An Iterative Scheme for Leverage-based Approximate Aggregation

The current data explosion poses great challenges to the approximate aggregation with an efficiency and accuracy. To address this problem, we propose a novel approach to calculate the aggregation answers with a high accuracy using only a small portion of the data. We introduce leverages to reflect individual differences in the samples from a statistical perspective. Two kinds of estimators, the leverage-based estimator, and the sketch estimator (a "rough picture" of the aggregation answer), are in constraint relations and iteratively improved according to the actual conditions until their difference is below a threshold. Due to the iteration mechanism and the leverages, our approach achieves a high accuracy. Moreover, some features, such as not requiring recording the sampled data and easy to extend to various execution modes (e.g., the online mode), make our approach well suited to deal with big data. Experiments show that our approach has an extraordinary performance, and when compared with the uniform sampling, our approach can achieve high-quality answers with only 1/3 of the same sample size.Comment: 17 pages, 9 figure

First SNPP Cal/Val Campaign: Satellite and Aircraft Sounding Retrieval Intercomparison

Satellite ultraspectral infrared sensors provide key data records essential for weather forecasting and climate change science. The Suomi National Polar-orbiting Partnership (SNPP) satellite Environmental Data Record (EDR) is retrieved from calibrated ultraspectral radiance so called Sensor Data Record (SDR). It is critical to understand the accuracy of retrieved EDRs, which mainly depends on SDR accuracy (e.g., instrument random noise and absolute accuracy), an ill-posed retrieval system, and radiative transfer model errors. There are few approaches to validate EDR products, e.g., some common methods are to rely on radiosonde measurements, ground-based measurements, and dedicated aircraft campaign providing in-situ measurements of atmosphere and/or employing similar ultraspectral interferometer sounders. Ultraspectral interferometer sounder aboard aircraft measures SDR to retrieve EDR, which is often used to validate satellite measurements of SDR and EDR. The SNPP Calibration/Validation Campaign was conducted during May 2013. The NASA high-altitude aircraft ER-2 that carried ultraspectral interferometer sounders such as the NASA Atmospheric Sounder Testbed-Interferometer (NAST-I) flew under the SNPP satellite that carries the Cross-track Infrared Sounder (CrIS). Here we inter-compare the EDRs produced with different retrieval algorithms from SDRs measured by the sensors from satellite and aircraft. The available dropsonde and radiosonde measurements together with the European Centre for Medium-Range Weather Forecasts (ECMWF) analysis were also used to draw the conclusion from this experiment

Cytomegalovirus Infection May Trigger Adult-Onset Still's Disease Onset or Relapses

Previous studies have revealed that several micro-organisms, especially DNA viruses, have been associated with adult-onset Still's disease (AOSD). However, there are no studies on the relationship between the presence of viral infections in AOSD patients with disease occurrence and reactivation. In the present study, we aimed to investigate the presence of antibodies against virus, virus DNA load and nucleic acid sensors in AOSD patients. Anti-viral antibodies were measured by enzyme-linked immunosorbent assay (ELISA) in plasma samples from 100 AOSD patients and 70 healthy controls (HCs). The copy number of cytomegalovirus (CMV) DNA in 100 AOSD patients was detected by PCR. The expression levels of nucleic acid sensors interferon gamma-inducible protein 16 (IFI16) and absent in melanoma 2 (AIM2) in peripheral blood mononuclear cell (PBMC) and skin from AOSD patients and HCs were analyzed by PCR and immunohistochemistry. The levels of antibodies against CMV were significantly higher in AOSD patients compared to HCs. Moreover, the level of anti-CMV IgM antibody was significantly increased in patients with fever, sore throat, arthralgia and rash. CMV DNA was found in plasma of AOSD patients with disease new-onset and relapse. Furthermore, the copy number of CMV DNA significantly increased in patients with fever, sore throat, arthralgia and rash. And the significant associations of the CMV DNA level with the levels of leukocytes, erythrocyte sedimentation rate (ESR), C-reactive protein (CRP) and tumor necrosis factor-α (TNF-α) were observed. Moreover, we found an upregulation of cytoplasmic DNA-sensing receptor IFI16 and AIM2 in PBMC and skin from AOSD patients. In conclusion, our results showed that CMV infection may play a role in the initiation or amplification of inflammatory responses in AOSD

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

The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases

The SIB Swiss Institute of Bioinformatics (www.isb-sib.ch) provides world-class bioinformatics databases, software tools, services and training to the international life science community in academia and industry. These solutions allow life scientists to turn the exponentially growing amount of data into knowledge. Here, we provide an overview of SIB's resources and competence areas, with a strong focus on curated databases and SIB's most popular and widely used resources. In particular, SIB's Bioinformatics resource portal ExPASy features over 150 resources, including UniProtKB/Swiss-Prot, ENZYME, PROSITE, neXtProt, STRING, UniCarbKB, SugarBindDB, SwissRegulon, EPD, arrayMap, Bgee, SWISS-MODEL Repository, OMA, OrthoDB and other databases, which are briefly described in this article

Antidepressants amitriptyline, fluoxetine, and traditional Chinese medicine Xiaoyaosan caused alterations in gut DNA virome composition and function in rats exposed chronic unpredictable mild stress

In clinical practice, antidepressant drugs are widely used to treat depression. Previous studies have attention to the impact of antidepressants on the bacterial microbiome, while the role of these drugs in the gut virome is still unclear.Published versionThis work was supported by the National Natural Science Foundation of China (grant no. 32170064)

Quantum Multi-Armed Bandits and Stochastic Linear Bandits Enjoy Logarithmic Regrets

Multi-arm bandit (MAB) and stochastic linear bandit (SLB) are important models in reinforcement learning, and it is well-known that classical algorithms for bandits with time horizon T suffer from the regret of at least the square root of T. In this paper, we study MAB and SLB with quantum reward oracles and propose quantum algorithms for both models with the order of the polylog T regrets, exponentially improving the dependence in terms of T. To the best of our knowledge, this is the first provable quantum speedup for regrets of bandit problems and in general exploitation in reinforcement learning. Compared to previous literature on quantum exploration algorithms for MAB and reinforcement learning, our quantum input model is simpler and only assumes quantum oracles for each individual arm

A Rapid Control Prototyping System Design for Temperature Control of Plastic Extruder Based on Labview

In order to verify the performance of the designed temperature controller of the plastic extruder using supercritical CO2, we developed a Hardware-In-the-Loop (HIL) simulation system. The specified HIL simulation system was founded upon the NI products, while the temperature controller and its accessorial parts were constructed in Matlab/Simulink environment. Labview and Simulink were combined together with NI Simulation Interface Toolkit (SIT), and a friendly Human Machine Interface (HMI) was developed and implemented in the host computer by using TCP/IP protocol for data communication. The result showed that the designed temperature control algorithm had better effect when used in the plastic extruder production field. This HIL simulation system can shorten the development cycle and cost, improve the design level of the control system, and provide a solution to the demonstration of the controller in the real-time mode. Meanwhile, the HMI solved the problem of real-time monitoring in the process of the HIL simulation. What's more, this simulation system can be applied in other process control fields as flow, pressure, etc