposing developmental trajectories, to assess whether gains and losses early and late in life are associated with similar or different electrophysiological changes, and to get a better understanding about the development in middle-adulthood. We (re-)analyzed behavioral and electrophysiological data of 211 participants, who performed a colored Flanker task while their Electroencephalography (EEG) was recorded. Participants were subdivided into six groups depending on their age, ranging from 8 to 83 years. We analyzed response speed and accuracy as well as the event replated potential (ERP) components P1 and N1, associated with visual processing and attention, N2 as marker of interference suppression and cognitive control, and P3 as a marker of cognitive updating and stimulus categorization. Response speed and accuracy were low early and later in life, with peak performance in young adults. Similarly, ERP latencies of all components and P1 and N1 amplitudes followed a u-shape pattern with shortest latencies and smallest amplitudes occurring in middle-age. N2 amplitudes were larger in children, and for incongruent stimuli in adults middle-aged and older. P3 amplitudes showed a parietal-to-frontal shift with age. Further, group-wise regression analyses suggested that children’s performance depended on cognitive processing speed, while older adults’ performance depended on cognitive resources. Together these results imply that different mechanisms restrict performance early and late in life and suggest a non-linear relationship between electrophysiological markers and performance in the Flanker task across the lifespan.
Scoring System for Tumor-Infiltrating Lymphocytes and Its Prognostic Value for Gastric Cancer

The tumor microenvironment (TME) is the internal environment of malignant tumor progression, and the host antitumor immune response and normal tissue destruction occur in the TME. Tumor-infiltrating lymphocytes (TIL) is a crucial component of the TME and reflect the host antitumor immune response. The purpose of this study was to discuss the methodology for TIL evaluation and assess the prognostic value of TIL in gastric cancer. In total, we reviewed 1,033 gastrectomy cases between 2002 and 2008 at the Third Affiliated Hospital of Soochow University. To understand the prognostic value of TIL in gastric cancer (GC), TIL were assessed by optical microscopy, and verified by immunohistochemistry. There is no current consensus on TIL scoring in GC. In this study, we discussed a TIL evaluation system that includes an analysis of the amount and percentage of TIL in a tumor. Ultimately, 439 (52.7%) cases showed high levels of TIL and 394 (47.3%) cases had low levels. There was a statistically significant relationship among TIL, tumor size, histological grade, LN metastasis, nerve invasion, tumor thrombus, pTN stage, and WHO subtypes (p < 0.001, respectively). TILhi was a positive significant predictor of overall survival (OS) in Kaplan–Meier survival analysis (P < 0.001) and multivariate Cox regression analysis (HR = 0.431, 95% CI: 0.347–0.534, P < 0.001). After surgery, patients with malignant tumors underwent chemoradiotherapy according to standard therapeutic guidelines based on TNM stage. The TNM scoring system cannot reflect the full information of TME; therefore, TIL can be used as a diagnostic supplement. We constructed a nomogram model that showed more predictive accuracy for OS than pTN stage. In summary, this study proves that high levels of TIL are associated with a positive prognosis and that TIL reflect the protective host antitumor immune response.
McImpute: Matrix Completion Based Imputation for Single Cell RNA-seq Data

Motivation Single cell RNA sequencing has been proved to be revolutionary for its potential of zooming into complex biological systems. Genome wide expression analysis at single cell resolution, provides a window into dynamics of cellular phenotypes. This facilitates characterization of transcriptional heterogeneity in normal and diseased tissues under various conditions. It also sheds light on development or emergence of specific cell populations and phenotypes. However, owing to the paucity of input RNA, a typical single cell RNA sequencing data features a high number of dropout events where transcripts fail to get amplified. Results We introduce mcImpute, a low-rank matrix completion based technique to impute dropouts in single cell expression data. On a number of real datasets, application of mcImpute yields significant improvements in separation of true zeros from dropouts, cell-clustering, differential expression analysis, cell type separability, performance of dimensionality reduction techniques for cell visualization and gene distribution. Availability and Implementation https://github.com/aanchalMongia/McImpute_scRNAseq