Miracle-dz/UniFAR-FTUs huggingface dataset:
New Flow-based Heuristic for Search Algorithms Solving Multi-agent Path Finding

We address the problem of optimal multi-agent path finding (MAPF) in this paper. The task is to find a set of actions for each agent in know terrain so that each agent arrives to its desired destination from a given starting position. Agents are not allowed to collide with each other along their paths. Furthermore, a solution that minimizes the total time is required. In this paper we study search-based algorithms that systematically explore state space. These algorithms require a good heuristic function that can improve the computational effectiveness by changing the order in which the states are expanded. We propose such new heuristic, which is based on relaxation of MAPF solving via its reduction to multi-commodity flow over time expanded graph. The multi-commodity flow is relaxed to single commodity flow, which can be solved in polynomial time. We show that our new heuristic is monotone and therefore can be used in search-based algorithms effectively. We also give theoretical analysis of the new heuristic and compare it experimentally with base-line heuristics that are often used.
Zigzag Turning Preference of Freely Crawling Cells

The coordinated motion of a cell is fundamental to many important biological processes such as development, wound healing, and phagocytosis. For eukaryotic cells, such as amoebae or animal cells, the cell motility is based on crawling and involves a complex set of internal biochemical events. A recent study reported very interesting crawling behavior of single cell amoeba: in the absence of an external cue, free amoebae move randomly with a noisy, yet, discernible sequence of ‘run-and-turns’ analogous to the ‘run-and-tumbles’ of swimming bacteria. Interestingly, amoeboid trajectories favor zigzag turns. In other words, the cells bias their crawling by making a turn in the opposite direction to a previous turn. This property enhances the long range directional persistence of the moving trajectories. This study proposes that such a zigzag crawling behavior can be a general property of any crawling cells by demonstrating that 1) microglia, which are the immune cells of the brain, and 2) a simple rule-based model cell, which incorporates the actual biochemistry and mechanics behind cell crawling, both exhibit similar type of crawling behavior. Almost all legged animals walk by alternating their feet. Similarly, all crawling cells appear to move forward by alternating the direction of their movement, even though the regularity and degree of zigzag preference vary from one type to the other.
Association of Polymorphism in MicroRNA 604 with Susceptibility to Persistent Hepatitis B Virus Infection and Development of Hepatocellular Carcinoma

MicroRNA polymorphisms may be associated with carcinogenesis or immunopathogenesis of infection. We evaluated whether the mircoRNA-604 (miR-604) polymorphism can affect the persistence of hepatitis B virus (HBV) infection, and the development to hepatocellular carcinoma (HCC) in patients with chronic HBV infection. A total of 1,439 subjects, who have either past or present HBV infection, were enrolled and divided into four groups (spontaneous recovery, chronic HBV carrier without cirrhosis, liver cirrhosis and HCC). We genotyped the precursor miR-604 genome region polymorphism. The CC genotype of miR-604 rs2368392 was most frequently observed and T allele frequency was 0.326 in all study subjects. The HBV persistence after infection was higher in those subjects with miR-604 T allele (P=0.05 in a co-dominant and dominant model), which implied that the patients with miR-604 T allele may have a higher risk for HBV chronicity. In contrast, there was a higher rate of the miR-604 T allele in the chronic carrier without HCC patients, compared to those of the HCC patients (P=0.03 in a co-dominant model, P=0.02 in a recessive model). The T allele at miR-604 rs2368392 may be a risk allele for the chronicity of HBV infection, but may be a protective allele for the progression to HCC in chronic HBV carriers. Graphical Abstract
Evidence of synergy with combined BRAF-targeted therapy and immune checkpoint blockade for metastatic melanoma

Significant advances in the treatment of melanoma have been made with BRAF-targeted therapy and immune checkpoint blockade, and these strategies are now being combined empirically in clinical trials. Potential synergy is demonstrated in murine models and in analysis of longitudinal biopsies from patients on trial, however important questions remain regarding toxicity, optimal timing and sequence of therapy.
Mining Predicted Essential Genes of Brugia malayi for Nematode Drug Targets

We report results from the first genome-wide application of a rational drug target selection methodology to a metazoan pathogen genome, the completed draft sequence of Brugia malayi, a parasitic nematode responsible for human lymphatic filariasis. More than 1.5 billion people worldwide are at risk of contracting lymphatic filariasis and onchocerciasis, a related filarial disease. Drug treatments for filariasis have not changed significantly in over 20 years, and with the risk of resistance rising, there is an urgent need for the development of new anti-filarial drug therapies. The recent publication of the draft genomic sequence for B. malayi enables a genome-wide search for new drug targets. However, there is no functional genomics data in B. malayi to guide the selection of potential drug targets. To circumvent this problem, we have utilized the free-living model nematode Caenorhabditis elegans as a surrogate for B. malayi. Sequence comparisons between the two genomes allow us to map C. elegans orthologs to B. malayi genes. Using these orthology mappings and by incorporating the extensive genomic and functional genomic data, including genome-wide RNAi screens, that already exist for C. elegans, we identify potentially essential genes in B. malayi. Further incorporation of human host genome sequence data and a custom algorithm for prioritization enables us to collect and rank nearly 600 drug target candidates. Previously identified potential drug targets cluster near the top of our prioritized list, lending credibility to our methodology. Over-represented Gene Ontology terms, predicted InterPro domains, and RNAi phenotypes of C. elegans orthologs associated with the potential target pool are identified. By virtue of the selection procedure, the potential B. malayi drug targets highlight components of key processes in nematode biology such as central metabolism, molting and regulation of gene expression.
NIR Luminescence from Sol-Gel Er3+ Doped SiO2:GeO2 Transparent Gels, Nanostructured Powders and Thin Films for Photonic Applications

Samples of (1 – x)SiO2:xGeO2 compositions, containing x = 10 and 20, and doped with Er3+, were prepared by a simple sol-gel route. Homogeneous and transparent gels were synthesized and xerogels were obtained by gel annealing from 700 oC to 1100 oC. Films exhibiting high transmittance in the visible and near infrared were deposited by spin-coating technique using the colloidal precursors. The materials were characterized structurally and microstructurally by some techniques. Spherical completely amorphous and tetragonal GeO2 nanocrystals from 3.7 nm to 25.0 nm in diameter embedded in silica-rich amorphous phase materials were obtained. The optical properties were studied by transmission spectra from ultraviolet to near infrared region, photoluminescence measurements in the infrared region, and the average lifetime of the metastable state 4I13/2 of Er3+ ions were determined. The 1 mol% Er3+ doped host with x = 20 have an infrared emission 4.9 times higher than the compound containing x = 10, and the Er3+4I13/2 level present lifetime between 15.0 ms and 7.5 ms. The optical band gap and refractive index values were determined, as well as the Sellmeier parameters. Finally, rib channel waveguides using femtosecond laser etching technique on silica substrates were obtained with width of 15 mm. The 1 mol% Er3+ doped 80SiO2:20GeO2 compounds can be applicable in integrated optical systems.
Transient reconnection in the cusp during strongly negative IMF By

[1] We investigate transient magnetic reconnection (flux transfer events, FTEs) in the cusp and its ionospheric signatures. We present in situ observations by the Polar spacecraft of multiple impulsive plasma injections and related magnetopause crossings in the outer stagnant cusp of the northern hemisphere. At this time the interplanetary magnetic field (IMF) was northward, dominated by strong By (−11 nT). Plasma injections are observed in the direction of the magnetic tension force due to the IMF By and resemble the “time of flight” energy-latitude dispersion. Associated magnetopause crossings exhibit large magnetic field rotation (>150 degrees) and strong depression of the field magnitude (down to several percent of the value in the magnetosheath). We use conjugate observations from the Greenland magnetometer network and Sondrestrom incoherent scatter radar together with the Polar UV imager to show that the transient reconnection causes a direct response of cusp auroral brightness and ionospheric convection in the direction consistent with the IMF By polarity. The observations, in space and on the ground, are consistent with a sequence of bulges launched by transient reconnection. We present a qualitative model of the bulge structure that is consistent with most of the Polar observations during the studied interval. Conjugate ground-based observations provide additional evidence for transient reconnection and are consistent with the ground signature of FTEs.
The response of chick sensory neurons to brain-derived neurotrophic factor

To determine the spectrum of activity of brain-derived neurotrophic factor (BDNF) among first-order sensory neurons, explants of the nine distinct populations of sensory neurons from embryonic chicks of 3–14 d incubation (E3-E14) were grown in collagen gels with and without BDNF in the culture medium. The explants responded to BDNF with profuse neurite outgrowth and comprised those in which neurons are derived from neural crest (the dorsomedial part of the trigeminal ganglion, rostromedial part of the trigeminal mesencephalic nucleus, jugular ganglion, and lumbosacral dorsal root ganglia) and from epibranchial placodes (the ventrolateral part of the trigeminal ganglion and the geniculate, petrosal, and nodose ganglia). This response was first clearly observed in the ventrolateral trigeminal and nodose ganglia as early as E4, but did not appear until later in other explants. The dorsomedial trigeminal, jugular, and geniculate ganglia were the latest to develop a response, which was not apparent until E8. In all explants the response was maximal between E10 and E12, and there was a decline in the magnitude of the response from E12 to E14. Although explants of the vestibular ganglion failed to respond to BDNF, the survival and growth of vestibular neurons in dissociated neuron-enriched cultures were promoted by BDNF. To investigate whether all first-order sensory neurons respond to BDNF or whether BDNF-responsive neurons comprise a distinct subset, we studied the influence of BDNF and NGF on the survival and growth of the placode-derived and the neural crest-derived neurons of the trigeminal ganglion in dissociated neuron-enriched culture. (ABSTRACT TRUNCATED AT 250 WORDS)
IN)VISIBILIDAD INFORMATIVA SOBRE LA VIOLENCIA DE GÉNERO EN CONTRA DE LAS MUJERES INMIGRANTES EN LA WEB OFICIALES ESPAÑOLAS

Abordar una tematica como la propuesta, resulta sumamente complejo, dada la multidimensionalidad que implica su estudio; por lo que nos limitamos a senalar algunos de los aspectos que intervienen de modo directo en la invisibilizacion de la mujer inmigrante en la tematica de la violencia de genero; estrictamente, en la omision o escasa consideracion por las instancias encargadas de su proteccion y divulgacion. En ese cometido, la investigacion revela, un olvido sistematico en las web oficiales de los contenidos informativos que ayudarian a una mejor comprension de dicha problematica; insertandola dentro de una logica general de tratamiento, es decir, como parte de la problematica de la mujer espanola en general; obviando las condiciones especiales que (re)situan a las mujer inmigrante; o en peor de los casos, asociadas como victimas o incursas en delitos (prostitucion, trafico sexual, etc.).
Human Bordetella bronchiseptica infection related to contact with infected animals: persistence of bacteria in host

Within a period of 2 1/2 years, Bordetella bronchiseptica was isolated four times from a 79-year-old woman with bronchopneumonia. We have demonstrated by pulsed-field gel electrophoresis that this infection was related to contact with infected rabbits. The initial human B. bronchiseptica isolate had a phenotype characteristic of usual B. bronchiseptica clinical isolates; it produced toxin and adhesins, such as adenylate cyclase-hemolysin, filamentous hemagglutinin, and pertactin, and was able to induce lethality in a murine respiratory model. By contrast, although the three successive human isolates produced adhesins, they did not express adenylate cyclase-hemolysin and were unable to induce lethality. This implies that adenylate cyclase-hemolysin is required to induce lethality. We suggest that B. bronchiseptica may persist in the host, with expression of adenylate cyclase-hemolysin being essential for the initiation of infection and expression of adhesins being essential for persistence.
In-Line Radiolabeling: A Novel Continuous-Flow System for Commercial-Scale Protein Labeling

A key limitation in developing radiotherapeutic proteins is the expense of manufacturing the drug in small batches using traditional reaction vessels. Removing limitations on the quantity of protein labeled at any one time significantly decreases the cost of production, and nowhere is the need for cost-effective radiotherapeutics more acute than in the treatment of cancer. Methods: We describe a novel method that can rapidly radiolabel, theoretically, unlimited amounts of protein, without causing significant damage to binding potency or structural integrity. Our process controls the reaction rate for the isotope and reactants as they simultaneously flow through a reaction tube. Results: We have demonstrated proof of principle by labeling nearly a gram of antibody with 481 GBq (13 Ci) of 131I during a single 30-min reaction run. Conclusion: Simple to construct, our system is already used to manufacture a radiolabeled antibody, both in the United States and in India, as part of clinical trials to treat glioblastoma multiforme. Modified, this system may be also applicable for nonradioactive labeling.
Economical FeSi2-SiGe Composites for Thermoelectric Power Generation

Clean energy production and its efficient usage is one of the most important issues in the world today. Thermoelectric materials, which can convert heat into electricity, have drawn significant attention for waste-heat harvesting. In this report, FeSi2 and SiGe thermoelectric materials were used to make a new composite with enhanced efficiency/cost factor relative to pure FeSi2 and SiGe compounds.
Asynchronous Channel Allocation in Opportunistic Cognitive Radio Networks

In the case of Opportunistic Spectrum Access (OSA), unlicensed secondary users have only limited knowledge of channel parameters or other users’ information. Spectral opportunities are asymmetric due to time and space varying channels. Owing to this inherent asymmetry and uncertainty of traffic patterns, secondary users can have trouble detecting properly the real usability of unoccupied channels and as a consequence visiting channels in such a way that they can communicate with each other in a bounded period of time. Therefore, the channel service quality, and the neighborhood discovery (NB) phase are fundamental and challenging due to the dynamics of cognitive radio networks. The authors provide an analysis of these challenges, controversies, and problems, and review the state-of-the-art literature. They show that, although recently there has been a proliferation of NB protocols, there is no optimal solution meeting all required expectations of CR users. In this chapter, the reader also finds possible solutions focusing on an asynchronous channel allocation covering a channel ranking.
GRACE Measurements of Mass Variability in the Earth System

Monthly gravity field estimates made by the twin Gravity Recovery and Climate Experiment (GRACE) satellites have a geoid height accuracy of 2 to 3 millimeters at a spatial resolution as small as 400 kilometers. The annual cycle in the geoid variations, up to 10 millimeters in some regions, peaked predominantly in the spring and fall seasons. Geoid variations observed over South America that can be largely attributed to surface water and groundwater changes show a clear separation between the large Amazon watershed and the smaller watersheds to the north. Such observations will help hydrologists to connect processes at traditional length scales (tens of kilometers or less) to those at regional and global scales.
Ruling out coronary artery disease in primary care: development and validation of a simple prediction rule

Background: Chest pain can be caused by various conditions, with life-threatening cardiac disease being of greatest concern. Prediction scores to rule out coronary artery disease have been developed for use in emergency settings. We developed and validated a simple prediction rule for use in primary care. Methods: We conducted a cross-sectional diagnostic study in 74 primary care practices in Germany. Primary care physicians recruited all consecutive patients who presented with chest pain (n = 1249) and recorded symptoms and findings for each patient (derivation cohort). An independent expert panel reviewed follow-up data obtained at six weeks and six months on symptoms, investigations, hospital admissions and medications to determine the presence or absence of coronary artery disease. Adjusted odds ratios of relevant variables were used to develop a prediction rule. We calculated measures of diagnostic accuracy for different cut-off values for the prediction scores using data derived from another prospective primary care study (validation cohort). Results: The prediction rule contained five determinants (age/sex, known vascular disease, patient assumes pain is of cardiac origin, pain is worse during exercise, and pain is not reproducible by palpation), with the score ranging from 0 to 5 points. The area under the curve (receiver operating characteristic curve) was 0.87 (95% confidence interval [CI] 0.83–0.91) for the derivation cohort and 0.90 (95% CI 0.87–0.93) for the validation cohort. The best overall discrimination was with a cut-off value of 3 (positive result 3–5 points; negative result ≤ 2 points), which had a sensitivity of 87.1% (95% CI 79.9%–94.2%) and a specificity of 80.8% (77.6%–83.9%). Interpretation: The prediction rule for coronary artery disease in primary care proved to be robust in the validation cohort. It can help to rule out coronary artery disease in patients presenting with chest pain in primary care.
Cellular effects of enamel matrix derivative are associated with different molecular weight fractions following separation by size-exclusion chromatography.

BACKGROUND Enamel matrix derivative (EMD) was shown to enhance soft tissue healing and regeneration of the periodontium; however, the mechanisms of this action are unknown. It is assumed that amelogenin, the most abundant protein in EMD, is the protein primarily responsible for the effects of EMD. The purpose of this study was to fractionate EMD and associate its specific cellular effects with different molecular weight fractions following size-exclusion chromatography. METHODS Freshly dissolved EMD was fractionated by gel filtration, and forty-five 7-ml fractions were collected, desalted, lyophilized, and resuspended. These fractions were analyzed for their effects on the differentiation of osteoprogenitor cells (C2C12) and the proliferation and differentiation of human microvascular endothelial cells (HMVECs). Alkaline phosphatase activity (C2C12) was measured as a marker for osteogenic differentiation before and after preincubation of the fractions with the bone morphogenetic protein (BMP) decoy receptor, noggin. Angiogenesis (HMVEC) was evaluated as a marker for endothelial cell differentiation. Enzymographic assays used polyacrylamide gels copolymerized with denatured type I collagen to determine gelatinolytic activities in each fraction. RESULTS EMD fractionated into three major protein peaks following size exclusion chromatography with cross-linked dextran particle matrix. Peak I was associated with the column void volume, whereas peak III eluted near the salt volume. Peak II eluted between these two peaks. Proliferation and angiogenic activities were associated with peaks II and III for the microvascular cells. The differentiation of osteoprogenitor cells, indicated by alkaline phosphatase activity, was induced by EMD components present in peak I and the leading edge of peak II. The additional observation that this differentiation was inhibited by prior treatment of the fractions with noggin suggested the activity was induced by BMP rather than amelogenin or other unknown proteins. Gelatinolytic activities were detected in the early fractions of peaks I and II of gel-fractionated EMD. CONCLUSIONS The cellular activities stimulated by EMD are not associated with a single molecular weight species. The fact that noggin abolishes C2C12 alkaline phosphatase activity suggests that effects on osteoprogenitor cell differentiation are the result of a BMP-like protein(s), whereas effects on proliferation and angiogenesis are associated with lower molecular weight species present in peaks II and III. Finally, unheated EMD displays gelatinolytic activities that are also detectable following size-exclusion separation of its constituents. The masses of these activities were consistent with those reported for latent and active matrix metalloproteinase-20.
Optical Thickness and Effective Radius Retrievals of Low Stratus and Fog from MTSAT Daytime Data as a Prerequisite for Yellow Sea Fog Detection

Operational nowcasting techniques for sea fog over the Yellow Sea rely on data from weather satellites because ground-based observations are hardly available. While there are several algorithms for detecting low stratus (LST) that are applicable to geostationary weather satellite data, sea fog retrieval is more complicated. These schemes mostly need ancillary data such as Cloud Optical Thickness (COT) and Droplet Effective Radius (DER). To retrieve the necessary parameters for sea fog detection over the Yellow Sea, the Comprehensive Analysis Program for Cloud Optical Measurement (CAPCOM) scheme developed by Kawamoto et al. (2001) was adapted to the Japanese Multifunctional Transport Satellites (MTSAT) system-Japanese Advanced Meteorological Imager (JAMI). COT and DER values were then retrieved for 64 cases over the Yellow Sea (= 85,000 LST pixels) and compared with the COT and DER products from the MYD06/MOD06, CAPCOM-MODIS (Moderate Resolution Imaging Spectroradiometer) and CloudSat (cloud radar). Results showed that the COT and DER values retrieved from JAMI were satisfactory. The MTSAT-2 JAMI data delivered better COT values than the MTSAT-1R JAMI data, due to the re-calibration of MTSAT-2 JAMI’s visible (VIS) band in 2011. Similarly, improvements were seen in DER retrieval, even though the VIS re-calibration primarily affects COT retrieval. By comparing the difference in stratus thickness calculated by MTSAT-1R and MTSAT-2, the COT and DER retrieved from MTSAT-2 JAMI can be used in ground fog retrieval schemes. These values exhibit less bias, especially in cases involving high cloud top and thin cloud thickness. Both the COT and DER retrievals from MTSAT-2 JAMI offer potential as reliable parameters for Yellow Sea fog detection.