Miracle-dz/UniFAR-FTUs huggingface dataset:
An Extended Least Squares Method for Aliasing-Resistant Vector Velocity Estimation

An extended least squares method for robust, angle-independent 2-D vector velocity estimation using plane-wave ultrasound imaging is presented. The method utilizes a combination of least squares regression of Doppler autocorrelation estimates and block matching to obtain aliasing-resistant vector velocity estimates. It is shown that the aliasing resistance of the technique may be predicted using a single parameter, which is dependent on the selected transmit and receive steering angles. This parameter can therefore be used to design the aliasing-resistant transmit-receive setups. Furthermore, it is demonstrated that careful design of the transmit-receive steering pattern is more effective than increasing the number of Doppler measurements to obtain robust vector velocity estimates, especially in the presence of higher order aliasing. The accuracy and robustness of the method are investigated using the realistic simulations of blood flow in the carotid artery bifurcation, with velocities up to five times the Nyquist limit. Normalized root-mean-square (rms) errors are used to assess the performance of the technique. At -5 dB channel data blood SNR, rms errors in the vertical and horizontal velocity components were approximately 5% and 15% of the maximum absolute velocity, respectively. Finally, the in vivo feasibility of the technique is shown by imaging the carotid arteries of healthy volunteers.
Multiple Amino Acid Substitutions in Hemagglutinin Are Necessary for Wild-Type MeaslesVirus To Acquire the Ability To Use Receptor CD46 Efficiently

ABSTRACT Measles virus (MV) possesses two envelope glycoproteins, namely, the receptor-binding hemagglutinin (H) and fusion proteins. Wild-type MV strains isolated in B-lymphoid cell lines use signaling lymphocyte activation molecule (SLAM), but not CD46, as a cellular receptor, whereas MV vaccine strains of the Edmonston lineage use both SLAM and CD46 as receptors. Studies have shown that the residue at position 481 of the H protein is critical in determining the use of CD46 as a receptor. However, the wild-type IC-B strain with a single N481Y substitution in the H protein utilizes CD46 rather inefficiently. In this study, a number of chimeric and mutant H proteins, and recombinant viruses harboring them, were generated to determine which residues of the Edmonston H protein are responsible for its efficient use of CD46. Our results show that three substitutions (N390I and E492G plus N416D or T446S), in addition to N481Y, are necessary for the IC-B H protein to use CD46 efficiently as a receptor. The N390I, N416D, and T446S substitutions are present in the H proteins of all strains of the Edmonston lineage, whereas the E492G substitution is found only in the H protein of the Edmonston tag strain generated from cDNAs. The T484N substitution, found in some of the Edmonston-lineage strains, resulted in a similar effect on the use of CD46 to that caused by the E492G substitution. Thus, multiple residues in the H protein that have not previously been implicated have important roles in the interaction with CD46.
Conséquences de l'hybridation entre des populations domestiques et sauvages de saumons atlantiques (salmo salar) sur l'expression des gènes

The important number of domestic salmon escaplng each year from the aquaculture industry has the potential to negatively affect what remains of wild populations, both ecologically and genetically, through introgressive hybridization. Reduced fitness of domestic individuals in nature, coupled with high level of escapees, could lead to increased genetic loads as weIl as a reduced capacity to adapt to a changing environrnent in wild populations already experiencing severe stock declines. The central objective ofthis project is to assess whether distinct wild populations experience different genetic consequences following domestic-wild hybridization. We measured expression levels of 16000 transcripts in Atlantic salmon individuals from two wild populations, one domestic strain, and two domestic-wild backcross strains (FI hybrid x wild). Transcription level patterns in the five . strains were compared, searching for trends in genetic differentiation, impacted biological functions, and additive versus non-additive mechanisms of gene expression regulation inheritance. We found that i) the two wild populations have differentiated transcription patterns, ii) the domestic strain is also distinct from the wild populations, and iii) the consequences of domestic-wild hybridization altered the introgressed population' s transcriptome in a population-specifie manner. This project demonstrates that genetic consequences following introgressive hybridization are dependent on population-specifie genetic architectures.
Electrocardiographic signs of chronic cor pulmonale: A negative prognostic finding in chronic obstructive pulmonary disease.

BACKGROUND Chronic cor pulmonale (CCP) is a strong predictor of death in chronic obstructive pulmonary disease (COPD). The aims of this study were to assess the prognostic role of individual ECG signs of CCP and of the interaction between these signs and abnormal arterial blood gases. METHODS AND RESULTS Two hundred sixty-three patients (217 men) with COPD, mean age 67+/-9 years, were grouped according to whether they had no ECG signs (group 1, n=100) or >/=1 ECG signs (group 2, n=163) of CCP and were followed up for 13 years after an exacerbation of respiratory failure. The median survival was significantly shorter in group 2 than in group 1 (2.58 versus 3. 45 years, respectively; Mantel-Cox test, 9.58; P=0.002). The Cox regression analysis identified S1S2S3 pattern, right atrial overload (RAO), and alveolar-arterial oxygen gradient (PAO2-PaO2) >48 mm Hg during oxygen therapy as the strongest predictors of death, with hazard rate (HR)=1.81 (95% CI, 1.22 to 2.69), HR=1.58 (95% CI, 1.15 to 2.18), and HR=1.96 (95% CI, 1.19 to 3.25), respectively. The median survivals of patients having both S1S2S3 pattern and RAO (n=14) and of patients having either S1S2S3 pattern or RAO (n=77) were 1.33 and 2.70 years, respectively (P=0.022). Group 2 patients had a 3-year survival of 18% or 53%, depending on whether their PAO2-PaO2 during oxygen therapy was or was not >48 mm Hg. CONCLUSIONS Some ECG signs of CCP and PAO2-PaO2 >48 mm Hg during oxygen therapy qualified as a simple and inexpensive tool for targeting subsets of COPD patients with severe or very severe short-term prognosis.
The protective role of the pericellular matrix in chondrocyte apoptosis.

INTRODUCTION This study was designed to quantify the role of the pericellular matrix (PCM) in chondrocyte apoptosis using chondrons, which are a cartilage functional unit including a chondrocyte and its associated PCM. METHODS Chondrocytes and chondrons were enzymatically isolated from human articular cartilage and exposed to monosodium iodoacetate (MIA) and staurosporine for apoptosis induction. Chondrons were defined by the presence of type VI collagen, a basic component of the PCM. Apoptosis of chondrocytes and chondrons was measured with annexin V binding by flow cytometry and verified with terminal dUTP nick end-labeling staining. In a separate experiment, isolated chondrocytes were treated with soluble type VI collagen, before or after apoptosis induction with MIA, and cell death was measured by the activity of LDH and terminal dUTP nick end-labeling staining. RESULTS Chondrocytes treated with MIA incurred 27% cell death, compared with 12% in chondrons. On treating with MIA, 9% of chondrocytes underwent apoptosis, compared with only 1.6% of chondrons. Similarly, staurosporine induced 13% apoptosis in chondrocytes, whereas it was 3% in chondrons. Preincubation of type VI collagen effectively prevented chondrocytes from MIA-induced cell death. After apoptosis was induced with MIA, however, treatment with type VI collagen failed to rescue chondrocytes from death. CONCLUSION The PCM, a native microenvironment of chondrocytes, protects chondrocytes from apoptosis. Type VI collagen is a functional component of the PCM that contributes to the survival of chondrocytes.
Co-occurrence of multiple sclerosis and Parkinson disease

Parkinson disease (PD) is a neurodegenerative disease of the central nervous system (CNS) with the highest prevalence in adults over 60 years of age On the other hand multiple sclerosis (MS), which mostly affects individuals between 20 and 40 years of age, is another neurodegenerative and autoimmune disease of the CNS, however, less common than PD. Here we aim to report the case of a 39-year-old woman, who developed PD 18 years after diagnosis of MS.
Statistical algorithms for models in state space using SsfPack 2.2

This paper discusses and documents the algorithms of SsfPack 2.2. SsfPack is a suite of C routines for carrying out computations involving the statistical analysis of univariate and multivariate models in state space form. The emphasis is on documenting the link we have made to the Ox computing environment. SsfPack allows for a full range of different state space forms: from a simple time-invariant model to a complicated time-varying model. Functions can be used which put standard models such as ARIMA and cubic spline models in state space form. Basic functions are available for filtering, moment smoothing and simulation smoothing. Ready-to-use functions are provided for standard tasks such as likelihood evaluation, forecasting and signal extraction. We show that SsfPack can be easily used for implementing, fitting and analysing Gaussian models relevant to many areas of econometrics and statistics. Some Gaussian illustrations are given.
Exchange‐influenced T2ρ contrast in human brain images measured with adiabatic radio frequency pulses

Transverse relaxation in the rotating frame (T2ρ) is the dominant relaxation mechanism during an adiabatic Carr–Purcell (CP) spin‐echo pulse sequence when no delays are used between pulses in the CP train. The exchange‐induced and dipolar interaction contributions (T2ρ,ex and T2ρ,dd) depend on the modulation functions of the adiabatic pulses used. In this work adiabatic pulses having different modulation functions were utilized to generate T2ρ contrast in images of the human occipital lobe at magnetic field of 4 T. T2ρ time constants were measured using an adiabatic CP pulse sequence followed by an imaging readout. For these measurements, adiabatic full passage pulses of the hyperbolic secant HSn (n = 1 or 4) family having significantly different amplitude—and frequency—modulation functions were used with no time delays between pulses. A dynamic averaging (DA) mechanism (e.g., chemical exchange and diffusion in the locally different magnetic susceptibilities) alone was insufficient to fully describe differences in brain tissue water proton T2ρ time constants. Measurements of the apparent relaxation time constants (T 2† ) of brain tissue water as a function of the time between centers of pulses (τcp) at 4 and 7 T permitted separation of the DA contribution from that of dipolar relaxation. The methods presented assess T2ρ relaxation influenced by DA in tissue and provide a means to generate T2ρ contrast in MRI. Magn Reson Med 53:823–829, 2005. © 2005 Wiley‐Liss, Inc.
Pharmacokinetics of Midazolam Following Intravenous and Oral Administration in Patients with Chronic Liver Disease and in Healthy Subjects

To study the effects of cirrhosis of the liver on the pharmacokinetics of midazolam single IV (7.5 mg as base) and p.o. (15.0 mg as base) doses of midazolam were administered to seven patients with cirrhosis of the liver and to seven healthy control subjects. One cirrhotic patient did not receive the oral dose. The distribution of midazolam in both study groups was alike as indicated by similar values of t1/2α, V1 and Vss. Also the plasma protein binding of midazolam was unchanged in the patients with cirrhosis. The elimination of midazolam was significantly retarded in the patients as indicated by its lower total clearance (3.34 vs. 5.63 ml/min/kg), lower total elimination rate constant (0.400 vs. 0.721 h−1), and longer elimination half‐life (7.36 vs 3.80 h). The bioavailability of oral midazolam was significantly (P < 0.05) higher in patients than controls (76% vs. 38%). The antipyrine‐half‐life was 32.4 h in the patients and 11.8 h in the controls. There were statistically significant (P < 0.01) correlations between the clearances of the two drugs (r = 0.680) and between their half‐lives (r = 0.755). The hypnotic effects of midazolam were similar in both groups. However, on a pharmacokinetic basis a reduced dosage of midazolam to patients with advanced cirrhosis of the liver is recommended.
VPS35 regulates developing mouse hippocampal neuronal morphogenesis by promoting retrograde trafficking of BACE1

Summary VPS35, a major component of the retromer, plays an important role in the selective endosome-to-Golgi retrieval of membrane proteins. Dysfunction of retromer is a risk factor for neurodegenerative disorders, but its function in developing mouse brain remains poorly understood. Here we provide evidence for VPS35 promoting dendritic growth and maturation, and axonal protein transport in developing mouse hippocampal neurons. Embryonic hippocampal CA1 neurons suppressing Vps35 expression by in utero electroporation of its micro RNAs displayed shortened apical dendrites, reduced dendritic spines, and swollen commissural axons in the neonatal stage, those deficits reflecting a defective protein transport/trafficking in developing mouse neurons. Further mechanistic studies showed that Vps35 depletion in neurons resulted in an impaired retrograde trafficking of BACE1 (&bgr;1-secretase) and altered BACE1 distribution. Suppression of BACE1 expression in CA1 neurons partially rescued both dendritic and axonal deficits induced by Vps35-deficiency. These results thus demonstrate that BACE1 acts as a critical cargo of retromer in vitro and in vivo, and suggest that VPS35 plays an essential role in regulating apical dendritic maturation and in preventing axonal spheroid formation in developing hippocampal neurons.
Contribution of Osmotically Dehydrated Wild Garlic on Biscuits' Quality Parameters

Wild garlic generally improves strengths and regenerates the body and also helps in the treatment of various diseases. In this study the contribution of wild garlic osmotic dehydration process in sugar beet molasses on biscuits' quality parameters is investigated. Presented results showed that addition of osmotically dehydrated wild garlic in molasses impoved textural characteristics of biscuits by lowering hardness and increasing fracturability and also changed colour characteristics of biscuits. Chemical composition of biscuits with added osmotically dehydrated wild garlic was improved in comparison to the biscuits with added fresh wild garlic, where proteins, total sugars, celulose and ash compositions were increased in amounts of 1.86, 3.2, 15.8 and 5.76 % respectively. Addition of osmodehydrated wild garlic had provided higher Zn, Cu and Fe biscuits' content in comparison to the addition of fresh wild garlic, in amounts of 2.75, 15.33 and 15.84 % respectively. Developed mathematical models of biscuits quality parameters were statistically significant, while predicted and observed responses corresponded very well. In effort of obtaining new types of products, new application of known ingredients was proposed, allowing incorporation of sugar beet molasses' rich nutrient content in wheat products formulation.
Scalable Coverage Maintenance for Dense Wireless Sensor Networks

Owing to numerous potential applications, wireless sensor networks have been attracting significant research effort recently. The critical challenge that wireless sensor networks often face is to sustain long-term operation on limited battery energy. Coverage maintenance schemes can effectively prolong network lifetime by selecting and employing a subset of sensors in the network to provide sufficient sensing coverage over a target region. We envision future wireless sensor networks composed of a vast number of miniaturized sensors in exceedingly high density. Therefore, the key issue of coverage maintenance for future sensor networks is the scalability to sensor deployment density. In this paper, we propose a novel coverage maintenance scheme, scalable coverage maintenance (SCOM), which is scalable to sensor deployment density in terms of communication overhead (i.e., number of transmitted and received beacons) and computational complexity (i.e., time and space complexity). In addition, SCOM achieves high energy efficiency and load balancing over different sensors. We have validated our claims through both analysis and simulations.
Effects of Irrelevant Sounds on Phonological Coding in Reading Comprehension and Short term Memory

The effects of irrelevant sounds on reading comprehension and short-term memory were studied in two experiments. In Experiment 1, adults judged the acceptability of written sentences during irrelevent speech, accompanied and unaccompanied singing, instrumental music, and in silence. Sentences varied in syntactic complexity: Simple sentences contained a right-branching relative clause (The applause pleased the woman that gave the speech) and syntactically complex sentences included a centre-embedded relative clause (The hay that the farmer stored fed the hungry animals). Unacceptable sentences either sounded acceptable (The dog chased the cat that eight up all his food) or did not (The man praised the child that sight up his spinach). Decision accuracy was impaired by syntactic complexity but not by irrelevant sounds. Phonological coding was indicated by increased errors on unacceptable sentences that sounded correct. These error rates were unaffected by irrelevant sounds. Experiment 2 examined effects of irrelevant sounds on ordered recall of phonologically similar and dissimilar word lists. Phonological similarity impaired recall. Irrelevant speech reduced recall but did not interact with phonological similarity. The results of these experiments question assumptions about the relationship between speech input and phonological coding in reading and the short-term store.
Assessing a sun protection program aimed at Greek elementary school students for malign melanoma prevention.

INTRODUCTION Numerous countries have launched campaigns regarding sun protection in the last decades. AIM The aim of the present study was to assess an intervention program aimed at higher knowledge and healthier attitudes regarding sun protection. MATERIALS AND METHODS The sample consisted of 4,133 students aged 8-12 years from a single Greek province. RESULTS In most items, knowledge levels after the intervention were found to be higher than those before (2.8±0.9 vs 3.3±0.9), while knowledge about sun protection factors seems to have had the highest improvement (27.1% vs 56.6%). However, student attitudes did not appear to improve, with the exception of applying sunscreen with a higher SPF (29.7% vs 54.8%). Girls seemed to have healthier attitudes compared to boys, but gender played no role with regard to knowledge levels. Also, place of residence did not play any role regarding knowledge levels, although those living in semi-urban areas seemed to have more unhealthy attitudes. Logistic regression by correlating knowledge and attitudes established that higher knowledge levels are usually accompanied by healthier attitudes, albeit marginally. CONCLUSIONS The intervention had a positive contribution to the student knowledge level regarding sun protection and also led to small improvements regarding some attitudes. Continuous similar interventions could lead to better results and the adoption of healthier attitudes.
Herschel-HOBYS study of the earliest phases of high-mass star formation in NGC 6357

Aims. To constrain models of high-mass star formation it is important to identify the massive dense cores (MDCs) that are able to form high-mass star(s). This is one of the purposes of the Herschel/HOBYS key programme. Here, we carry out the census and characterise of the properties of the MDCs population of the NGC 6357 H II region. Methods. Our study is based on the Herschel/PACS and SPIRE 70−500 μm images of NGC 6357 complemented with (sub-)millimetre and mid-infrared data. We followed the procedure established by the Herschel/HOBYS consortium to extract ~0.1 pc massive dense cores using the getsources software. We estimated their physical parameters (temperatures, masses, luminosities) from spectral energy distribution (SED) fitting. Results. We obtain a complete census of 23 massive dense cores, amongst which one is found to be IR-quiet and twelve are starless, representing very early stages of the star-formation process. Focussing on the starless MDCs, we have considered their evolutionary status, and suggest that only five of them are likely to form a high-mass star. Conclusions. We find that, contrarily to the case in NGC 6334, the NGC 6357 region does not exhibit any ridge or hub features that are believed to be crucial to the massive star formation process. This study adds support for an empirical model in which massive dense cores and protostars simultaneously accrete mass from the surrounding filaments. In addition, the massive star formation in NGC 6357 seems to have stopped and the hottest stars in Pismis 24 have disrupted the filaments.
Cellular and Molecular Level Mechanisms against Electrochemical Cancer Therapy

Electrochemical treatment (ECT) is a promising new way to induce tumor regression by flowing direct current into the cancer tissue. ECT was applied to different kinds of tumors in clinical studies and showed good results. In addition, basic research has almost not been done in the field of evaluation of efficacy, dose-response, and cytotoxicity. Therefore, the objective is to study the cellular mechanism in the antitumor effect of ECT and to contribute data of basic research of ECT. In the cell-level study, tumor cells (Sarcoma-180, Scc-7, Ehrlich Carcinoma) were studied using ICR mice and C3H mice. In the study group, pH values of control, 10mA × 150secs, 10mA × 300secs, and 10mA × 600secs groups were measured five times each. In histological level studies, ECT was performed on tumors inoculated on the upper part of the right foot of C3H mice. In each group, mice were sacrificed by cervical dislocation 6, 12, and 24 hrs after ECT treatment, and tumors were removed. The excised tumor was fixed in tissue with 10% formalin, and HE staining and apoptosis antibody staining were carried out from the obtained tissue section and observation. In the study at the cellular level, statistically significant differences were observed in all ECT groups in Sarcoma in the tumor growth measurement study compared with the control group. Statistically significant differences were also observed in Scc-7 in all ECT groups compared to the control group. In the intratumoral pH measurement study, there was a statistically significant difference between the anode and the cathode in each group compared to the control group. In the examination at the histological level, microscopic observation of a slide stained with apoptosis antibody with a magnification of 400 times showed that 6hrs after ECT it was stronger and then decreased. By performing ECT, a weak current flows in the living body. As a result, changes in tissue pH, generation of gas, etc. occur. In this study, it was also confirmed that the intratumor pH value becomes strongly acidic on the anode side and strongly alkaline on the cathode side. In addition, this study confirmed the occurrence of gas during treatment of ECT. Changes in the pH and the like cause changes in the environment in the cell, denaturation of proteins, apoptosis, and necrosis. In this study, a significant increase in apoptosis was confirmed in each ECT group compared to the control group. Treatment effects by ECT were also observed in tumor growth measurement studies and tumor weight measurement studies. From these research results, ECT is considered to be effective as a tumor treatment method.