Miracle-dz/UniFAR-FTUs huggingface dataset:
Disorders of Emotional Communication in Traumatic Brain Injury

Abstract Traumatic brain injury (TBI) leads to a wide array of behavioral and cognitive deficits. Individuals with TBI often demonstrate difficulties with the recognition and expression of emotion communicated through multiple modalities including facial expression, vocal prosody, and linguistic content. Deficits in emotional communication contribute to a pattern of social pragmatic communication problems, leading to decreased psychosocial function. Growing evidence supports intervention targeting affective processing. This article summarizes the current evidence for evaluation and treatment of affective processing disorders in TBI.
Human Anti–HIV-1 gp120 Monoclonal Antibodies with Neutralizing Activity Cloned from Humanized Mice Infected with HIV-1

Broadly neutralizing, anti–HIV-1 gp120 mAbs have been isolated from infected individuals, and there is considerable interest in developing these reagents for Ab-based immunoprophylaxis and treatment. As a means to identify potentially new anti-HIV Abs, we exploited humanized NOD-scid IL2rγnull mice systemically infected with HIV-1 to generate a wide variety of Ag-specific human mAbs. The Abs were encoded by a diverse range of variable gene families and Ig classes, including IgA, and several showed significant levels of somatic mutation. Moreover, the isolated Abs not only bound target Ags with similar affinity as broadly neutralizing Abs, they also demonstrated neutralizing ability against multiple HIV-1 clades. The use of humanized mice will allow us to use our knowledge of HIV-1 gp120 structure and function, and the immune response targeting this protein, to generate native human prophylactic Abs to reduce the infection and spread of HIV-1.
“We’re Just Sitting Ducks”: Recurrent Household Flooding as An Underreported Environmental Health Threat in Detroit’s Changing Climate

Recurrent inland urban flooding is an understudied phenomenon that warrants greater attention, particularly in post-industrial cities where aging infrastructure, disinvestment, and climate change threaten public health. We conducted semi-structured interviews in 2017–2018 with 18 Detroit residents experiencing recurrent household flooding. We used standard qualitative coding analysis to generate 30 theoretically- and in vivo- derived themes related to flood experience, socioeconomic and health factors, and household, community, and policy interventions for reducing environmental exposures before, during, and after flood events. Snowball sampling yielded interviewees across both high- and low-risk areas for flood events, indicating vulnerability may be widespread and undocumented in formal ways. Residents described exposure to diverse risk factors for chronic and infectious diseases, particularly for seniors and young children, and emphasized stressors associated with repeated economic loss and uncertainty. Opinions varied on the adequacy, responsibility, and equity of local and federal relief funding and programs. We expand knowledge of flood-related vulnerability, offer innovative suggestions for risk communication based on residents’ experiences, and recommend additional research for documenting patterns of recurrent flooding and response, even for precipitation events that are not characterized as extreme or disaster-level in the media or by agencies. These findings should guide local public health, emergency preparedness, sustainability, water and sewage, and community leaders in post-industrial cities.
Transcriptome Analysis Reveals the Mechanism of Fluoride Treatment Affecting Biochemical Components in Camellia sinensis

Tea (Camellia sinensis (L.) O. Kuntze), one of the main crops in China, is high in various bioactive compounds including flavonoids, catechins, caffeine, theanine, and other amino acids. C. sinensis is also known as an accumulator of fluoride (F), and the bioactive compounds are affected by F, however, the mechanism remains unclear. Here, the effects of F treatment on the accumulation of F and major bioactive compounds and gene expression were investigated, revealing the molecular mechanisms affecting the accumulation of bioactive compounds by F treatment. The results showed that F accumulation in tea leaves gradually increased under exogenous F treatments. Similarly, the flavonoid content also increased in the F treatment. In contrast, the polyphenol content, free amino acids, and the total catechins decreased significantly. Special amino acids, such as sulfur-containing amino acids and proline, had the opposite trend of free amino acids. Caffeine was obviously induced by exogenous F, while the theanine content peaked after two day-treatment. These results suggest that the F accumulation and content of bioactive compounds were dramatically affected by F treatment. Furthermore, differentially expressed genes (DEGs) related to the metabolism of main bioactive compounds and amino acids, especially the pivotal regulatory genes of catechins, caffeine, and theanine biosynthesis pathways, were identified and analyzed using high-throughput Illumina RNA-Seq technology and qRT-PCR. The expression of pivotal regulatory genes is consistent with the changes of the main bioactive compounds in C. sinensis leaves, indicating a complicated molecular mechanism for the above findings. Overall, these data provide a reference for exploring the possible molecular mechanism of the accumulation of major bioactive components such as flavonoid, catechins, caffeine, theanine and other amino acids in tea leaves in response to fluoride treatment.
CXCL8 derived from mesenchymal stromal cells supports survival and proliferation of acute myeloid leukemia cells through the PI3K/AKT pathway

The role of proinflammatory cytokines secreted by the bone marrow mesenchymal stromal cells (BM‐MSCs) in the progression of acute myeloid leukemia (AML) is poorly understood. We compared C‐X‐C motif chemokine ligand (CXCL)8 expression levels in the BM‐MSCs of patients with AML and normal control subjects and detected significantly higher levels in the former. Furthermore, CXCL8 was up‐regulated in cocultures of BM‐MSCs and leukemic cell lines compared with either monoculture. CXCL8 expression was significantly higher in MSCs compared with mononuclear cells in patients with de novo AML. To elucidate the function of paracrine CXCL8 in AML, we blocked CXCL8 binding to the C‐X‐C motif chemokine receptor (CXCR)2 in the AML cells using SB225002. Inhibition of CXCL8/CXCR2 binding decreased proliferation in the AML cells by inducing cell cycle arrest at the G0/G1 phase and apoptosis via decreased AKT phosphorylation. Blocking the PI3K/AKT signaling pathway by a specific inhibitor induced similar apoptosis induction and lower proliferation, suggesting that the PI3K/AKT signaling pathway was also involved in CXCL8 action. Taken together, our findings demonstrate that BM‐MSCs are the main source of CXCL8 in the AML bone marrow microenvironment and promote leukemogenesis via the PI3K/AKT signaling pathway, indicating a novel therapeutic target. —Cheng, J., Li, Y. , Liu, S. , Jiang, Y. , Ma, J., Wan, L. , Li, Q. , Pang, T. CXCL8 derived from mesenchymal stromal cells supports survival and proliferation of acute myeloid leukemia cells through the PI3K/AKT pathway. FASEB J. 33,4755–4764 (2019). www.fasebj. org
Master Thesis Communication Filters for Distributed Optimization with the Parameter Server

One of the bottlenecks for distributed machine learning system is the huge communication overhead. In this thesis, we explore the filtering idea to tackle this problem and narrow down the scope to study distributed optimization under parameter server framework. We first discuss the intuition in designing filters based on the redundancy hidden in optimization algorithms. We then derived convergence conditions in applying filters. Based on these analysis, we provide efficient algorithms using sampling and randomized rounding techniques. For applying filters in practice, we also discuss strategies in filtering jointly and the scalability influence. The filters are experimentally proved to be able to reduce communication cost significantly without affecting the learning performance.
The role of angiogenic factors in the management of preeclampsia

Preeclampsia is a pregnancy disorder causing substantial maternal and fetal morbidity and mortality. In the UK, its diagnosis currently depends upon new onset hypertension and proteinuria. There is a clinical need for enhanced screening to prevent unnecessary resource use and improve outcomes. Here, the current practice in preeclampsia diagnosis will be summarized, with assessment of the evidence that angiogenic factors could improve its management. Although the combination of new onset hypertension and proteinuria define and hence diagnose the disorder, separately they are poorly predictive. Preeclampsia is ultimately a placental disease caused by syncytiotrophoblast dysfunction. The angiogenic factors placental growth factor, soluble fms‐like tyrosine kinase 1 and soluble endoglin, all originating at least in part from the syncytiotrophoblast, are biomarkers with predictive potential for preeclampsia and related adverse outcomes. Recent work with the soluble fms‐like tyrosine kinase 1/placental growth factor ratio has identified key measurement cutoffs, with one having a high negative predictive value for preeclampsia. The soluble fms‐like tyrosine kinase 1/placental growth factor ratio seems particularly promising as a screening measure, able to predict accurately the short‐term absence of preeclampsia and suggest the likelihood of adverse events within 4 weeks. The ratio could be used to allocate specific management plans to patients according to risk. An understanding of angiogenic factors may also lead to new therapeutic options for a condition currently only curable by delivery, although it must be remembered that the factors are markers of underlying syncytiotrophoblast stress, which would not be resolved by targeting them.
The regulation of skeletal muscle fatigability and mitochondrial function by chronically elevated interleukin‐6

What is the central question of this study? Interleukin‐6 has been associated with muscle mass and metabolism in both physiological and pathological conditions. A causal role for interleukin‐6 in the induction of fatigue and disruption of mitochondrial function has not been determined. What is the main finding and its importance? We demonstrate that chronically elevated interleukin‐6 increased skeletal muscle fatigability and disrupted mitochondrial content and function independent of changes in fibre type and mass.
Combining Metrics From Clinical Simulators and Sensorimotor Tasks Can Reveal the Training Background of Surgeons

Background: Skill assessment in surgery traditionally has relied on the expert observation and qualitative scoring. Our novel study design demonstrates how analysis of performance in sensorimotor tasks and bench-top surgical simulators can provide inferences about the technical proficiency as well as the training history of surgeons. Methods: We examined metrics for basic sensorimotor tasks in a virtual reality interface as well as motion metrics in clinical scenario simulations. As indicators of the training level, we considered survey responses from surgery residents, including the number of postgraduation years (PGY, four levels), research years (RY, three levels), and clinical years (CY, three levels). Next, we performed a linear discriminant analysis with cross-validation (90% training, 10% testing) to relate the training levels to the selected metrics. Results: Using combined metrics from all stations, we found greater than chance predictions for each survey category, with an overall accuracy of 43.4 ± 2.9% for identifying the level for post-graduate years, 79.1 ± 1.0% accuracy for research training years, and 64.2 ± 1.0% for clinical training years. Our main finding was that combining metrics from all stations resulted in more accurate predictions than using only sensorimotor or clinical scenario tasks. In addition, we found that metrics related to the ability to cope with changes in the task environment were the most important predictors of training level. Conclusions: These results suggest that each simulator-type provided crucial information for evaluating surgical proficiency. The methods developed in this paper could improve evaluations of a surgeon's clinical proficiency as well as training potential in terms of basic sensorimotor ability.
A Meta-Analytic Review of the Association Between Disgust and Prejudice Toward Gay Men

ABSTRACT A sizeable number of studies have documented a relationship between heterosexual persons’ experience of disgust (measured as an individual difference variable or induced experimentally) and prejudice toward gay men (i.e., homonegativity). Yet, to date, no one has attempted to meta-analytically review this corpus of research. We address this gap by conducting a meta-analysis of published and unpublished work examining heterosexual men and women’s disgust and their homonegativity toward gay men. Fourteen articles (12 published, two unpublished) containing 17 studies were analyzed (N = 7,322). The average effect size for disgust sensitivity studies was moderate to large (d = 0.64), whereas for disgust induction studies, the effect was medium (d = .041). Future directions and recommendations for methodological improvements are outlined.
Identification of a metallothionein gene in honey bee Apis mellifera and its expression profile in response to Cd, Cu and Pb exposure

Metallothioneins are ubiquitous proteins important in metal homeostasis and detoxification. However, they have not previously been identified in honey bees or other Hymenoptera, where metallothioneins could be of ecophysiological and ecotoxicological significance. Better understanding of the molecular responses to stress induced by toxic metals could contribute to honey bee conservation. In addition, honey bee metallothionein could represent a biomarker for monitoring environmental quality. Here we identify and characterize a metallothionein gene in Apis mellifera (AmMT). AmMT is 1,680 bp long and encodes a 48 amino acids protein with 15 cysteines and no aromatic residues. A metal response element upstream of the start codon, coupled with numerous cis‐regulatory elements indicate the functional context of AmMT. Molecular modelling predicts several transition metal binding sites, and comparative phylogenetic analysis revealed five putative metallothionein proteins in three other hymenoptera species. AmMT was characterized by cloning the full‐length coding sequence of the putative metallothionein. Recombinant AmMT was found to increase metal tolerance upon overexpression in Escherichia coli supplemented with Cd, Cu or Pb. Finally, in laboratory tests on honey bees, gene expression profiles showed a dose‐dependant relationship between Cd, Cu and Pb concentrations present in food and AmMT expression, while field experiments showed induction of AmMT in bees from an industrial site compared to those from an urban area. These studies suggest that AmMT has metal binding properties in agreement with a possible role in metal homeostasis. Further functional and structural characterization of metallothionein in honey bees and other Hymenoptera are necessary.
Quantitative Imaging Markers of Lung Function in a Smoking Population Distinguish COPD Subgroups with Differential Lung Cancer Risk

Background: Chronic obstructive pulmonary disease (COPD) is a heterogeneous condition with respect to onset, progression, and response to therapy. Incorporating clinical- and imaging-based features to refine COPD phenotypes provides valuable information beyond that obtained from traditional clinical evaluations. We characterized the spectrum of COPD-related phenotypes in a sample of former and current smokers and evaluated how these subgroups differ with respect to sociodemographic characteristics, COPD-related comorbidities, and subsequent risk of lung cancer. Methods: White (N = 659) and African American (N = 520) male and female participants without lung cancer (controls) in the INHALE study who completed a chest CT scan, interview, and spirometry test were used to define distinct COPD-related subgroups based on hierarchical clustering. Seven variables were used to define clusters: pack years, quit years, FEV1/FVC, % predicted FEV1, and from quantitative CT (qCT) imaging, % emphysema, % air trapping, and mean lung density ratio. Cluster definitions were then applied to INHALE lung cancer cases (N = 576) to evaluate lung cancer risk. Results: Five clusters were identified that differed significantly with respect to sociodemographic (e.g., race, age) and clinical (e.g., BMI, limitations due to breathing difficulties) characteristics. Increased risk of lung cancer was associated with increasingly detrimental lung function clusters (when ordered from most detrimental to least detrimental). Conclusions: Measures of lung function vary considerably among smokers and are not fully explained by smoking intensity. Impact: Combining clinical (spirometry) and radiologic (qCT) measures of COPD defines a spectrum of lung disease that predicts lung cancer risk differentially among patient clusters.
Returning to the present moment: Thinking about one’s childhood increases focus on the hedonistic present

Abstract Children seem to live more in the present moment than adults. But is it possible to make the present time perspective more available among adults? Four experiments demonstrated that activating childhood selves can lead adults to be more embedded in the hedonistic present. Studies 1 and 2 showed that recalling memories from childhood, either in an open-ended or a structured form, increased participants’ focus on the hedonistic present. Study 3 showed that this effect also occurred after an implicit childhood manipulation. Study 4 revealed that taking the perspective of a child significantly increased orientation to the hedonistic present, compared to taking the perspective of an adult. The effects of activation of childhood selves were not mediated by mood, nostalgia, impatience, concentration, difficulty of the task, enjoyment connected with the task, or involvement in the task. Evaluation of one’s childhood and tendency to relive childhood memories did not affect the results.
TaARF4 genes are linked to root growth and plant height in wheat

Abstract Background and Aims Auxin response factors (ARFs) as transcription activators or repressors have important roles in plant growth and development, but knowledge about the functions of wheat ARF members is limited. A novel ARF member in wheat (Triticum aestivum), TaARF4, was identified, and its protein function, haplotype geographic distribution and allelic frequencies were investigated. Methods Tissue expression of TaARF4 was analysed by real-time PCR. Sub-cellular localization was performed using green fluorescent protein (GFP)-tagged TaARF4. Ectopic expression of TaARF4-A in arabidopsis was used to study its functions. Electrophoretic mobility shift assays (EMSAs), chromatin immunoprecipitation (ChIP) analyses and gene expression were performed to detect TaARF4 target genes. A dCAPS (derived cleaved amplified polymorphic sequence) marker developed from TaARF4-B was used to identify haplotypes and association analysis between haplotypes and agronomic traits. Key Results TaARF4-A was constitutively expressed and its protein was localized in the nucleus. Ectopic expression of TaARF4-A in arabidopsis caused abscisic acid (ABA) insensitivity, shorter primary root length and reduced plant height (PH). Through expression studies and ChIP assays, TaARF4-A was shown to regulate HB33 expression which negatively responded to ABA, and reduced root length and plant height by repressing expression of Gretchen Hagen 3 (GH3) genes that in turn upregulated indole-3-acetic acid content in arabidopsis. Association analysis showed that TaARF4-B was strongly associated with PH and root depth at the tillering, jointing and grain fill stages. Geographic distribution and allelic frequencies suggested that TaARF4-B haplotypes were selected in Chinese wheat breeding programmes. An amino acid change (threonine to alanine) at position 158 might be the cause of phenotype variation in accessions possessing different haplotypes. Conclusions Ectopic expression and association analysis indicate that TaARF4 may be involved in root length and plant height determination in wheat. This work is helpful for selection of wheat genotypes with optimal root and plant architecture.
Statistical estimation of genomic alterations of tumors

Recent research reveals that personalized medicine is one major way to treat cancer. In order to develop personalized medicine, characterizing the genomic alterations is a vital component. Several methods have been proposed to this end. One of the rst methods is the Genome Alteration Print (GAP) by Popova et al, which uses a deterministic approach. We follow this approach and develop a parametric probabilistic model for GAP, together with its statistical estimation, based on a preliminary segmentation of SNP measurements obtained from microarray experiments. For estimation, we implement the expectation-maximization (EM) algorithm to maximize the likelihood of this model and get the parameter estimation which characterizes the genomic alterations. In our approach, the tumoral ploidy is deduced from penalized model selection. Our model is tested on simulated data and real data.
General practitioners and gestational weight management

Abstract This study aimed to explore the knowledge and practice of New Zealand (NZ) general practitioners (GPs) regarding gestational weight gain (GWG), and identify the current level of involvement NZ GPs have in early pregnancy care. In NZ, the majority of antenatal care is carried out by a midwife lead maternity carer (LMC), with government funding for one first trimester appointment with the woman’s GP. A mixed methods survey was conducted on a randomly selected sample of 470 NZ GPs. Survey responses were analysed using descriptive statistics and a general inductive approach for free text data. A total of 200 GPs (42.5%) responded. Half of the GPs regularly saw women in their early pregnancy, but the discussion of recommended GWG was uncommon. The knowledge and practice regarding GWG was not in keeping with the national guidance. Free text analysis identified time pressures, funding issues, loss of skill and a poor communication with LMCs as the barriers to care. Education, promotion of guidance, appropriate funding and improved communication between carers are critical to address the current shortfalls. Impact statement What is already known on this subject? Excess gestational weight gain (GWG) is a modifiable risk factor for the vast majority of obstetric complications. It is more likely in pregnant women who overestimate the appropriate GWG. Current literature suggests that the antenatal advice on GWG is insufficient. In New Zealand (NZ), there is provision for one funded general practitioner (GP) appointment in the first trimester, in addition to that provided by the lead maternity carer (LMC). GPs are expected to provide a range of services at this appointment including health information and education on nutrition. What the results of this study add? The results demonstrate that while GPs are seeing women in early pregnancy, specific GWG discussion is uncommon. The results suggest knowledge gaps are partially responsible for this along with GP self-reported frustrations at lack of time, funding issues, loss of relevant skills, and minimal contact with LMCs. What the implications are of these findings for clinical practice and/or further research? Mediocre gestational weight management is not acceptable in our current obesity climate. This research identifies a need to improve GP knowledge on the management of GWG as part of the wider maternity healthcare team, address GP concerns regarding funding for their provision of maternity care, and aid communication between GPs and LMCs.