Miracle-dz/UniFAR-FTUs huggingface dataset:
Prospective motion correction of X-ray images for coronary interventions

A method for prospective motion correction of X-ray imaging of the heart is presented. A 3D+t coronary model is reconstructed from a biplane coronary angiogram obtained during free breathing. The deformation field is parameterized by cardiac and respiratory phase, which enables the estimation of the state of the arteries at any phase of the cardiac-respiratory cycle. The motion of the three-dimensional (3-D) coronary model is projected onto the image planes and used to compute a dewarping function for motion correcting the images. The use of a 3-D coronary model facilitates motion correction of images acquired with the X-ray system at arbitrary orientations. The performance of the algorithm was measured by tracking the motion of selected left coronary landmarks using a template matching cross-correlation. In three patients, we motion corrected the same images used to construct their 3D+t coronary model. In this best case scenario, the algorithm reduced the motion of the landmarks by 84%-85%, from mean RMS displacements of 12.8-14.6 pixels to 2.1-2.2 pixels. Prospective motion correction was tested in five patients by building the coronary model from one dataset, and correcting a second dataset. The patient's cardiac and respiratory phase are monitored and used to calculate the appropriate correction parameters. The results showed a 48%-63% reduction in the motion of the landmarks, from a mean RMS displacement of 11.5-13.6 pixels to 4.4-7.1 pixels.
Membrane-Elasticity Model of Coatless Vesicle Budding Induced by ESCRT Complexes

The formation of vesicles is essential for many biological processes, in particular for the trafficking of membrane proteins within cells. The Endosomal Sorting Complex Required for Transport (ESCRT) directs membrane budding away from the cytosol. Unlike other vesicle formation pathways, the ESCRT-mediated budding occurs without a protein coat. Here, we propose a minimal model of ESCRT-induced vesicle budding. Our model is based on recent experimental observations from direct fluorescence microscopy imaging that show ESCRT proteins colocalized only in the neck region of membrane buds. The model, cast in the framework of membrane elasticity theory, reproduces the experimentally observed vesicle morphologies with physically meaningful parameters. In this parameter range, the minimum energy configurations of the membrane are coatless buds with ESCRTs localized in the bud neck, consistent with experiment. The minimum energy configurations agree with those seen in the fluorescence images, with respect to both bud shapes and ESCRT protein localization. On the basis of our model, we identify distinct mechanistic pathways for the ESCRT-mediated budding process. The bud size is determined by membrane material parameters, explaining the narrow yet different bud size distributions in vitro and in vivo. Our membrane elasticity model thus sheds light on the energetics and possible mechanisms of ESCRT-induced membrane budding.
Site-selected mutagenesis of the Drosophila second chromosome via plasmid rescue of lethal P-element insertions.

This paper describes a fast and efficient approach to correlating cloned genes with mutant phenotypes in Drosophila. We make use of a large collection D. melanogaster lines with recessive lethal insertions of a P[lacW] transposon on their second chromosome. Within this collection there clearly must be many insertions corresponding to Drosophila genes that have been cloned and characterized, e.g., via homology with cloned mammalian genes, but for which mutant phenotypes have yet to be identified. We have made use of the fact that P[lacW] contains a plasmid replicon to establish a collection of rescued plasmids containing genomic DNA flanking the sites of transposon insertion. Plasmids representing a total of 1836 lines were independently rescued and pooled in batches of 10 and 100. Pools of 100 plasmids were screened by hybridization with cDNAs corresponding to cloned second chromosome loci. Hybridizing pools were then narrowed down to single plasmids by a process of subdivision and rehybridization, and corresponding mutant lines were obtained. The success rate was better than one in four. This rate would undoubtedly be improved by the use of genomic DNA probes.
Engineering of Multifunctional Nano‐Micelles for Combined Photothermal and Photodynamic Therapy Under the Guidance of Multimodal Imaging

The integration of diagnostic and therapeutic functionalities on a single theranostic nano‐system holds great promise to enhance the accuracy of diagnosis and improve the efficacy of therapy. Herein, a multifunctional polymeric nano‐micelle system that contains a photosensitizer chlorin e6 (Ce6) is successfully fabricated, at the same time serving as a chelating agent for Gd3+, together with a near‐infrared (NIR) dye, IR825. With a r1 relativity 7 times higher than that of the commercial agent Magnevist, strong fluorescence offered by Ce6, and high NIR absorbance attributed to IR825, these theranostic micelles can be utilized as a contrast agent for triple modal magnetic resonance (MR), fluorescence, and photoacoustic imaging of tumors in a mouse model. The combined photothermal and photodynamic therapy is then carried out, achieving a synergistic anti‐tumor effect both in vitro and in vivo. Different from single photo treatment modalities which only affect the superficial region of the tumor under mild doses, the combination therapy at the same dose using this agent is able to induce significant damage to both superficial and deep parts of the tumor. Therefore, this work presents a polymer based theranostic platform with great potential in multimodal imaging and combination therapy of cancer.
In Vivo and In Vitro Biocompatibility Study of Nanostructured Carbonate-Apatite

The objective of this study was to investigate the in vitro and in vivo biological responses to carbonate apatite (cHA) in comparison to hydroxyapatite (HA). Spheres (400500 μm) of both materials were synthesized under 5°C (cHA) and 90°C (HA) and not sintered. The in vitro cytocompatibility was determined by the XTT assay, according to ISO 10993-5:2009, after exposure of MC3T3-E1 cells to the materials extracts. Ethics Commission on Teaching and Research in Animals approved this project (CEPA/NAL 193/10) and, subsequently, the biomaterials were grafted in the subcutaneous tissues of mice (n=15). After 1 and 3 weeks, five animals of each group were killed for samples removal containing biomaterials and surrounding tissues for histological examination. Semi-serial (5-μm thick) sections were cut and stained with Hematoxylin and Eosin (HE) and the presence of inflammatory infiltrates and biomaterials resorption were evaluated. The experimental group of 3 weeks didn’t show the presence of spheres of both biomaterials and few spheres were observed after 1 week. Histological analysis showed the granulation tissue around the biomaterials with the presence of multinucleated giant cells. After 3 weeks it was observed the presence of fibrous tissue around biomaterials and few inflammatory cells. No signals of tissue necrosis were observed in both groups in all experimental studied periods. Nanostructured carbonate apatite spheres are cytocompatible, biocompatible and present initial biosorption on the subcutaneous comparable to stoichiometric HA, indicating its suitability for further studies on regenerative medicine.
Poisson cloning using bilateral image coarsening

Poisson cloning can clone a source patch to target image seamlessly given a constant boundary condition, but it usually results in "bleeding artifact" near the boundary, which is difficult to prevent only by boundary optimization. To address the problem, we switch Poisson cloning to bilateral image coarsening (BIC) space that binds similar pixels together in smooth regions and leaves pixels across edges independent to reduce the bleeding artifact. We present three ways to project Poisson cloning into the BIC space. Direct projection projects a result image into BIC space by solving a minimization problem. Gradient projection projects boundary and gradient of a source patch instead of the cloned image, which is more robust and is more consist with the operation of Poisson cloning. Modified gradient projection computes a correction function with deleted gradient of boundary in BIC space, and it improves the computation performance while it can obtain the similar result as gradient projection when the regions near the boundary are smooth. Experimental results demonstrate that our method reduces the bleeding artifact significantly and the sacrifice of performance is quite small.
FtsHi4 Is Essential for Embryogenesis Due to Its Influence on Chloroplast Development in Arabidopsis

Chloroplast formation is associated with embryo development and seedling growth. However, the relationship between chloroplast differentiation and embryo development remains unclear. Five FtsHi genes that encode proteins with high similarity to FtsH proteins, but lack Zn2+-binding motifs, are present in the Arabidopsis genome. In this study, we showed that T-DNA insertion mutations in the Arabidopsis FtsHi4 gene resulted in embryo arrest at the globular-to-heart–shaped transition stage. Transmission electron microscopic analyses revealed abnormal plastid differentiation with a severe defect in thylakoid formation in the mutant embryos. Immunocytological studies demonstrated that FtsHi4 localized in chloroplasts as a thylakoid membrane-associated protein, supporting its essential role in thylakoid membrane formation. We further showed that FtsHi4 forms protein complexes, and that there was a significant reduction in the accumulation of D2 and PsbO (two photosystem II proteins) in mutant ovules. The role of FtsHi4 in chloroplast development was confirmed using an RNA-interfering approach. Additionally, mutations in other FtsHi genes including FtsHi1, FtsHi2, and FtsHi5 caused phenotypic abnormalities similar to ftshi4 with respect to plastid differentiation during embryogenesis. Taken together, our data suggest that FtsHi4, together with FtsHi1, FtsHi2, and FtsHi5 are essential for chloroplast development in Arabidopsis.
Image Enhancement using Hybrid Fuzzy Inference System (IEHFS)

Image enhancement is a primary need for the recognition of different biometrics in biometric-based identification systems. The recognition-rate of a biometric system depends heavily upon the quality of the input biometric given to the system. In this paper, a novel hybrid Fuzzy model (IEHFS) is proposed to improve the visual quality of iris images. The experimental results based on calculating PSNR values show that this hybrid model enhances the noisy biometric images better than the conventional filters like median filter and Wiener filter.
Sub-micron sized periodic 3D surface structures fabricated by femtosecond UV laser pulses

Generation of versatile periodic 3d structures with sub-micron precision on material surfaces is demonstrated. The technique is based on a novel beam splitting scheme applying separate diffractive elements. The incoming beam is split into multiple beams whose phase relations are controlled with almost arbitrary precision by only changing the distance between the diffractive elements. Combining this technique with a reflective imaging system, temporal and spatial overlap of all beams with interferometric precision is automatically obtained. The periodic 3d structures are generated through multi-beam interference in the overlapping region of the beams. The shape of the resulting pattern depends on the phase relationship of the interfering beams and can be strongly altered by simple translation of only one diffractive element. We demonstrate the capability of the method for femtosecond laser treatment of solids. Using sub picosecond laser pulses at 248 nm, sub-micron features with different shapes are ablated on the surface of polyimide samples. The size of the achieved structures is well below 1 micron, in special cases even reaching the 100 nm limit.
Interference Channels With Half-Duplex Source Cooperation

The performance gain by allowing half-duplex source cooperation is studied for Gaussian interference channels. The source cooperation is in-band, meaning that each source can listen to the other source's transmission, but there is no independent (or orthogonal) channel between the sources. The half-duplex constraint supposes that at each time instant the sources can either transmit or listen, but not do both. Our main result is a characterization of the sum capacity when the cooperation is bidirectional and the channel gains are symmetric. With unidirectional cooperation, we essentially have a cognitive radio channel. By requiring the primary to achieve a rate close to its link capacity, the best possible rate for the secondary is characterized within a constant. Novel inner and outer bounds are derived as part of these characterizations.
Effect of enzyme preparations on in situ and in vitro degradation and in vivo digestive characteristics of mature cool-season grass forage in beef steers.

In situ and in vitro studies with a 3 x 2 x 5 factorial arrangement of treatments with an added untreated control evaluated three enzyme preparations, two levels of enzyme, and five moisture conditions of grass forage. Enzyme preparations predominantly contained cellulase and xylanase and will be designated as enzyme 1 (E1), enzyme 2 (E2), and a 50:50 combination of E1 and E2 (E1E2). The five moisture conditions included fresh, wilted, dried and rehydrated to fresh, dried and rehydrated to wilt, and dried grass. Addition of the high level of E1E2 to dried grass improved (P < .05) in vitro DM (43.5 vs 38.7%) and NDF (31.1 vs 26.0%) disappearance (48 h incubation) compared with the control treatment. Also, IVDMD was greater (P < .05) for the low level of E1 applied to wilted grass compared with the control. No other enzyme application improved in situ or in vitro disappearance of substrate over the control. In vivo responses of enzyme treatments found most likely to be effective from degradability studies were measured using four ruminally cannulated steers in a 4 x 4 Latin square experiment. Treatments examined were E1 applied to fresh forage, then dried; E1 applied to wilted forage, then dried; E1E2 applied to dry forage immediately before feeding (E-dry), and untreated forage (control). All forage treatments were harvested as dry hay. Total diet and hay DM intakes were greater (P < .05) for the E-dry than for the control diet. Rate of in situ NDF disappearance and total tract DM and NDF digestibility were greater (P < .05) for the E-dry than for the other treatments. Ruminal fluid ammonia N concentration, total VFA concentration, and pH were not altered (P > .10) by dietary treatment. Ruminal particulate passage rate was greater (P < .05) and ruminal retention time was shorter (P < .05) for the E-dry than for the control treatment. Data from this study suggest that addition of fibrolytic enzymes to grass hay before feeding has the potential to enhance intake and digestion.
Experimental Study of Virtual Machine Migration in Support of Reservation of Cluster Resources

Virtual Machines are becoming increasingly valuable to resource consolidation and management, providing efficient and secure resource containers, along with desired application execution environments. This paper focuses on the VM-based resource reservation problem, that is, the reservations of CPU, memory and network resources for individual VM instances, as well as for VM clusters. In particular, it considers the scenario where one or several physical servers need to be vacated to start a cluster of VMs for dedicated execution of parallel jobs. VMs provide a primitive for transparently vacating workloads through migration; however, the process of migrating several VMs can be time-consuming and needs to be estimated. To achieve this goal, this paper seeks to provide a model that can characterize the VM migration process and predict its performance, based on a comprehensive experimental analysis. The results show that, given a certain VM's migration time, it is feasible to predict the time for a VM with other configurations, as well as the time for migrating a number of VMs. The paper also shows that migration of VMs in parallel results in shorter aggregate migration times, but with higher per-VM migration latencies. Experimental results also quantify the benefits of buffering the state of migrated VMs in main memory without committing to hard disks.
Association between ACE Gene I/D Polymorphism of Men of Han Nationality in Northern China and the Effects of HiHiLo on Muscle Oxygenation

To explore the association between Insertion/Deletion polymorphism of the angiotensin converting enzyme (ACE) gene and the effects of Living High-Exercise High-Training Low (HiHiLo) on muscle oxygenation (MO), Seventy-one healthy men of Han nationality in northern China underwent HiHiLo training for 4 weeks. Training programme was as follows: exposure in hypoxic environment (14.5%~14.8%O2, 10h/day), three times hypoxic training per week (15.4%O2), and training at sea level. Resting MO, exercising MO and resuming MO were measured by non-invasive near infrared spectroscopy (NIRS) before and after the protocol, and the ACE gene I/D polymorphism was detected by PCR. The findings indicated that exercising MO and resuming MO all increased markedly after training (P< 0.05), but resting MO declined. As to genotypes, no significant differences were in the baseline MO among groups before HiHiLo. Increase in resting MO and exercising MO in II and ID groups were more than those in DD groups, but decline in resuming MO in II and ID groups was less than those in DD groups.The present study suggested that HiHiLo could be helpful for developing individual resting MO and exercising MO, but harmful for resuming MO. Moreover, MO of men carrying II and ID probably were more sensitive to the hypoxic training than those carrying DD.
Patterns of sexual mixing with respect to social, health and sexual characteristics among heterosexual couples in England: analyses of probability sample survey data

SUMMARY Patterns of sexual mixing are major determinants of sexually transmitted infection (STI) transmission, in particular the extent to which high-risk populations mix with low-risk populations. However, patterns of mixing in the general population are poorly understood. We analysed data from a national probability sample survey of households, the Health Survey for England 2010. A total of 943 heterosexual couples living together, where at least one partner was aged between 16–44 years, were included. We used correlation coefficients to measure the strength of similarities between partners with respect to demographic characteristics, general health, health behaviours and sexual history. Males were on average 2 years older than their female partners, although this age difference ranged from a median of 0 years in men aged 16–24 years to a median of 2 years in men aged 35–44 years. A positive correlation between partners was found for all demographic characteristics. With respect to general health and health behaviours, a strongly positive correlation was found between men and women in reporting alcohol consumption at ⩾3 days a week and smoking. Men typically reported greater numbers of sexual partners than their female partner, although men and women with more partners were more likely to mix with each other. We have been able to elucidate the patterns of sexual mixing between men and women living together in England. Mixing based on demographic characteristics was more assortative than sexual characteristics. These data can better inform mathematical models of STI transmission.
Diagnosis and treatment of epilepsy and sleep apnea comorbidity

ABSTRACT Introduction: The comorbidity of epilepsy and sleep apnea is not uncommon. The diagnosis and treatment of obstructive sleep apneas will improve the prognosis and the quality of life in patients with epilepsy. Areas covered: In this paper, the authors review the pathological link between sleep apnea and epilepsy and systematically analyze the current literature on the diagnosis and treatment of obstructive sleep apnea in patients with epilepsy. This review includes studies retrieved from the PubMed, Embase and Google Scholar databases. Expert commentary: A variety of treatments are available for OSA and epilepsy independently but there are no standards or guidelines for how to implement these treatments for patients who suffer from both disorders. The authors expect that alternative efficient therapies for comorbidity will be explored, which may change the current clinical practice for the management of epileptic patients.
On solving large-scale instances of the knapsack problem with setup by means of an iterated greedy algorithm

This paper proposes a modified iterated greedy algorithm for solving an NP-hard knapsack problem known as the knapsack problem with setup. In contrast to the classical 0–1 knapsack problem, items belong to different classes, and choosing at least one item from a specific class causes a class setup capacity to be consumed and a reduction of the total profit in terms of a penalty that has to be paid. The performance of our technique was compared with those of both a sophisticated, tree-search based, heuristic from the literature and the application of CPLEX to the respective ILP model. Experimental results show that the proposed technique outperforms the heuristic from the literature and yields better performance than CPLEX for medium and large size problem instances.
Screening of nanoparticle properties in microfluidic syntheses

Abstract The possible diversity of nanoparticles is extremely high. This variability corresponds to a huge potential of possible functions in future materials and nanotechnical devices. Apart from rational designs, there is an urgent need for screening strategies for specific nanoparticle properties. Miniaturized screening techniques are challenged for efficient screening procedures. The review gives an overview on the possibilities of tuning and screening of nanoparticle properties and focuses on the application of microfluidic techniques for nanoparticle synthesis. Furthermore, the variation of parameters during the generation of nanoparticles and its connection with the resulting nanoparticle properties are highlighted as well. Among other microfluidic techniques, microsegmented flow is particularly promising for the synthesis of different types of homogeneous nanoparticles and offers interesting approaches for the screening of process parameters and nanoparticle properties. The tuning of reactant concentrations in the micro-flow-through synthesis of nonspherical silver particles and gold/silver core/shell particles and their effects on the shape, size, and optical parameters of the formed nanoparticles are given as examples for the application of microsegmented flow in the screening of nanoparticle properties.
Retrieval models for audience selection in display advertising

Web applications often rely on user profiles of observed user actions, such as queries issued, page views, etc. In audience selection for display advertising, the audience that is likely to be responsive to a given ad campaign is identified via such profiles. We formalize the audience selection problem as a ranked retrieval task over an index of known users. We focus on the common case of audience selection where a small seed set of users who have previously responded positively to the campaign is used to identify a broader target audience. The actions of the users in the seed set are aggregated to construct a query, the query is then executed against an index of other user profiles to retrieve the highest scoring profiles. We validate our approach on a real-world dataset, demonstrating the trade-offs of different user and query models and that our approach is particularly robust for small campaigns. The proposed user modeling framework is applicable to many other applications requiring user profiles such as content suggestion and personalization.