Miracle-dz/UniFAR-FTUs huggingface dataset:
Analysis and Specification of an IR-UWB Transceiver for High-Speed Chip-to-Chip Communication in a Server Chassis

This paper presents the system architecture, modeling, and design constraints of a wireless chip-to-chip-communication transceiver as a low-power alternative to wireline links, such as PCI-Express. On top of the potential power savings, the wireless link provides lower latency times, better flexibility, lower complexity, and easier heat diffusion. The proposed transceiver uses impulse-radio ultra-wideband communication at 10 GHz. It supports a 2.5-Gb/s data rate with pulse position modulation over short distances (~10 cm). The hardware complexity is reduced by using a modified non-coherent receiver with a rectifying RF front-end and a relative-compare analog baseband. The system performance is quantified and tradeoffs are explored with the main motivation of reducing power. A discussion of the modulation choice, the performance specifications of the receiver blocks and the clock generation principle is presented. We show that energy efficiency better than 6 pJ/bit could be reached with the proposed architecture.
The Population Structure of Acinetobacter baumannii: Expanding Multiresistant Clones from an Ancestral Susceptible Genetic Pool

Outbreaks of hospital infections caused by multidrug resistant Acinetobacter baumannii strains are of increasing concern worldwide. Although it has been reported that particular outbreak strains are geographically widespread, little is known about the diversity and phylogenetic relatedness of A. baumannii clonal groups. Sequencing of internal portions of seven housekeeping genes (total 2,976 nt) was performed in 154 A. baumannii strains covering the breadth of known diversity and including representatives of previously recognized international clones, and in 19 representatives of other Acinetobacter species. Restricted amounts of diversity and a star-like phylogeny reveal that A. baumannii is a genetically compact species that suffered a severe bottleneck in the recent past, possibly linked to a restricted ecological niche. A. baumannii is neatly demarcated from its closest relative (genomic species 13TU) and other Acinetobacter species. Multilocus sequence typing analysis demonstrated that the previously recognized international clones I to III correspond to three clonal complexes, each made of a central, predominant genotype and few single locus variants, a hallmark of recent clonal expansion. Whereas antimicrobial resistance was almost universal among isolates of these and a novel international clone (ST15), isolates of the other genotypes were mostly susceptible. This dichotomy indicates that antimicrobial resistance is a major selective advantage that drives the ongoing rapid clonal expansion of these highly problematic agents of nosocomial infections.
Sex‐related differences in the thanatomicrobiome in postmortem heart samples using bacterial gene regions V1‐2 and V4

Recent studies have revealed distinct thanatomicrobiome (microbiome of death) signatures in human body sites after death. Thanatomicrobiome studies suggest that microbial succession after death may have the potential to reveal important postmortem biomarkers for the identification of time of death. We surveyed the postmortem microbiomes of cardiac tissues from 10 corpses with varying times of death (6–58 h) using amplicon‐based sequencing of the 16S rRNA gene’ V1‐2 and V4 hypervariable regions. The results demonstrated that amplicons had statistically significant (P < 0·05) sex‐dependent changes. Clostridium sp. , Pseudomonas sp. , Pantoea sp. and Streptococcus sp. had the highest enrichment for both V1‐2 and V4 regions. Interestingly, the results also show that V4 amplicons had higher abundance of Clostridium sp. and Pseudomonas sp. in female hearts compared to males. In addition, Streptococcus sp. was solely found in male heart samples. The distinction between sexes was further supported by principle coordinate analysis, which revealed microbes in female hearts formed a distinctive cluster separate from male cadavers for both hypervariable regions. This study provides data that demonstrates that two hypervariable regions show discriminatory power for sex differences in postmortem heart samples.
Predicting New Target Conditions for Drug Retesting Using Temporal Patterns in Clinical Trials: A Proof of Concept

Drug discovery is costly and time-consuming. Efficient drug repurposing promises to accelerate drug discovery with reduced cost. However, most successful repurposing cases so far have been achieved by serendipity. There is a need for more efficient computational methods for predicting new indications for existing drugs. This paper conducts a retrospective analysis of the temporal patterns of drug intervention trials for every drug in a pair of different conditions in ClinicalTrials.gov, including 550 drugs used for 451 conditions between 2003 and 2013. We found that drugs are often targeted towards conditions that are related by similar or identical eligibility criteria. We demonstrated the preliminary feasibility of predicting new target conditions for drug retesting among conditions with similar aggregated clinical trial eligibility criteria and confirmed this hypothesis using evidence from the literature.
Analytic Dependency Loops in Architectural Models of Cyber-Physical Systems

Rigorous engineering of safety-critical CyberPhysical Systems (CPS) requires integration of heterogeneous modeling methods from different disciplines. It is often necessary to view this integration from the perspective of analyses – algorithms that read and change models. Although such analytic integration supports formal contract-based verification of model evolution, it suffers from the limitation of analytic dependency loops. Dependency loops between analyses cannot be resolved based on existing contract-based verification. This paper makes a step towards using rich architectural descriptions to resolve circular analytic dependencies. We characterize the dependency loop problem and discuss three algorithmic approaches to resolving such loops: analysis iteration, constraint solving, and genetic search. These approaches take advantage of information in multiview architectures to resolve analytic dependency loops. Keywords—Analytical models, Component architectures, Embedded software, Systems engineering and theory
CERN Developments for 704 MHz Superconducting Cavities

The Superconducting Proton Linac (SPL) is an R&D effort coordinated by CERN in partnership with other international laboratories. It is aiming at developing key technologies for the construction of a multi-megawatt proton linac based on state-of-the-art RF superconducting technology, which would serve as a driver in new physics facilities for neutrinos and/or Radioactive Ion Beam (RIB). Amongst the main objectives of this R&D effort, is the development of 704 MHz bulk niobium beta=1 elliptical cavities, operating at 2 K with a maximum accelerating gradient of 25 MV/m, and the testing of a string of cavities integrated in a machine-type cryomodule. The cavity together with its helium tank had to be carefully designed in coherence with the innovative design of the cryomodule. New fabrication methods have also been explored. Five such niobium cavities and two copper cavities are in fabrication. The key design aspects are discussed, the results of the alternative fabrication methods presented and the status of the cavity manufacturing and surface preparation is detailed.
Multitemporal SAR Image Decomposition into Strong Scatterers, Background, and Speckle

Speckle phenomenon in synthetic aperture radar (SAR) images makes their visual and automatic interpretation a difficult task. To reduce strong fluctuations due to speckle, total variation (TV) regularization has been proposed by several authors to smooth out noise without blurring edges. A specificity of SAR images is the presence of strong scatterers having a radiometry several orders of magnitude larger than their surrounding region. These scatterers, especially present in urban areas, limit the effectiveness of TV regularization as they break the assumption of an image made of regions of constant radiometry. To overcome this limitation, we propose in this paper an image decomposition approach. There exist numerous methods to decompose an image into several components, notably to separate textural and geometrical information. These decomposition models are generally recast as energy minimization problems involving a different penalty term for each of the components. In this framework, we propose an energy suitable for the decomposition of SAR images into speckle, a smooth background, and strong scatterers, and discuss its minimization using max-flow/min-cut algorithms. We make the connection between the minimization problem considered, involving the L0 pseudonorm, and the generalized likelihood ratio test used in detection theory. The proposed decomposition jointly performs the detection of strong scatterers and the estimation of the background radiometry. Given the increasing availability of time series of SAR images, we consider the decomposition of a whole time series. New change detection methods can be based on the temporal analysis of the components obtained from our decomposition.
Magnitude and determinants of inadequate third-trimester weight gain in rural Bangladesh

Objectives The objective of this study was to estimate the magnitude and determinants of inadequate weight gain in the third-trimester among rural women in Matlab, Bangladesh. Methods The study analyzed data on weight gain in the third trimester in 1,883 pregnant women in Matlab, Bangladesh. All these women were admitted to Matlab hospital of the International Centre for Diarrhoeal Disease Research, Bangladesh (icddr,b) for childbirth during 2012–2014, and they had singleton live births at term. Data were retrieved from the electronic databases of Matlab Health and Demographic Surveillance System and Matlab hospital. A multivariable logistic regression for inadequate weight gain in the third trimester (≤4 kg) was built with sociodemographic, environmental and maternal factors as predictors. Results One thousand and twenty-six (54%) pregnant women had inadequate weight gain in the third trimester. In the multivariable model, short stature turned out to be the most robust risk factor for inadequate weight gain in the third trimester (OR = 2.5; 95% CI 1.8, 3.5 for short compared to tall women). Pre-third-trimester BMI was inversely associated with insufficient weight gain (OR = 0.96; 95% CI 0.93, 0.99 for 1 unit increase in BMI). Other risk factors for inadequate weight gain in the third trimester were advanced age (OR = 1.9; 95% CI 1.2, 3.1 for ≥35 years compared to ≤19 years), parity (OR = 1.5; 95% CI 1.2, 1.9 for multipara compared to nulliparous women), low socioeconomic status (OR = 1.7; 95% CI 1.2, 2.3 for women in the lowest compared to women in the highest wealth quintile), low level of education (OR = 1.6; 95% CI 1.2, 2.1 for ≤5 years compared to ≥10 years of education), belonging to the Hindu religious community (OR = 1.8; 95% CI 1.3, 2.5), consuming arsenic-contaminated water (OR = 1.4; 95% CI 1.1, 1.9), and conceiving during monsoon or dry season compared to summer (OR = 1.4; 95% CI 1.1, 1.8). Conclusions Among rural Bangladeshi women in Matlab, third-trimester weight gain was in general poor. Maternal characteristics such as short stature, low BMI, advanced age, parity, low level of education and socioeconomic status, being Hindu, intake of arsenic contaminated water, and conceiving during monsoon or dry season were the risk factors for inadequate weight gain in the third trimester. Special attention should be given during prenatal care to women with the risk factors identified in this study.
Patterning Proteins and Cells Using Two-Dimensional Arrays of Colloids

A simple method is described for controlling the organization of proteins on surfaces using two-dimensional arrays of micron-sized colloidal particles. Suspensions of colloids functionalized with proteins are deposited onto coverslips coated with gold using a combination of gravitational settling and applied electrical fields. Varying settling time and particle concentration controls the density of particles on the substrate. Surface coverage ranged from an essentially continuous coating of protein on close-packed arrays to domains of protein separated by distances as large as 16 μm. Colloidal particle arrays were also patterned into 500 μm islands on substrates using elastomeric lift-off membranes. The applicability of this approach to the promotion of fibroblast cell adhesion and spreading was demonstrated using particles coated with the cell adhesion protein fibronectin. Behavior of adherent cells varied with particle density. This method provides a general strategy for controlling the organization of .
Reduced Expression of Syndecan‐1 Affects Metastatic Potential and Clinical Outcome in Patients with Colorectal Cancer

Syndecan‐1 is a transmembrane heparansulfate proteoglycan which regulates cell‐to‐cell or cell‐to‐extracellular matrix interactions and may influence malignant cell behavior. We investigated the alterations of syndecan‐1 expressions in colorectal cancers and analyzed the relationship between histological and clinical characteristics. Syndecan‐1 protein expression in colorectal cancer tissues was investigated with immunohistochemical staining of resected specimens. In situ hybridization was performed using syndecan‐1 riboprobe to confirm the transcriptional signals. Syndecan‐1 mRNA expression in cancer cell lines cultured with or without methylation inhibitor was also analyzed by quantitative PCR. Out of 105 specimens tested, less than 25% of tumor cells were stained with anti‐syndecan‐1 monoclonal antibody in 36 (34.3%). In situ hybridization showed a similar staining profile to that of immunohistochemistry. Syndecan‐1 mRNA expression was increased by the methylation inhibitor 5‐aza‐2′‐deoxycytidine, suggesting that the hypermethylation is involved in the suppression of syndecan‐1 expression. Clinically, the incidence of metastasis to lymphnode or liver in patients with syndecan‐1‐negative tumors was significantly high. Among Tl colorectal cancers displaying a primary invasive phase, lymphnode metastasis, undifferentiated characters and ‘budding’ of cancer cells were more common in syndecan‐1‐negative tumors. The survival rate in patients with syndecan‐1‐negative tumors was decreased significantly in a stage‐independent manner. These results suggest that the reduction of syndecan‐1 expression in colorectal cancer cells, which is supposed to be regulated at the transcription level, is closely related to invasive character. The evaluation of syndecan‐1 expression in colorectal cancer may allow prediction of patients' survival after surgery
Plasma-surface modification of biomaterials

Plasma-surface modification (PSM) is an effective and economical surface treatment technique for many materials and of growing interests in biomedical engineering. This article reviews the various common plasma techniques and experimental methods as applied to biomedical materials research, such as plasma sputtering and etching, plasma implantation, plasma deposition, plasma polymerization, laser plasma deposition, plasma spraying, and so on. The unique advantage of plasma modification is that the surface properties and biocompatibility can be enhanced selectively while the bulk attributes of the materials remain unchanged. Existing materials can, thus, be used and needs for new classes of materials may be obviated thereby shortening the time to develop novel and better biomedical devices. Recent work has spurred a number of very interesting applications in the biomedical field. This review article concentrates upon the current status of these techniques, new applications, and achievements pertaining to biomedical materials research. Examples described include hard tissue replacements, blood contacting prostheses, ophthalmic devices, and other products. # 2002 Elsevier Science B.V. All rights reserved.
Late Stent Malapposition After Drug-Eluting Stent Implantation: An Intravascular Ultrasound Analysis With Long-Term Follow-Up

Background— Late stent malapposition (LSM) after drug-eluting stent (DES) implantation has not been evaluated sufficiently in real-world practice. Methods and Results— We evaluated the incidence, mechanisms, predictors, and long-term prognosis of LSM after DES implantation in 557 patients (705 native lesions; sirolimus-eluting stent in 538 lesions and paclitaxel-eluting stent in 167 lesions) in whom intravascular ultrasound was performed at index and 6-month follow-up. LSM occurred in 82 patients with 85 lesions (12.1% overall, 95% CI 9.7% to 14.5%, 71 lesions (13.2%) in sirolimus-eluting stents and 14 lesions [8.4%] in paclitaxel-eluting stents, P=0.12]; the incidence was 25.0% (4/16) after directional coronary atherectomy before stenting, 27.5% (14/51) in chronic total occlusion lesions, and 31.8% (7/22) after primary stenting in acute myocardial infarction (P=0.13, P<0.001, and P=0.001, respectively, versus elective stenting with conventional balloon predilation, 9.7% [60/616]). There was an increase of external elastic membrane area (from 17.1±3.6 to 21.4±4.8 mm2, P<0.001) that was greater than the increase in plaque area (from 9.3±2.5 to 10.5±2.7 mm2, P<0.001). Independent predictors of LSM were total stent length, primary stenting in acute myocardial infarction, and chronic total occlusion lesions. Except for 1 death in the non-LSM group, there were no major adverse cardiac events in either LSM or non-LSM patients during a mean 10-month follow-up after detection of LSM. Conclusions— LSM occurs in 12% of cases after DES implantation. The predictors of LSM are total stent length, primary stenting in acute myocardial infarction, and chronic total occlusion lesions. LSM after DES implantation was not associated with any major adverse cardiac events during a subsequent 10-month (mean) follow-up.
Order Dispatch in Price-aware Ridesharing

With the prevalence of car-hailing applications, ridesharing becomes more and more popular because of its great potential in monetary saving and environmental protection. Order dispatch is the key problem in ridesharing, which has a strong impact on riders' experience and platform's performance. Existing order dispatch research works fail to consider the price of the orders, which can be an important reference because it directly relates to the platform's profit. Our work takes the order price into concern, and formulates a constrained optimization problem, which takes platform's profit as the optimization objective and performs controls on riders' detour distance and waiting time. We prove the problem is NP-hard, thus, we propose approximation methods. We further develop a simulation framework based on real ridesharing order and vehicle data. We conduct experiments with this simulation framework to evaluate the effectiveness and efficiency of the proposed methods.
A Genome-Wide Test of the Differential Susceptibility Hypothesis Reveals a Genetic Predictor of Differential Response to Psychological Treatments for Child Anxiety Disorders

Background: The differential susceptibly hypothesis suggests that certain genetic variants moderate the effects of both negative and positive environments on mental health and may therefore be important predictors of response to psychological treatments. Nevertheless, the identification of such variants has so far been limited to preselected candidate genes. In this study we extended the differential susceptibility hypothesis from a candidate gene to a genome-wide approach to test whether a polygenic score of environmental sensitivity predicted response to cognitive behavioural therapy (CBT) in children with anxiety disorders. Methods: We identified variants associated with environmental sensitivity using a novel method in which within-pair variability in emotional problems in 1,026 monozygotic twin pairs was examined as a function of the pairs' genotype. We created a polygenic score of environmental sensitivity based on the whole-genome findings and tested the score as a moderator of parenting on emotional problems in 1,406 children and response to individual, group and brief parent-led CBT in 973 children with anxiety disorders. Results: The polygenic score significantly moderated the effects of parenting on emotional problems and the effects of treatment. Individuals with a high score responded significantly better to individual CBT than group CBT or brief parent-led CBT (remission rates: 70.9, 55.5 and 41.6%, respectively). Conclusions: Pending successful replication, our results should be considered exploratory. Nevertheless, if replicated, they suggest that individuals with the greatest environmental sensitivity may be more likely to develop emotional problems in adverse environments but also benefit more from the most intensive types of treatment.
Centrosomal Kinases, HsAIRK1 and HsAIRK3, are Overexpressed in Primary Colorectal Cancers

Members of the recently identified family of Homo sapiens Aurora/Ipl1‐related kinases (HsAIRKs), homologous to chromosome segregation kinases, fly Aurora and yeast Ipl1, are highly expressed during M phase, and have been suggested to regulate centrosome function, chromosome segregation, and cytokinesis. In the present study, immunohistochemical analyses were performed of HsAIRK1 and HsAIRK3 expression in 78 primary colorectal cancers and 36 colorectal adenomas as well as 15 normal colorectal specimens. In normal colon mucosa, some crypt cells showed weak positive staining in 10 and 12 out of 15 cases for HsAIRK1 and HsAIRK3, respectively, the remaining cases being negative. Elevated expression of HsAIRK1 was observed in 53 (67.9%) of the colorectal cancers, and of HsAIRK3 in 40 (51.3%). Furthermore, colorectal adenomas showed high expression of HsAIRK1 and HsAIRK3 in 11 (30.6%) and 7 (19.4%) cases, respectively, thus being intermediate between colorectal cancers and normal colorectal mucosa. Interestingly, HsAIRK1 overexpression was significantly associated with pT (primary tumor invasion) and p53 accumulation in colorectal cancers. There was no significant correlation between proliferating cell nuclear antigen‐labeling index (PCNA‐LI) and the levels of these proteins. The results suggest that overexpression of HsAIRK1 and HsAIRK3 might be involved in tumorigenesis and/or progression of colorectal cancers.
Nutritional Effects on Pork Quality in Swine Production

A number of factors affect pork quality, with swine genetics, preslaughter handling, harvest, and pork carcass chilling having the greatest impacts. However, there is considerable evidence indicating that manipulating the nutrient composition of swine diets may offset the negative effects of genetic predisposition and/or pig handling on pork quality, and may actually enhance pork quality traits of well-handled pigs of good quality genotypes.