Miracle-dz/UniFAR-FTUs huggingface dataset:
Facial ontogeny in Neanderthals and modern humans

One hundred and fifty years after the discovery of Neanderthals, it is held that this morphologically and genetically distinct human species does not differ from modern Homo sapiens in its craniofacial ontogenetic trajectory after the early post-natal period. This is striking given the evident morphological differences between these species, since it implies that all of the major differences are established by the early post-natal period and carried into adulthood through identical trajectories, despite the extent to which mechanical and spatial factors are thought to influence craniofacial ontogeny. Here, we present statistical and morphological analyses demonstrating that the spatio-temporal processes responsible for craniofacial ontogenetic transformations differ. The findings emphasize that pre-natal as well as post-natal ontogeny are both important in establishing the cranial morphological differences between adult Neanderthals and modern humans.
Alternative Route for Glyoxylate Consumption during Growth on Two-Carbon Compounds by Methylobacterium extorquens AM1

ABSTRACT Methylobacterium extorquens AM1 is a facultative methylotroph capable of growth on both single-carbon and multicarbon compounds. Mutants defective in a pathway involved in converting acetyl-coenzyme A (CoA) to glyoxylate (the ethylmalonyl-CoA pathway) are unable to grow on both C1 and C2 compounds, showing that both modes of growth have this pathway in common. However, growth on C2 compounds via the ethylmalonyl-CoA pathway should require glyoxylate consumption via malate synthase, but a mutant lacking malyl-CoA/β-methylmalyl-CoA lyase activity (MclA1) that is assumed to be responsible for malate synthase activity still grows on C2 compounds. Since glyoxylate is toxic to this bacterium, it seemed likely that a system is in place to keep it from accumulating. In this study, we have addressed this question and have shown by microarray analysis, mutant analysis, metabolite measurements, and 13C-labeling experiments that M. extorquens AM1 contains an additional malyl-CoA/β-methylmalyl-CoA lyase (MclA2) that appears to take part in glyoxylate metabolism during growth on C2 compounds. In addition, an alternative pathway appears to be responsible for consuming part of the glyoxylate, converting it to glycine, methylene-H4F, and serine. Mutants lacking either pathway have a partial defect for growth on ethylamine, while mutants lacking both pathways are unable to grow appreciably on ethylamine. Our results suggest that the malate synthase reaction is a bottleneck for growth on C2 compounds by this bacterium, which is partially alleviated by this alternative route for glyoxylate consumption. This strategy of multiple enzymes/pathways for the consumption of a toxic intermediate reflects the metabolic versatility of this facultative methylotroph and is a model for other metabolic networks involving high flux through toxic intermediates.
The Growth Mechanism of Copper Nanowires and Their Properties in Flexible, Transparent Conducting Films

Copper nanowires grow from spherical copper seeds in an aqueous solution. Conductive films of copper nanowires have a transmittance of 65% (similar to 15% more than the best values reported for carbon nanotubes), and remain conductive after 1000 bending cycles or one month in air.
Hounsfield units for assessing bone mineral density and strength: a tool for osteoporosis management.

BACKGROUND Measurements obtained from clinical computed tomography examinations may yield information leading to the diagnosis of decreased bone mineral density, without added expense to the patient. The purpose of the present study was to determine if Hounsfield units, a standardized computed tomography attenuation coefficient, correlate with bone mineral density and compressive strength. METHODS Twenty-five patients (including eighteen female and seven male patients with a mean age of 71.3 years) undergoing both lumbar spine dual x-ray absorptiometry scans and computed tomography imaging were evaluated to determine if Hounsfield units correlated with bone mineral density and T-scores. Normative data were generated from lumbar spine computed tomography examinations for eighty consecutive trauma patients and were stratified by age and sex. Separately, polyurethane foam blocks of varying densities were imaged with computed tomography and were subjected to mechanical testing to determine compressive strength. Compressive strength values and Hounsfield units were analyzed for correlation. RESULTS Significant correlations were found between Hounsfield units and bone mineral density, age, and T-scores and between Hounsfield units and compressive strength (p < 0.001). CONCLUSIONS Hounsfield units obtained from clinical computed tomography scans that are made for other purposes correlate with dual x-ray absorptiometry scores as well as compressive strengths based on osseous models and potentially provide an alternative method for determining regional bone mineral density at no additional cost to the patient. The information could conceivably be applied toward fracture risk assessment, diagnosis of osteoporosis, and early initiation of needed treatment.
A Reference Model for Virtual Machine Launching Overhead

Cloud bursting is one of the key research topics in the cloud computing communities. A well designed cloud bursting module enables private clouds to automatically launch virtual machines (VMs) to public clouds when more resources are needed. One of the main challenges in developing a cloud bursting module is to decide when and where to launch a VM so that all resources are most effectively and efficiently utilized and the system performance is optimized. However, based on system operational data obtained from FermiCloud, a private cloud developed by the Fermi National Accelerator Laboratory for scientific workflows, the VM launching overhead is not a constant. It varies with physical resource utilization, such as CPU and I/O device utilizations, at the time when a VM is launched. Hence, to make judicious decisions as to when and where a VM should be launched, a VM launching overhead reference model is needed. In this paper, we first develop a VM launching overhead reference model based on operational data we have obtained on FermiCloud. Second, we apply the developed reference model on FermiCloud and compare calculated VM launching overhead values based on the model with measured overhead values on FermiCloud. Our empirical results on FermiCloud indicate that the developed reference model is accurate. We believe, with the guidance of the developed reference model, efficient resource allocation algorithms can be developed for cloud bursting process to minimize the operational cost and resource waste.
Wire Bond Reliability for Power Electronic Modules - Effect of Bonding Temperature

In this paper, thermal cycling reliability along with ANSYS analysis of the residual stress generated in heavy-gauge Al bond wires at different bonding temperatures is reported. 99.999% pure Al wires of 375 mum in diameter, were ultrasonically bonded to silicon dies coated with a 5mum thick Al metallisation at 25degC (room temperature), 100degC and 200degC, respectively (with the same bonding parameters). The wire bonded samples were then subjected to thermal cycling in air from -60degC to +150degC. The degradation rate of the wire bonds was assessed by means of bond shear test and via microstructural characterisation. Prior to thermal cycling, the shear strength of all of the wire bonds was approximately equal to the shear strength of pure aluminum and independent of bonding temperature. During thermal cycling, however, the shear strength of room temperature bonded samples was observed to decrease more rapidly (as compared to bonds formed at 100degC and 200degC) as a result of a high crack propagation rate across the bonding area. In addition, modification of the grain structure at the bonding interface was also observed with bonding temperature, leading to changes in the mechanical properties of the wire. The heat and pressure induced by the high temperature bonding is believed to promote grain recovery and recrystallisation, softening the wires through removal of the dislocations and plastic strain energy. Coarse grains formed at the bonding interface after bonding at elevated temperatures may also contribute to greater resistance for crack propagation, thus lowering the wire bond degradation rate.
Measurement of RyR permeability reveals a role of calsequestrin in termination of SR Ca2+ release in skeletal muscle

The mechanisms that terminate Ca2+ release from the sarcoplasmic reticulum are not fully understood. D4cpv-Casq1 (Sztretye et al. 2011. J. Gen. Physiol. doi:10.1085/jgp.201010591) was used in mouse skeletal muscle cells under voltage clamp to measure free Ca2+ concentration inside the sarcoplasmic reticulum (SR), [Ca2+]SR, simultaneously with that in the cytosol, [Ca2+]c, during the response to long-lasting depolarization of the plasma membrane. The ratio of Ca2+ release flux (derived from [Ca2+]c(t)) over the gradient that drives it (essentially equal to [Ca2+]SR) provided directly, for the first time, a dynamic measure of the permeability to Ca2+ of the releasing SR membrane. During maximal depolarization, flux rapidly rises to a peak and then decays. Before 0.5 s, [Ca2+]SR stabilized at ∼35% of its resting level; depletion was therefore incomplete. By 0.4 s of depolarization, the measured permeability decayed to ∼10% of maximum, indicating ryanodine receptor channel closure. Inactivation of the t tubule voltage sensor was immeasurably small by this time and thus not a significant factor in channel closure. In cells of mice null for Casq1, permeability did not decrease in the same way, indicating that calsequestrin (Casq) is essential in the mechanism of channel closure and termination of Ca2+ release. The absence of this mechanism explains why the total amount of calcium releasable by depolarization is not greatly reduced in Casq-null muscle (Royer et al. 2010. J. Gen. Physiol. doi:10.1085/jgp.201010454). When the fast buffer BAPTA was introduced in the cytosol, release flux became more intense, and the SR emptied earlier. The consequent reduction in permeability accelerated as well, reaching comparable decay at earlier times but comparable levels of depletion. This observation indicates that [Ca2+]SR, sensed by Casq and transmitted to the channels presumably via connecting proteins, is determinant to cause the closure that terminates Ca2+ release.
Can body expressions contribute to automatic depression analysis?

Depression is one of the most common mental health disorders with strong adverse effects on personal and social functioning. The absence of any objective diagnostic aid for depression leads to a range of subjective biases in initial diagnosis and ongoing monitoring. Psychologists use various visual cues in their assessment to quantify depression such as facial expressions, eye contact and head movements. This paper studies the contribution of (upper) body expressions and gestures for automatic depression analysis. A framework based on space-time interest points and bag of words is proposed for the analysis of upper body and facial movements. Salient interest points are selected using clustering. The major contribution of this paper lies in the creation of a bag of body expressions and a bag of facial dynamics for assessing the contribution of different body parts for depression analysis. Head movement analysis is performed by selecting rigid facial fiducial points and a new histogram of head movements is proposed. The experiments are performed on real-world clinical data where video clips of patients and healthy controls are recorded during interactive interview sessions. The results show the effectiveness of the proposed system to evaluate the contribution of various body parts in depression analysis.
Methods for the detection and enumeration of Alicyclobacillus acidoterrestris and investigation of growth and production of taint in fruit juice and fruit juice‐containing drinks

Methods for the detection of Alicyclobacillus acidoterrestris at a level of 1 cell per 100 ml and enumeration with a sensitivity of 5 cells ml−1 were developed. Spores of A. acidoterrestris survived pasteurization and outgrew and multiplied at a similar rate to vegetative cells in both orange juice and apple juice. Alicyclobacillus acidoterrestris grew readily in orange juice, apple juice and a non‐carbonated fruit juice‐containing drink at temperatures of 25–44°C producing a taint and elevated levels (1–100 ppb) of guaiacol. Isolates of A. acidoterrestris can be identified using the DuPont RiboPrinter. It was isolated from apple drinks, apple juice concentrate and freshly squeezed orange juice.
Rule Creation and Rule Learning Through Environmental Exploration

The task of learning from environment is specified. It requires the learner to infer the laws of the environment in terms of its percepts and actions, and use the laws to solve problems. Based on research on problem space creation and discrimination learning, this paper reports an approach in which exploration, rule creation and rule learning are coordinated in a single framework. With this approach, the system LIVE creates STRIPS-Iike rules by noticing the changes in the environment when actions are taken, and later refines the rules by explaining the failures of their predictions. Unlike many other learning systems, since LIVE treats learning and problem solving as interleaved activities, no training instance nor any concept hierarchy is necessary to start learning. Furthermore, the approach is capable of discovering hidden features from the environment when normal discrimination process fails to make any progress.
Menu‐Labeling Formats and Their Impact on Dietary Quality

ABSTRACT The impact of three menu‐labeling formats on changes in dietary quality of an away‐from‐home meal is measured. The analysis is based on a lunchtime experiment using 232 student participants, with a control group and three treatments: (1) a calorie‐content posting, (2) a complete nutrition‐facts panel, and (3) health‐related claims. We find that the calorie content posting lead to the highest calorie reduction, but it was also the only treatment associated with a significant reduction in the fiber content of the meal. The complete nutrition‐facts panel treatment resulted in most sizable decreases in problematic nutrient content such as empty calories and calories from fat and added sugar. The health‐related claims treatment led to a reduction in carbohydrates and calories from fat. The nutrient density of selected meals remained mostly unchanged across all treatments, but the empty calories proportion of total calories was reduced in the nutrition‐facts and health‐related claims treatments, with the latter also leading to some reduction in added sugar density. [EconLit citations: I12, I18, Q18].
Thioredoxin expression is associated with lymph node status and prognosis in early operable non-small cell lung cancer.

PURPOSE Thioredoxin (TRX), a low molecular weight protein, exerts reduction-oxidation control over a number of transcription factors involved in cell activation and proliferation. High TRX mRNA levels have been found in lung carcinomas, a trait associated with a growth and survival advantage. EXPERIMENTAL DESIGN In this study, we examined the immunohistochemical expression of human TRX in normal lung and in 102 primary non-small cell lung carcinomas. RESULTS In normal lung, the staining for TRX was cytoplasmic in the respiratory bronchial epithelium, alveolar epithelium, and alveolar macrophages. Bronchial glandular cells demonstrated a mixed nuclear and cytoplasmic staining. In lung carcinomas, the pattern of expression for TRX was predominantly cytoplasmic and only occasionally nuclear. A strong association between absence of TRX expression and regional lymph node negativity was observed (P = 0.004). High proliferation index, as detected with Ki-67 antibody, was associated with high TRX expression (P = 0.02). A significant correlation between high cytoplasmic p53 reactivity and low TRX expression was observed (P = 0.04). No association with grade, tumor stage, histology, or bcl-2 was noted. A significant coexpression of TRX with human activator protein endonuclease 1 was recorded (P = 0.04). Absence of TRX expression was associated with a better outcome (P < 0.05). CONCLUSIONS We conclude that overexpression of TRX in non-small cell lung carcinomas is indicative of a more aggressive tumor phenotype and is associated with bad prognostic features and possibly with a poorer outcome.
Dynamic Pricing Based Congestion Control over Wireless Mesh Network

The latest version of IEEE 802.11s draft proposes a simple hop-by-hop congestion control framework without the specific algorithm for congestion detection and local rate control. This paper presents a dynamic pricing policy and new rate control model based congestion control scheme which works at the data link layer (DLL) over IEEE 802.11s draft. We introduce dynamic pricing function as one of the important metrics to local rate control of neighboring nodes. An upstream node selects an optimal transmit rate based on the received price information from the downstream node, thus makes the channel resource utilization balance. The simulation result confirms that our dynamic pricing based congestion control is not only effective for alleviating congestion, but also can improve network performance, such as throughput, fairness and the ratio of packet loss.
Structure-Based Mutational Analysis of the Hepatitis C Virus NS3 Helicase

ABSTRACT The carboxyl terminus of the hepatitis C virus (HCV) nonstructural protein 3 (NS3) possesses ATP-dependent RNA helicase activity. Based on the conserved sequence motifs and the crystal structures of the helicase domain, 17 mutants of the HCV NS3 helicase were generated. The ATP hydrolysis, RNA binding, and RNA unwinding activities of the mutant proteins were examined in vitro to determine the functional role of the mutated residues. The data revealed that Lys-210 in the Walker A motif and Asp-290, Glu-291, and His-293 in the Walker B motif were crucial to ATPase activity and that Thr-322 and Thr-324 in motif III and Arg-461 in motif VI significantly influenced ATPase activity. When the pairing between His-293 and Gln-460, referred to as gatekeepers, was replaced with the Asp-293/His-460 pair, which makes the NS3 helicase more like the DEAD helicase subgroup, ATPase activity was not restored. It thus indicated that the whole microenvironment surrounding the gatekeepers, rather than the residues per se, was important to the enzymatic activities. Arg-461 and Trp-501 are important residues for RNA binding, while Val-432 may only play a coadjutant role. The data demonstrated that RNA helicase activity was possibly abolished by the loss of ATPase activity or by reduced RNA binding activity. Nevertheless, a low threshold level of ATPase activity was found sufficient for helicase activity. Results in this study provide a valuable reference for efforts under way to develop anti-HCV therapeutic drugs targeting NS3.
On Acceleration and Scalability of Number Theoretic Private Information Retrieval

We present scalable and parallel versions of Lipmaa's computationally-private information retrieval (CPIR) scheme [20], which provides log-squared communication complexity. In the proposed schemes, instead of binary decision diagrams utilized in the original CPIR, we employ an octal tree based approach, in which non-sink nodes have eight child nodes. Using octal trees offers two advantages: i) a serial implementation of the proposed scheme in software is faster than the original scheme and ii) its bandwidth usage becomes less than the original scheme when the number of items in the data set is moderately high (e.g., 4,096 for 80-bit security level using Damgard-Jurik cryptosystem). In addition, we present a highly-optimized parallel algorithm for shared-memory multi-core/processor architectures, which minimizes the number of synchronization points between the cores. We show that the parallel implementation is about 50 times faster than the serial implementation for a data set with 4,096 items on an eight-core machine. Finally, we propose a hybrid algorithm that scales the CPIR scheme to larger data sets with small overhead in bandwidth complexity. We demonstrate that the hybrid scheme based on octal trees can lead to more than two orders of magnitude faster parallel implementations than serial implementations based on binary trees. Comparison with the original as well as the other schemes in the literature reveals that our scheme is the best in terms of bandwidth requirement.
Effect of iron depletion in carbohydrate-intolerant patients with clinical evidence of nonalcoholic fatty liver disease.

BACKGROUND & AIMS Increased body iron, genetic hemochromatosis (GH) mutations, and nonalcoholic fatty liver disease (NAFLD) tend to cluster in carbohydrate-intolerant patients. In an attempt to further clarify the interrelationships among these conditions, we studied 42 carbohydrate-intolerant patients who were free of the common GH mutations C282Y and H63D, and had a serum iron saturation lower than 50%. METHODS We measured body iron stores, and induced iron depletion to a level of near-iron deficiency (NID) by quantitative phlebotomy. RESULTS In the 17 patients with clinical evidence of NAFLD, we could not demonstrate supranormal levels of body iron (1.6 +/- 0.2 vs. 1.4 +/- 0.2 g; P = 0.06). However, at NID, there was a 40%-55% improvement (P = 0.05-0.0001) of both fasting and glucose-stimulated plasma insulin concentrations, and near-normalization of serum alanine aminotransferase activity (from 61 +/- 5 to 32 +/- 2 IU/L; P < 0.001). CONCLUSIONS These results reflect the insulin-sparing effect of iron depletion and indicate a key role of iron and hyperinsulinemia in the pathogenesis of NAFLD.
Black Teachers Inside Predominantly White Schools: An Identification of Their Problems.

A black, for the purpose of this investigation, is defined as one who has one or more obvious African ancestors and who is treated as a member of an inferior race. It was assumed that a change in policies of employment as dramatic as is racial desegregation of public school facilities alters perceptions of roles and role relationships at all levels of professional involvement. Frequently, verbatim passages are cited to denote a typical feature and pattern which tends to reflect experiences in common between individual participants and the entire group being studied. In presenting the data, the investigator has chosen the literary form which seems to fit best the data from the standpoint of objectivity and smoothness of presentation. Forty teachers participated.
Effect of inhomogeneity in a patient's body on the accuracy of the pencil beam algorithm in comparison to Monte Carlo

The pencil beam algorithm (PBA) is reasonably accurate and fast. It is, therefore, the primary method used in routine clinical treatment planning for proton radiotherapy; still, it needs to be validated for use in highly inhomogeneous regions. In our investigation of the effect of patient inhomogeneity, PBA was compared with Monte Carlo (MC). A software framework was developed for the MC simulation of radiotherapy based on Geant4. Anatomical sites selected for the comparison were the head/neck, liver, lung and pelvis region. The dose distributions calculated by the two methods in selected examples were compared, as well as a dose volume histogram (DVH) derived from the dose distributions. The comparison of the off-center ratio (OCR) at the iso-center showed good agreement between the PBA and MC, while discrepancies were seen around the distal fall-off regions. While MC showed a fine structure on the OCR in the distal fall-off region, the PBA showed smoother distribution. The fine structures in MC calculation appeared downstream of very low-density regions. Comparison of DVHs showed that most of the target volumes were similarly covered, while some OARs located around the distal region received a higher dose when calculated by MC than the PBA.