A photon counting reconstructive spectrometer combining metasurfaces and superconducting nanowire single-photon detectors

Faint light spectroscopy has many important applications such as fluorescence spectroscopy, lidar and astronomical observations. However, long measurement time limit its application on real-time measurement. In this work, a photon counting reconstructive spectrometer combining metasurfaces and superconducting nanowire single photon detectors (SNSPDs) was proposed. A prototype device was fabricated on a silicon on isolator (SOI) substrate, and its performance was characterized. Experiment results show that this device support spectral reconstruction of mono-color lights with a resolution of 2 nm in the wavelength region of 1500 nm ~ 1600 nm. The detection efficiency of this device is 1.4% ~ 3.2% in this wavelength region. The measurement time required by this photon counting reconstructive spectrometer was also investigated experimentally, showing its potential to be applied in the scenarios requiring real-time measurement

Saikosaponin A Alleviates Symptoms of Attention Deficit Hyperactivity Disorder through Downregulation of DAT and Enhancing BDNF Expression in Spontaneous Hypertensive Rats

The disturbed dopamine availability and brain-derived neurotrophic factor (BDNF) expression are due in part to be associated with attention deficit hyperactivity disorder (ADHD). In this study, we investigated the therapeutical effect of saikosaponin a (SSa) isolated from Bupleurum Chinese DC, against spontaneously hypertensive rat (SHR) model of ADHD. Methylphenidate and SSa were orally administered for 3 weeks. Activity was assessed by open-field test and Morris water maze test. Dopamine (DA) and BDNF were determined in specific brain regions. The mRNA or protein expression of tyrosine hydroxylase (TH), dopamine transporter (DAT), and vesicles monoamine transporter (VMAT) was also studied. Both MPH and SSa reduced hyperactivity and improved the spatial learning memory deficit in SHRs. An increased DA concentration in the prefrontal cortex (PFC) and striatum was also observed after treating with the SSa. The increased DA concentration may partially be attributed to the decreased mRNA and protein expression of DAT in PFC while SSa exhibited no significant effects on the mRNA expression of TH and VMAT in PFC of SHRs. In addition, BDNF expression in SHRs was also increased after treating with SSa or MPH. The obtained result suggested that SSa may be a potential drug for treating ADHD

Universal Quantum Optimization with Cold Atoms in an Optical Cavity

Cold atoms in an optical cavity have been widely used for quantum simulations of many-body physics, where the quantum control capability has been advancing rapidly in recent years. Here, we show the atom cavity system is universal for quantum optimization with arbitrary connectivity. We consider a single-mode cavity and develop a Raman coupling scheme by which the engineered quantum Hamiltonian for atoms directly encodes number partition problems (NPPs). The programmability is introduced by placing the atoms at different positions in the cavity with optical tweezers. The NPP solution is encoded in the ground state of atomic qubits coupled through a photonic cavity mode, that can be reached by adiabatic quantum computing (AQC). We construct an explicit mapping for the 3-SAT and vertex cover problems to be efficiently encoded by the cavity system, which costs linear overhead in the number of atomic qubits. The atom cavity encoding is further extended to quadratic unconstrained binary optimization (QUBO) problems. The encoding protocol is optimal in the cost of atom number scaling with the number of binary degrees of freedom of the computation problem. Our theory implies the atom cavity system is a promising quantum optimization platform searching for practical quantum advantage.Comment: 13 pages, 2 figure

Protecting the Future: Neonatal Seizure Detection with Spatial-Temporal Modeling

A timely detection of seizures for newborn infants with electroencephalogram (EEG) has been a common yet life-saving practice in the Neonatal Intensive Care Unit (NICU). However, it requires great human efforts for real-time monitoring, which calls for automated solutions to neonatal seizure detection. Moreover, the current automated methods focusing on adult epilepsy monitoring often fail due to (i) dynamic seizure onset location in human brains; (ii) different montages on neonates and (iii) huge distribution shift among different subjects. In this paper, we propose a deep learning framework, namely STATENet, to address the exclusive challenges with exquisite designs at the temporal, spatial and model levels. The experiments over the real-world large-scale neonatal EEG dataset illustrate that our framework achieves significantly better seizure detection performance.Comment: Accepted in IEEE International Conference on Systems, Man, and Cybernetics (SMC) 202

Abstract Syntax Tree for Programming Language Understanding and Representation: How Far Are We?

Programming language understanding and representation (a.k.a code representation learning) has always been a hot and challenging task in software engineering. It aims to apply deep learning techniques to produce numerical representations of the source code features while preserving its semantics. These representations can be used for facilitating subsequent code-related tasks. The abstract syntax tree (AST), a fundamental code feature, illustrates the syntactic information of the source code and has been widely used in code representation learning. However, there is still a lack of systematic and quantitative evaluation of how well AST-based code representation facilitates subsequent code-related tasks. In this paper, we first conduct a comprehensive empirical study to explore the effectiveness of the AST-based code representation in facilitating follow-up code-related tasks. To do so, we compare the performance of models trained with code token sequence (Token for short) based code representation and AST-based code representation on three popular types of code-related tasks. Surprisingly, the overall quantitative statistical results demonstrate that models trained with AST-based code representation consistently perform worse across all three tasks compared to models trained with Token-based code representation. Our further quantitative analysis reveals that models trained with AST-based code representation outperform models trained with Token-based code representation in certain subsets of samples across all three tasks. We also conduct comprehensive experiments to evaluate and reveal the impact of the choice of AST parsing/preprocessing/encoding methods on AST-based code representation and subsequent code-related tasks. Our study provides future researchers with detailed guidance on how to select solutions at each stage to fully exploit AST.Comment: submitted to ACM Transactions on Software Engineering and Methodology. arXiv admin note: text overlap with arXiv:2103.10668 by other author

Accuracy of narrow band imaging for detecting the malignant transformation of oral potentially malignant disorders: A systematic review and meta-analysis

ObjectiveOral potentially malignant disorders (OPMDs) are a spectrum of diseases that harbor the potential of malignant transformation and developing into oral squamous cell carcinoma (OSCC). Narrow band imaging (NBI) has been clinically utilized for the adjuvant diagnosis of OPMD and OSCC. This study aimed to comprehensively evaluate the diagnostic accuracy of NBI for malignant transformations of OPMD by applying the intraepithelial papillary capillary loop (IPCL) classification approach.MethodsStudies reporting the diagnostic validity of NBI in the detection of OPMD/OSCC were selected. Four databases were searched and 11 articles were included in the meta-analysis. We performed four subgroup analyses by defining IPCL I/II as negative diagnostic results and no/mild dysplasia as negative pathological outcome. Pooled data were analyzed using random-effects models. Meta-regression analysis was performed to explore heterogeneity.ResultsAfter pooled analysis of the four subgroups, we found that subgroup 1, defining IPCL II and above as a clinically positive result, demonstrated the most optimal overall diagnostic accuracy for the malignant transformation of OPMDs, with a sensitivity and specificity of NBI of 0.87 (95% confidence interval (CI) [0.67, 0.96], p < 0.001) and 0.83 [95% CI (0.56, 0.95), p < 0.001], respectively; while the other 3 subgroups displayed relatively low sensitivity or specificity.ConclusionsNBI is a promising and non-invasive adjunctive tool for identifying malignant transformations of OPMDs. The IPCL grading is currently a sound criterion for the clinical application of NBI. After excluding potentially false positive results, these oral lesions classified as IPCL II or above are suggested to undergo biopsy for early and accurate diagnosis as well as management

Novel nickel foam with multiple microchannels as combustion reaction support for the self-heating methanol steam reforming microreactor

To improve hydrogen production performance of self-heating methanol steam reforming (MSR) microreactor, novel nickel foam with multiple microchannels was proposed as combustion reaction support. A wall temperature comparison of the methanol combustion microreactors with nickel foam catalyst support and particles catalyst support in the combustion reaction process was performed. According to the numerical simulation result of combustion reaction of nickel foam, the shape and size of multiple microchannels of nickel foam were determined. The laser processing was then used to fabricate the multiple microchannels of nickel foam. The experimental results show that the methanol combustion microreactor with nickel foam loaded with Pt catalyst exhibits similar wall temperature distribution with the methanol combustion microreactor with Pt/γ-Al2O3 particles reaction support. Compared with the nickel foam without a microchannel, the maximum temperature difference (ΔTmax) and the maximum temperature of nickel foam with multiple microchannels were decreased, respectively, by 57.8% and 33.8 °C when 1.1 mL/min methanol flow rate was used. Hydrogen production performance of the self-heating MSR microreactor using the nickel foam with multiple microchannels increased by about 21% when 430 °C reforming temperature and 4 mL/h methanol–water mixture flow rate were performed

Genetic Diversity and Linkage Disequilibrium in Chinese Bread Wheat (Triticum aestivum L.) Revealed by SSR Markers

Two hundred and fifty bread wheat lines, mainly Chinese mini core accessions, were assayed for polymorphism and linkage disequilibrium (LD) based on 512 whole-genome microsatellite loci representing a mean marker density of 5.1 cM. A total of 6,724 alleles ranging from 1 to 49 per locus were identified in all collections. The mean PIC value was 0.650, ranging from 0 to 0.965. Population structure and principal coordinate analysis revealed that landraces and modern varieties were two relatively independent genetic sub-groups. Landraces had a higher allelic diversity than modern varieties with respect to both genomes and chromosomes in terms of total number of alleles and allelic richness. 3,833 (57.0%) and 2,788 (41.5%) rare alleles with frequencies of <5% were found in the landrace and modern variety gene pools, respectively, indicating greater numbers of rare variants, or likely new alleles, in landraces. Analysis of molecular variance (AMOVA) showed that A genome had the largest genetic differentiation and D genome the lowest. In contrast to genetic diversity, modern varieties displayed a wider average LD decay across the whole genome for locus pairs with r2>0.05 (P<0.001) than the landraces. Mean LD decay distance for the landraces at the whole genome level was <5 cM, while a higher LD decay distance of 5–10 cM in modern varieties. LD decay distances were also somewhat different for each of the 21 chromosomes, being higher for most of the chromosomes in modern varieties (<5∼25 cM) compared to landraces (<5∼15 cM), presumably indicating the influences of domestication and breeding. This study facilitates predicting the marker density required to effectively associate genotypes with traits in Chinese wheat genetic resources

Robust estimation of bacterial cell count from optical density

Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals &lt;1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data

Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Document recommendation systems for locating relevant literature have mostly relied on methods developed a decade ago. This is largely due to the lack of a large offline gold-standard benchmark of relevant documents that cover a variety of research fields such that newly developed literature search techniques can be compared, improved and translated into practice. To overcome this bottleneck, we have established the RElevant LIterature SearcH consortium consisting of more than 1500 scientists from 84 countries, who have collectively annotated the relevance of over 180 000 PubMed-listed articles with regard to their respective seed (input) article/s. The majority of annotations were contributed by highly experienced, original authors of the seed articles. The collected data cover 76% of all unique PubMed Medical Subject Headings descriptors. No systematic biases were observed across different experience levels, research fields or time spent on annotations. More importantly, annotations of the same document pairs contributed by different scientists were highly concordant. We further show that the three representative baseline methods used to generate recommended articles for evaluation (Okapi Best Matching 25, Term Frequency-Inverse Document Frequency and PubMed Related Articles) had similar overall performances. Additionally, we found that these methods each tend to produce distinct collections of recommended articles, suggesting that a hybrid method may be required to completely capture all relevant articles. The established database server located at https://relishdb.ict.griffith.edu.au is freely available for the downloading of annotation data and the blind testing of new methods. We expect that this benchmark will be useful for stimulating the development of new powerful techniques for title and title/abstract-based search engines for relevant articles in biomedical research.Peer reviewe