Miracle-dz/UniFAR-FTUs huggingface dataset:
Optimum Lean Body Formulation for Correction of Standardized Uptake Value in PET Imaging

Standardized uptake value (SUV) normalized by lean body mass ([LBM] SUL) is becoming a popular metric for quantitative assessment of clinical PET. Sex-specific quantitative effects of different LBM formulations on liver SUV have not been well studied. Methods: 18F-FDG PET/CT scans from 1,033 consecutive adult (501 women, 532 men) studies were reviewed. Liver SUV was measured with a 3-cm-diameter spheric region of interest in the right hepatic lobe and corrected for LBM using the sex-specific James and Janmahasatian formulations. Results: Body weight was 71.0 ± 20.7 kg (range, 18.0–175.0 kg) and 82.9 ± 18.6 kg (range, 23.0–159.0 kg) for women and men, respectively. SUV, based on body weight, has a significantly positive correlation with weight for both women (r = 0.58, P < 0.0001) and men (r = 0.54, P < 0.0001). This correlation is reduced in men (r = 0.11, P = 0.01) and becomes negative for women (r = −0.35, P = 0.0001) with the James formulation of SUL. This negative correlation was eliminated when the very obese women (body mass index ≥ 35) were excluded from the analysis (r = 0.13, P = 0.8). The Janmahasatian formulation annuls the correlation between SUL and weight for women (r = 0.04, P = 0.4) and decreases it for men (r = 0.13, P = 0.003). Conclusion: Hepatic correction with the more common James formulation for body lean mass breaks down and shows low SUL values in very obese patients. The adoption of the Janmahasatian formula for estimation of LBM in modern PET scanners and display workstations is recommended, in view of the increasing frequency of obesity.
The sea louse Lepeophtheirus acutus (Caligidae, Siphonostomatoida, Copepoda) as a pathogen of aquarium-held elasmobranchs.

Lepeophtheirus acutus Heegaard, 1943 (Caligidae, Siphonostomatoida, Copepoda), was collected from or observed on four of six elasmobranch species held at Burgers' Zoo (Arnhem, The Netherlands). Circumstantial evidence suggested that a zebra shark, Stegostoma fasciatum (Hermann), from the wild carried the infection into the facility, where copepods reproduced and colonized additional hosts. Copepods typically attached on and about the eyes, in the mouth and occasionally about the cloaca and on the claspers. Severe ocular lesions were associated with infections on zebra sharks, a grey reef shark, Carcharhinus amblyrhynchos (Bleeker), whitetip reef sharks, Triaenodon obesus (Rüppell), and giant shovelnose ray, Rhinobatos typus Bennett, while blacktip reef sharks, Carcharhinus melanopterus (Quoy & Gaimard), and blacktip sharks, Carcharhinus limbatus (Valenciennes), living in infested aquaria showed no sign of infection. Water treatments using trichlorfon were considered primarily responsible for the eradication of copepods from hosts and infested aquaria. This case is the first report of a copepod infection being closely associated with disease and death of an aquarium-held elasmobranch. Given its ability to infect a wide variety of elasmobranchs and promote life-threatening lesions on some hosts, L. acutus should be considered a dangerous pathogen of captive elasmobranchs.
Bird colour vision: behavioural thresholds reveal receptor noise

Birds have impressive physiological adaptations for colour vision, including tetrachromacy and coloured oil droplets, yet it is not clear exactly how well birds can discriminate the reflecting object colours that they encounter in nature. With behavioural experiments, we determined colour discrimination thresholds of chickens in bright and dim light. We performed the experiments with two colour series, orange and green, covering two parts of chicken colour space. These experiments allowed us to compare behavioural results with model expectations and determine how different noise types limit colour discrimination. At intensities ranging from bright light to those corresponding to early dusk (250–10 cd m−2), we describe thresholds accurately by assuming a constant signal-to-noise ratio, in agreement with an invariant Weber fraction of Weber's law. Below this intensity, signal-to-noise ratio decreases and Weber's law is violated because photon-shot noise limits colour discrimination. In very dim light (below 0.05cd m−2 for the orange series or 0.2 cd m−2 for the green series) colour discrimination is possibly constrained by dark noise, and the lowest intensity at which chickens can discriminate colours is 0.025 and 0.08 cd m−2 for the orange and green series, respectively. Our results suggest that chickens use spatial pooling of cone outputs to mitigate photon-shot noise. Surprisingly, we found no difference between colour discrimination of chickens and humans tested with the same test in bright light.
Synthesis of multiplier-less FIR filters with minimum number of additions

In this paper we present optimizing transformations to minimize the number of additions+subtractions in both the direct form (/spl Sigma/ A/sub i/X/sub n-i/ based) and its transposed form (Multiple Constant Multiplication based) implementation of FIR filters. These transformations are based on the iterative elimination of 2-bit common subexpressions in the coefficients binary representations. We give detailed description of the algorithms and present results for eight low pass FIR filters with the number of coefficients ranging from 16 to 128. The results show upto 35% reduction in the number of additions+subtractions to implement /spl Sigma/ A/sub i/X/sub n-i/ based FIR filter structures and upto 38% reduction to implement MCM based structures.
Mitochondria-Mediated Apoptosis of Lung Epithelial Cells in Idiopathic Interstitial Pneumonias

We previously demonstrated that the up-regulation of p53, Fas, and DNA damage are present in lung epithelial cells from patients with idiopathic interstitial pneumonias (IIP). Fas ligation induces apoptosis of lung epithelial cells predominantly through the direct activation of the caspase cascade via caspase-8 activation, whereas the up-regulation of p53 and other cellular stresses can induce mitochondria-mediated apoptosis. In this study, we investigated the incidence of mitochondria-mediated apoptosis of epithelial cells in IIP. We performed TUNEL staining to detect apoptotic cells and western blot analysis and immunohistochemistry to assess the expression and activation of caspases and the cytochrome c release from mitochondria in lung tissues from eight patients with usual interstitial pneumonia, five patients with nonspecific interstitial pneumonia, and eight patients with normal lung parenchyma. The expressions of pro- and cleaved caspase-8, 9, 3, and cytochrome c release from the mitochondria were all significantly increased in the lung tissues of IIP compared with normal lung parenchyma. The positive signals for caspases in epithelial cells were increased in IIP compared with normal lung parenchyma by immunohistochemistry. The results of TUNEL and electron microscopy suggested that apoptotic cells were predominantly epithelial cells. TUNEL-positive cells in % of epithelial cells were significantly increased in IIP compared with normal lung parenchyma, and significantly correlated with cytochrome c release from the mitochondria and with the expression of cleaved caspase-3 in epithelial cells. We conclude that mitochondria-mediated apoptosis may be involved in the pathophysiology of IIP.
Regulation of ocular lens development by Smad-interacting protein 1 involving Foxe3 activation

Sip1, a Smad-binding zinc-finger homeodomain transcription factor, has essential functions in embryonic development, but its role in individual tissues and the significance of its interaction with Smad proteins have not been fully characterized. In the lens lineage, Sip1 expression is activated after lens placode induction, and as the lens develops, the expression is localized in the lens epithelium and bow region where immature lens fibers reside. The lens-lineage-specific inactivation of the Sip1 gene was performed using mice homozygous for floxed Sip1 that carry a lens-specific Cre recombinase gene. This caused the development of a small hollow lens connected to the surface ectoderm, identifying two Sip1-dependent steps in lens development. The persistence of the lens stalk resembles a defect in Foxe3 mutant mice, and Sip1-defective lenses lose Foxe3 expression, placing Foxe3 downstream of Sip1. In the Sip1-defective lens, β-crystallin-expressing immature lens fiber cells were produced, but γ-crystallin-expressing mature fiber cells were absent, indicating the requirement for Sip1 activity in lens fiber maturation. A 6.2 kb Foxe3 promoter region controlled lacZ transgene expression in the developing lens, where major and minor lens elements were identified upstream of -1.26 kb. Using transfection assays, the Foxe3 promoter was activated by Sip1 and this activation is further augmented by Smad8 in the manner dependent on the Smad-binding domain of Sip1. This Sip1-dependent activation and its augmentation by Smad8 occur using the proximal 1.26 kb promoter, and are separate from lens-specific regulation. This is the first demonstration of the significance of Smad interaction in modulating Sip1 activity.
Learning Multiuser Channel Allocations in Cognitive Radio Networks: A Combinatorial Multi-Armed Bandit Formulation

We consider the following fundamental problem in the context of channelized dynamic spectrum access. There are $M$ secondary users and $N \ge M$ orthogonal channels. Each secondary user requires a single channel for operation that does not conflict with the channels assigned to the other users. Due to geographic dispersion, each secondary user can potentially see different primary user occupancy behavior on each channel. Time is divided into discrete decision rounds. The throughput obtainable from spectrum opportunities on each user-channel combination over a decision period is modeled as an arbitrarily-distributed non-negative random variable with bounded support but unknown mean, i.i. d. over time. The objective is to search for an allocation of channels for all users that maximizes the expected sum throughput. We formulate this problem as a combinatorial multi-armed bandit (MAB), in which each arm corresponds to a matching of the users to channels. Unlike most prior work on multi-armed bandits, this combinatorial formulation results in dependent arms. Moreover, the number of arms grows super-exponentially as the permutation $P(N,M)$. We present a novel matching-learning algorithm with polynomial storage and polynomial computation per decision period for this problem, and prove that it results in a regret (the gap between the expected sum-throughput obtained by a genie-aided perfect allocation and that obtained by this algorithm) that is uniformly upper-bounded for all time $n$ by a function that grows as $O(M^4 N log n)$, i.e. polynomial in the number of unknown parameters and logarithmic in time. We also discuss how our results provide a non-trivial generalization of known theoretical results on multi-armed bandits.
Code-aided joint channel estimation and frame synchronization for MIMO systems

This contribution deals with the problem of joint frame synchronization and channel estimation for a system using bit-interleaved coded modulation in a MIMO context. A receiver, based on the EM algorithm, is derived. This receiver iterates between detection and estimation. We illustrate how initial estimates may be obtained and how convergence problems may be avoided. Through computer simulations the performance of the proposed receiver is investigated, both in terms of frame error rate (FER) and estimation error variance. We show that exploiting code properties for estimation purposes allows to reduce the length of training sequences and thus results in an increase in spectral efficiency.
Crystal growth and normal state transport of electron doped high temperature superconductors

The present thesis deals with the improvement of the growth and annealing parameters as well as the influence of oxygen impurities on the structural and electronic properties of Re2-xCexCuO4 (Re = La, Pr, Nd, Sm) single crystals. For transport measurements a sample set of high quality single crystals of Nd2-xCexCuO4 was available, which covers the major part of the phase diagram on the electron doped side of the cuprate high temperature superconductors. The resulting unusual transport data of the optimally doped and overdoped crystals can be explained within conventional Boltzmann transport theory when applying a two-band model with anisotropic scattering rates.
TLR2 Controls Intestinal Carcinogen Detoxication by CYP1A1

Intestinal cytochrome P450 subclass 1A1 (CYP1A1) contributes to a metabolic “shield” protecting the host from ingested carcinogens such as polycyclic aromatic hydrocarbons (PAH). The expression of CYP1 (including CYP1A2 and CYP1B1) is considered to depend solely on a heterodimeric transcription factor consisting of the arylhydrocarbon receptor (AHR) and the AHR nuclear translocator (ARNT). So far, no interference has been noted between the regulation of CYP1 and the activation of Toll-like receptor 2 (TLR2), which modulates the inflammatory response to bacterial cell wall components in immune cells and enterocytes. Here we report that intestinal CYP1A1 is silenced in TLR2-deficient mice, even when under exposure to the carcinogenic PAH benzo[a]pyrene (BaP). In contrast, hepatic CYP1A1 was moderately induced in TLR2-deficient mice without restoring their ability to clear BaP from systemic circulation, as present in wild-type animals. After feeding of BaP for 21 days, only TLR2−/− mice, but not their wild type littermates developed polyps in the colon. Gene expressions and protein concentrations of AHR and ARNT in the intestine did not differ between the genotypes. In conclusion, the presence of ligands for TLR2 of bacterial origin seems to be crucial for detoxication of luminal carcinogens by CYP1A1 in the intestine. This unprecedented finding indicates a complex interplay between the immune system of the host and intestinal bacteria with detoxication mechanisms. This highlights the relevance of intestinal microbiota when trying to unravel pathways present in mammals and opens new perspectives for research in human health.
Membrane-Active Epithelial Keratin 6A Fragments (KAMPs) Are Unique Human Antimicrobial Peptides with a Non-αβ Structure

Antibiotic resistance is a pressing global health problem that threatens millions of lives each year. Natural antimicrobial peptides and their synthetic derivatives, including peptoids and peptidomimetics, are promising candidates as novel antibiotics. Recently, the C-terminal glycine-rich fragments of human epithelial keratin 6A were found to have bactericidal and cytoprotective activities. Here, we used an improved 2-dimensional NMR method coupled with a new protocol for structural refinement by low temperature simulated annealing to characterize the solution structure of these kerain-derived antimicrobial peptides (KAMPs). Two specific KAMPs in complex with membrane mimicking sodium dodecyl sulfate (SDS) micelles displayed amphipathic conformations with only local bends and turns, and a central 10-residue glycine-rich hydrophobic strip that is central to bactericidal activity. To our knowledge, this is the first report of non-αβ structure for human antimicrobial peptides. Direct observation of Staphylococcus aureus and Pseudomonas aeruginosa by scanning and transmission electron microscopy showed that KAMPs deformed bacterial cell envelopes and induced pore formation. Notably, in competitive binding experiments, KAMPs demonstrated binding affinities to LPS and LTA that did not correlate with their bactericidal activities, suggesting peptide-LPS and peptide-LTA interactions are less important in their mechanisms of action. Moreover, immunoprecipitation of KAMPs-bacterial factor complexes indicated that membrane surface lipoprotein SlyB and intracellular machineries NQR sodium pump and ribosomes are potential molecular targets for the peptides. Results of this study improve our understanding of the bactericidal function of epithelial cytokeratin fragments, and highlight an unexplored class of human antimicrobial peptides, which may serve as non-αβ peptide scaffolds for the design of novel peptide-based antibiotics.
Association Mapping for Important Agronomic Traits in Core Collection of Rice (Oryza sativa L.) with SSR Markers

Mining elite genes within rice landraces is of importance for the improvement of cultivated rice. An association mapping for 12 agronomic traits was carried out using a core collection of rice consisting of 150 landraces (Panel 1) with 274 simple sequence repeat (SSR) markers, and the mapping results were further verified using a Chinese national rice micro-core collection (Panel 2) and a collection from a global molecular breeding program (Panel 3). Our results showed that (1) 76 significant (P<0.05) trait-marker associations were detected using mixed linear model (MLM) within Panel 1 in two years, among which 32% were identical with previously mapped QTLs, and 11 significant associations had >10% explained ratio of genetic variation; (2) A total of seven aforementioned trait-marker associations were verified within Panel 2 and 3 when using a general linear model (GLM) and 55 SSR markers of the 76 significant trait-marker associations. However, no significant trait-marker association was found to be identical within three panels when using the MLM model; (3) several desirable alleles of the loci which showed significant trait-marker associations were identified. The research provided important information for further mining these elite genes within rice landraces and using them for rice breeding.
Random Whole Body Vibration over 5 Weeks Leads to Effects Similar to Placebo: A Controlled Study in Parkinson's Disease

Background. Random whole body vibration (WBV) training leads to beneficial short-term effects in patients with Parkinson's disease (PD). However, the effect of WBV lasting several weeks is not clear. Objectives. The aim of this study was to assess a random WBV training over 5 weeks in PD. Methods. Twenty-one participants with PD were allocated to either an experimental or a placebo group matched by age, gender, and Hoehn&Yahr stage. The WBV training consisted of 5 series, 60 s each. In the placebo group, vibration was simulated. The primary outcome was the change of performance in Functional reach test (FRT), step-walk-turn task, biomechanical Gait Analysis, Timed up and go test (TUG), and one leg stance. Findings. In most of the parameters, there was no significant interaction of “time∗group. ” Both groups improved significantly in Gait parameters, TUG, and one leg stance. Only in the FRT [F(1,15) = 8.397; P < 0.05] and in the TUG [F(1,15) = 4.971; P < 0.05] the experimental group performed significantly better than the placebo group. Conclusions. Random WBV training over 5 weeks seems to be less effective than reported in previous studies performing short-term training. The slight improvements in the FRT and TUG are not clinically relevant.
The burden of osteoporotic fractures beyond acute care: the Canadian Multicentre Osteoporosis Study (CaMos).

BACKGROUND the burden associated with osteoporotic fractures has commonly been reported in terms of utilisation of acute care. However, individuals with fractures suffer lasting deficits in quality of life and the burden of care extends well beyond the initial acute care period. The burden of fractures related to post-acute heath care utilisation, and informal care giving, has not been sufficiently addressed. We examine the use of formal and informal post-acute care in men and women 50 years and older who sustained fractures. METHODS the study sample consisted of 1,116 men and women from the Canadian Multicentre Osteoporosis Study (CaMos) who sustained a fracture. We assessed utilisation of post-acute care including rehabilitative and home care services, as well as informal care in persons with a hip, vertebral, or non-hip-non-vertebral fractures. RESULTS use of rehabilitative and home care services was reported by 37.1% and 18.2% of men and women, respectively. Persons with hip fracture were more likely to report use of these services compared with persons with non-hip-non-vertebral fractures; those with vertebral fracture were less likely to report using these services. Use of informal care was reported by 47.2% of participants. Individuals with multiple fractures made more extensive use of post-acute resources compared with those with single fractures. CONCLUSIONS use of post-acute care in individuals with fracture is extensive and the contribution of use of these resources to the overall burden of fractures cannot be ignored. Our findings have implications for future economic analyses and policy-making related to care of osteoporotic fractures.
Screening of brazilian plants for the presence of peroxides

Chloroform or dichloromethane extracts of 357 southern Brazilian plant species were tested for the presence of peroxides by thinlayer chromatography, using the spray reagent from Huber & Frohlke. From the species tested, 71 (20%) showed positive results and most of them (56%) are Asteraceae species. The species tested were mainly from Asteraceae, but 55 more families were screened, in a total of 77 genera surveyed.
Development of paper-based hygro-mechanical systems for liquid characterization

Over the past few years, paper-based microfluidics systems have been extensively applied to perform different analytical tasks including detection and quantification of the specific analyte. Few works have reported the use of paper as a structural element to develop both sensors and actuators. These devices are extremely useful as they are inexpensive, easy to fabricate, disposable and portable. However, other features of paper that can be applied to develop new sensing principles have not been explored. Paper is a hygroscopic material that enables the generation of motion by hygromorphism. In this work, paper-based hygro-mechanical systems (PB-HMS) for liquid characterization are developed. The configuration of the developed PB-HMS is formed by the interaction of a paper-based cantilever beam and a liquid droplet. The paper-based cantilever beam acts as a hygroscopic sensitive element, while the liquid droplet triggers the bending response of the PB-HMS. These systems do not require any external source of energy to stimulate the sensing element (i.e. electric or magnetic field) as their interaction with the liquid droplet activates the motion. iv In addition, different gaps in the knowledge found in the literature were addressed to develop the PB-HMS. They are described as follows. First, an imbibition model based on Richards’ equation is developed in this thesis to predict liquid imbibition in complex paper-based networks. Second, a dimensionless stress-imbibition model including three main nonlinearities (imbibition, swelling and softening) is developed in this work. Third, the influences of such nonlinearities on the characteristic hygro-mechanical bending response of paper-based beams are studied. Fourth, the design of the PB-HMS is performed in order to extract information from the systems using their dynamic response. Finally, a method to quantify the dynamic performance of the PB-HMS in order to characterize liquid is developed.