Miracle-dz/UniFAR-FTUs huggingface dataset:
Electrophysiological Abnormalities in Both Axotomized and Nonaxotomized Pyramidal Neurons following Mild Traumatic Brain Injury

Mild traumatic brain injury (mTBI) often produces lasting detrimental effects on cognitive processes. The mechanisms underlying neurological abnormalities have not been fully identified, in part due to the diffuse pathology underlying mTBI. Here we employ a mouse model of mTBI that allows for identification of both axotomized and intact neurons in the living cortical slice via neuronal expression of yellow fluorescent protein. Both axotomized and intact neurons recorded within injured cortex are healthy with a normal resting membrane potential, time constant (τ), and input resistance (Rin). In control cortex, 25% of cells show an intrinsically bursting action potential (AP) firing pattern, and the rest respond to injected depolarizing current with a regular-spiking pattern. At 2 d postinjury, intrinsic bursting activity is lost within the intact population. The AP amplitude is increased and afterhyperpolarization duration decreased in axotomized neurons at 1 and 2 d postinjury. In contrast, intact neurons also show these changes at 1 d, but recover by 2 d postinjury. Two measures suggest an initial decrease in excitability in axotomized neurons followed by an increase in excitability within intact neurons. The rheobase is significantly increased in axotomized neurons at 1 d postinjury. The slope of the plot of AP frequency versus injected current is larger for intact neurons at 2 d postinjury. Together, these results demonstrate that intact and axotomized neurons are both affected by mTBI, resulting in different changes in neuronal excitability that may contribute to network dysfunction following TBI.
An Assessment of Carbon Pools, Storage, and Wood Products Market Substitution Using Life-Cycle Analysis Results

The study utilized the results from a life-cycle assessment (LCA) of housing construction to analyze forest products' role in energy displacement and carbon cycling. It analyzed the behavior of three carbon pools associated with forest products: the forest, forest products, and fossil fuel displaced by forest products in end-use markets. The LCA provided data that allowed us to create an accounting system that tracked carbon from sequestration to substitution in forest product end-use markets. The accounts are time-dependent since the size of the carbon pools is influenced by harvest timing; hence the size of each pool is estimated under alternative harvesting scenarios and presented over time. The analysis of the alternative harvesting scenarios resulted in shorter harvest cycles and provided the largest carbon pools when all three pools were considered together. The study concluded that forest products led to a significant reduction in atmospheric carbon by displacing more fossil fuel-intensive products in housing construction. The result has important policy implications since any incentive to manage forest lands to produce a greater amount of forest products would likely increase the share of lands positively contributing to a reduction of carbon dioxide in the atmosphere.
Control of 2 × 2 linear hyperbolic systems: Backstepping-based trajectory generation and PI-based tracking

We consider the problems of trajectory generation and tracking for general 2 × 2 systems of first-order linear hyperbolic PDEs with anti-collocated boundary input and output. We solve the trajectory generation problem via backstepping. The reference input, which generates the desired output, incorporates integral operators acting on advanced and delayed versions of the reference output with kernels which were derived by Vazquez, Krstic, and Coron for the backstepping stabilization of 2×2 linear hyperbolic systems. For tracking the desired trajectory we employ a PI control law on the tracking error of the output. We prove exponential stability of the closed-loop system, under the proposed PI control law, when the parameters of the plant and the controller satisfy certain conditions, by constructing a novel “non-diagonal” Lyapunov functional.
Memory-safe Execution of C on a Java VM

In low-level languages such as C, spatial and temporal safety errors (e.g. buffer overflows or dangling pointer dereferences) are hard to find and can cause security vulnerabilities. Modern high-level languages such as Java avoid these problems by running programs on a virtual machine that provides automated memory management. In this paper we show how we can safely execute C code on top of a modern runtime (e.g., a Java Virtual Machine) by allocating all data on the managed heap. We reuse the memory management of the runtime, hence, we can ensure spatial and temporal safety with little effort. Nevertheless, we retain all characteristics that are typical for unsafe languages (such as pointer arithmetic, pointers into objects, or arbitrary type casts). We discuss how our approach complies with the C99 standard. Compared to an optimized unsafe execution of a C program (compiled with the GNU C compiler and all optimizations enabled) our approach has overhead of 15% on average (peak-performance).
Vitamin D status and circulating biomarkers of endothelial dysfunction and inflammation in non-diabetic obese individuals: a pilot study

Introduction Obesity and inadequate vitamin D status are associated with endothelial dysfunction and cardiovascular disease. We evaluated the associations between vitamin D status (i.e. serum levels of 25-hydroxyvitamin D (25(OH)D)), biomarkers of endothelial dysfunction (i.e. serum concentrations of soluble intercellular adhesion molecule 1 (sICAM-1) and soluble E-selectin (sE-selectin)), inflammatory markers (i.e. high-sensitivity C-reactive protein (hsCRP) and fibrinogen) and cardiometabolic risk factors. Material and methods Fifty obese (body mass index (BMI) ≥ 30 kg/m2) non-diabetic adults (mean age: 36.2 ±5.4 years) without pre-existing cardiovascular abnormalities and 25 clinically healthy, normal weight and age-matched individuals were included. Anthropometric parameters, markers of glucose and lipid metabolism, and serum levels of inflammatory and endothelial dysfunction biomarkers were assessed in all subjects. Results The mean serum 25(OH)D level was significantly lower in the obese group than in controls (33.5 ±15.2 vs. 60.1 ±23.1 nmol/l; p < 0.001). In the obese group, sE-selectin (36.4 (32.1–47.2) vs. 32.4 (24.6–35.5) ng/ml, p < 0.05) and hsCRP (6.0 ±3.4 vs. 3.5 ±1.0 mg/l, p < 0.05) were significantly higher in individuals with lower than median vitamin D levels (i.e. 31 nmol/l) compared with those with higher vitamin D levels. In multivariable linear regression analysis, hsCRP (β = –0.43; p < 0.001) and sE-selectin (β = –0.30; p = 0.03) were independently and significantly associated with serum 25(OH)D levels in the obese group. Conclusions Vitamin D levels may be related to increased levels of biomarkers of endothelial dysfunction and inflammation in obese non-diabetic individuals.
Efficacy and well-being in rural north India: The role of social identification with a large-scale community identity

Identifying with a group can contribute to a sense of well-being. The mechanisms involved are diverse: social identification with a group can impact individuals' beliefs about issues such as their connections with others, the availability of social support, the meaningfulness of existence, and the continuity of their identity. Yet, there seems to be a common theme to these mechanisms: identification with a group encourages the belief that one can cope with the stressors one faces (which is associated with better well-being). Our research investigated the relationship between identification, beliefs about coping, and well-being in a survey (N = 792) administered in rural North India. Using structural equation modelling, we found that social identification as a Hindu had positive and indirect associations with three measures of well-being through the belief that one can cope with everyday stressors. We also found residual associations between participants' social identification as a Hindu and two measures of well-being in which higher identification was associated with poorer well-being. We discuss these findings and their implication for understanding the relationship between social identification (especially with large-scale group memberships) and well-being. We also discuss the application of social psychological theory developed in the urban West to rural north India. © 2014 The Authors. European Journal of Social Psychology published by John Wiley & Sons, Ltd.
Robust Facial Expression Recognition Based on Local Directional Pattern

Automatic facial expression recognition has many potential applications in different areas of human computer interaction. However, they are not yet fully realized due to the lack of an effective facial feature descriptor. In this paper, we present a new appearance‐based feature descriptor, the local directional pattern (LDP), to represent facial geometry and analyze its performance in expression recognition. An LDP feature is obtained by computing the edge response values in 8 directions at each pixel and encoding them into an 8 bit binary number using the relative strength of these edge responses. The LDP descriptor, a distribution of LDP codes within an image or image patch, is used to describe each expression image. The effectiveness of dimensionality reduction techniques, such as principal component analysis and AdaBoost, is also analyzed in terms of computational cost saving and classification accuracy. Two well‐known machine learning methods, template matching and support vector machine, are used for classification using the Cohn‐Kanade and Japanese female facial expression databases. Better classification accuracy shows the superiority of LDP descriptor against other appearance‐based feature descriptors.
A MESH ADAPTATION METHOD FOR 1 D-BOUNDARY LAYER PROBLEMS

We present a one-dimensional version of a general mesh adaptation technique developed in [1, 2] which is valid for two and three-dimensional problems. The simplicity of the one-dimensional case allows to detail all the necessary steps with very simple computations. We show how the error can be estimated on a piecewise finite element of degree k and how this information can be used to modify the grid using local mesh operations: element division, node elimination and node displacement. Finally, we apply the whole strategy to many challenging singularly perturbed boundary value problems where the one-dimensional setting allows to push the adaptation method to its limits.
Genome-Wide Analysis of the Salmonella Fis Regulon and Its Regulatory Mechanism on Pathogenicity Islands

Fis, one of the most important nucleoid-associated proteins, functions as a global regulator of transcription in bacteria that has been comprehensively studied in Escherichia coli K12. Fis also influences the virulence of Salmonella enterica and pathogenic E. coli by regulating their virulence genes, however, the relevant mechanism is unclear. In this report, using combined RNA-seq and chromatin immunoprecipitation (ChIP)-seq technologies, we first identified 1646 Fis-regulated genes and 885 Fis-binding targets in the S. enterica serovar Typhimurium, and found a Fis regulon different from that in E. coli. Fis has been reported to contribute to the invasion ability of S. enterica. By using cell infection assays, we found it also enhances the intracellular replication ability of S. enterica within macrophage cell, which is of central importance for the pathogenesis of infections. Salmonella pathogenicity islands (SPI)-1 and SPI-2 are crucial for the invasion and survival of S. enterica in host cells. Using mutation and overexpression experiments, real-time PCR analysis, and electrophoretic mobility shift assays, we demonstrated that Fis regulates 63 of the 94 Salmonella pathogenicity island (SPI)-1 and SPI-2 genes, by three regulatory modes: i) binds to SPI regulators in the gene body or in upstream regions; ii) binds to SPI genes directly to mediate transcriptional activation of themselves and downstream genes; iii) binds to gene encoding OmpR which affects SPI gene expression by controlling SPI regulators SsrA and HilD. Our results provide new insights into the impact of Fis on SPI genes and the pathogenicity of S. enterica.
Chicken Embryos as a Potential New Model for Early Onset Type I Diabetes

Diabetic retinopathy (DR) is the leading cause of blindness among the American working population. The purpose of this study is to establish a new diabetic animal model using a cone-dominant avian species to address the distorted color vision and altered cone pathway responses in prediabetic and early diabetic patients. Chicken embryos were injected with either streptozotocin (STZ), high concentration of glucose (high-glucose), or vehicle at embryonic day 11. Cataracts occurred in varying degrees in both STZ- and high glucose-induced diabetic chick embryos at E18. Streptozotocin-diabetic chicken embryos had decreased levels of blood insulin, glucose transporter 4 (Glut4), and phosphorylated protein kinase B (pAKT). In STZ-injected E20 embryos, the ERG amplitudes of both a- and b-waves were significantly decreased, the implicit time of the a-wave was delayed, while that of the b-wave was significantly increased. Photoreceptors cultured from STZ-injected E18 embryos had a significant decrease in L-type voltage-gated calcium channel (L-VGCC) currents, which was reflected in the decreased level of L-VGCCα1D subunit in the STZ-diabetic retinas. Through these independent lines of evidence, STZ-injection was able to induce pathological conditions in the chicken embryonic retina, and it is promising to use chickens as a potential new animal model for type I diabetes.
Diagnostic discontinuity in psychosis: a combined study of cortical gyrification and functional connectivity.

The point of rarity in brain structure and function that separates the 2 major psychotic disorders--schizophrenia and bipolar disorder--is presently unknown. The aim of this study is to combine surface anatomical and functional imaging modalities to quantify the integrity of cortical connectivity in pursuit of the neural basis of the Kraepelinian "line of divide. " We tested the hypothesis that multimodal brain regions show overlapping abnormalities in both disorders, while schizophrenia-specific defects are likely to be localized to sensory processing regions. Cortical folding patterns (gyrification) and functional connectivity hub architecture (degree centrality) were studied in a sample of 39 subjects with established schizophrenia, 20 subjects with psychotic bipolar disorder, and 34 healthy controls. We observed a significant difference between the 2 groups in both gyrification and functional connectivity of the visual processing regions. Further, the aberrant functional connectivity of the visual processing regions predicted persistent symptom burden better than the diagnostic information. Using a spatial similarity analysis, we observed that the degree of overlap between the 2 disorders was small (25%) for changes in cortical gyrification and modest (51%) for changes in functional connectivity measured during a cognitive task (n-back). In conclusion, our results suggest that prominent unimodal sensory processing deficits are more likely to be present in schizophrenia than in bipolar disorder. Further, connectivity-based neuroimaging measures appear to be better indicators of diagnostic discontinuity than the symptom-based clinical information.
Complications of tonsillectomy: a comparison of techniques.

OBJECTIVE To compare the postoperative complications of intracapsular tonsillectomy using a microdebrider with traditional electrodissection tonsillectomy. DESIGN Retrospective chart review. SETTING Tertiary care pediatric referral center. PATIENTS The medical records of 2944 patients undergoing tonsillectomy with or without adenoidectomy at our institution between January 1, 2002, and May 31, 2005, were reviewed. MAIN OUTCOME MEASURES Incidence of delayed postoperative hemorrhage, return to the hospital or emergency department for pain or dehydration, and the need for revision surgery. RESULTS There were 1731 patients in the intracapsular tonsillectomy group and 1212 in the traditional electrodissection tonsillectomy group. The incidence of delayed hemorrhage was 1.1% in the intracapsular tonsillectomy group and 3.4% in the traditional electrodissection tonsillectomy group (P < .001). For delayed hemorrhage requiring treatment in the operating room for control, the incidence was 0.5% in the intracapsular tonsillectomy group and 2.1% in the traditional electrodissection tonsillectomy group (P < .001). Treatment in the emergency department or hospital for pain or dehydration was necessary in 3.0% of the intracapsular tonsillectomy group and in 5.4% of the traditional electrodissection tonsillectomy group (P = .002). Eleven patients (0.64%) in the intracapsular tonsillectomy group required revision tonsillectomy. CONCLUSION Intracapsular tonsillectomy has a lower incidence of postoperative hemorrhage and pain leading to hospital-based evaluation compared with traditional electrodissection tonsillectomy.
Shaping planetary nebulae by light jets

We conduct numerical simulations of axisymmetrical jets expanding into a spherical asymptotic giant branch (AGB) slow wind. The three-dimensional flow is simulated with an axially symmetric numerical code. We concentrate on jets that are active for a relatively short time. Our results strengthen other studies that show that jets can account for many morphological features observed in planetary nebulae (PNs). Our main results are as follows. (1) With a single jet's launching episode, we can reproduce a lobe structure having a ‘front lobe’, that is a small bulge on the front of the main lobe, such as that in the PN Mz 3. (2) In some runs, dense clumps are formed along the symmetry axis, such as those observed in the pre-PN M1-92. (3) The mass-loss history of the slow wind has a profound influence on the PN structure. (4) A dense expanding torus (ring; disc) is formed in most of our runs. The torus is formed from the inflated lobes and not from a separate equatorial mass-loss episode. (5) The torus and lobes are formed at the same time and from the same mass-loss rate episode. However, when the slow wind density is steep enough, the ratio of the distance divided by the radial velocity is larger for regions closer to the equatorial plane than for regions closer to the symmetry axis. (6) With the short jet-active phase, a linear relation between distance and expansion velocity is obtained in many cases. (7) Regions at the front of the lobe are moving sufficiently fast to excite some visible emission lines.
Use of Potentially Harmful Medications and Health-Related Quality of Life among People with Dementia Living in Residential Aged Care Facilities

Background: Use of potentially harmful medications (PHMs) is common in people with dementia living in Residential Aged Care Facilities (RACFs) and increases the risk of adverse health outcomes. Debate persists as to how PHM use and its association with quality of life should be measured. We designed this study to determine the association of exposure to PHM, operationalized by three different measures, with self-reported Health-Related Quality of Life among people with dementia residing in RACFs. Methods: Cross-sectional study of 351 people aged >65 years diagnosed with dementia residing in RACFs and with MMSE ≤24. The primary outcome measure was the self-rated Quality of Life – Alzheimer’s disease questionnaire (QoL-AD). We collected data on patients’ medications, age, gender, MMSE total score, Neuropsychiatric Inventory total score, and comorbidities. Using regression analyses, we calculated crude and adjusted mean differences between groups exposed and not exposed to PHM according to potentially inappropriate medications (PIMs; identified by Modified Beers criteria), Drug Burden Index (DBI) >0 and polypharmacy (i.e. ≥5 medications). Results: Of 226 participants able to rate their QoL-AD, 56.41% were exposed to at least one PIM, 82.05% to medication contributing to DBI >0, and 91.74% to polypharmacy. Exposure to PIMs was not associated with self-reported QoL-AD ratings, while exposure to DBI >0 and polypharmacy were (also after adjustment); exposure to DBI >0 tripled the odds of lower QoL-AD ratings. Conclusion: Exposure to PHM, as identified by DBI >0 and by polypharmacy (i.e. ≥5 medications), but not by PIMs (Modified Beers criteria), is inversely associated with self-reported health-related quality of life for people with dementia living in RACFs.
Statistical-Mechanical Approach to Probabilistic Image Processing — Loopy Belief Propagation and Advanced Mean-Field Method —

The framework is presented of Bayesian image restoration for multi-valued images by means of the multi-state classical spin systems. Hyperparameters in the probabilistic models are determined so as to maximize the marginal likelihood. A practical algorithm is described for multi-valued image restoration based on loopy belief propagations in probabilistic inference. Loopy belief propagations are equivalent to the Bethe approximation and the pair approximation of cluster variation method in statistical mechanics.
Clinicopathologic correlations of stage IE/IIE primary thyroid diffuse large B-cell lymphoma.

BACKGROUND We studied the clinicopathological characteristics and prognoses of localized stage thyroid diffuse large B-cell lymphoma (DLBCL). PATIENTS AND METHODS This study included 32 patients with stage I/IIE thyroid DLBCL. Their median age was 66 years, the male/female ratio was 10/22. RESULTS As to the cellular immunophenotype, CD20 was positive in 31/32, CD5 in 0/32, CD10 in 4/32, CD23 in 1/32, BCL2 in 14/30, and BCL6 in 24/32. Twelve cases showed abnormal karyotypes: two cases with t(8;14)(q24;q32), four cases with 3q27, two cases with 17p11, and four cases with other abnormal karyotypes. As for treatment, eight cases were treated with chemotherapy alone and 24 cases were treated with chemotherapy followed by radiotherapy. Complete response was achieved in 94%. The 5-year progression-free survival was 84% and the 5-year overall survival was 90% with a median follow-up period of 62 months. The germinal center B-cell (GCB) type had a significantly better prognosis than the non-GCB type. CONCLUSION Localized stage thyroid DLBCL is a disease with a relatively good prognosis. It is, however, a heterogeneous disease with regard to histological type and pathological state. Localized stage thyroid DLBCL has a good prognosis and it is that there are more GCB-type DLBCL lymphomas.
CD45 Isoform Profile Identifies Natural Killer (NK) Subsets with Differential Activity

The leucocyte-specific phosphatase CD45 is present in two main isoforms: the large CD45RA and the short CD45RO. We have recently shown that distinctive expression of these isoforms distinguishes natural killer (NK) populations. For example, co-expression of both isoforms identifies in vivo the anti tumor NK cells in hematological cancer patients. Here we show that low CD45 expression associates with less mature, CD56bright, NK cells. Most NK cells in healthy human donors are CD45RA+CD45RO-. The CD45RA-RO+ phenotype, CD45RO cells, is extremely uncommon in B or NK cells, in contrast to T cells. However, healthy donors possess CD45RAdimRO- (CD45RAdim cells), which show immature markers and are largely expanded in hematopoietic stem cell transplant patients. Blood borne cancer patients also have more CD45RAdim cells that carry several features of immature NK cells. However, and in opposition to their association to NK cell progenitors, they do not proliferate and show low expression of the transferrin receptor protein 1/CD71, suggesting low metabolic activity. Moreover, CD45RAdim cells properly respond to in vitro encounter with target cells by degranulating or gaining CD69 expression. In summary, they are quiescent NK cells, with low metabolic status that can, however, respond after encounter with target cells.