Genome-wide identification and evolutionary analyses of the PP2C gene family with their expression profiling in response to multiple stresses in Brachypodium distachyon

Expression pattern of duplication BdPP2C genes under biotic/abiotic stresses and phytohormone treatments. (TIF 9276 kb

Learning to Infer User Hidden States for Online Sequential Advertising

To drive purchase in online advertising, it is of the advertiser's great interest to optimize the sequential advertising strategy whose performance and interpretability are both important. The lack of interpretability in existing deep reinforcement learning methods makes it not easy to understand, diagnose and further optimize the strategy. In this paper, we propose our Deep Intents Sequential Advertising (DISA) method to address these issues. The key part of interpretability is to understand a consumer's purchase intent which is, however, unobservable (called hidden states). In this paper, we model this intention as a latent variable and formulate the problem as a Partially Observable Markov Decision Process (POMDP) where the underlying intents are inferred based on the observable behaviors. Large-scale industrial offline and online experiments demonstrate our method's superior performance over several baselines. The inferred hidden states are analyzed, and the results prove the rationality of our inference.Comment: to be published in CIKM 202

Global Profiling of DNA Replication Timing and Efficiency Reveals that Efficient Replication/Firing Occurs Late during S-Phase in S. pombe

10.1371/journal.pone.0000722PLoS ONE2

Genomic Binding Profiling of the Fission Yeast Stress-Activated MAPK Sty1 and the bZIP Transcriptional Activator Atf1 in Response to H2O2

10.1371/journal.pone.0011620PLoS ONE57

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 <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

Equivalent Static Wind Load for Structures with Inerter-Based Vibration Absorbers

Equivalent Static Wind Loads (ESWL) are desired in structural design to consider peak dynamic wind effects. Conventional ESWLs are for structures without control. For flexible structures with vibration control devices, the investigation of ESWL is required. Inerter-based Vibration Absorbers (IVAs), due to the light weight and high performance, gained much research attention recently. This paper established a generic analytical framework of ESWL for structures with IVAs. The analytical optimal design formulas for IVAs with different configurations and installation locations are provided. Subsequently, the solutions to uncontrolled and controlled wind-induced responses are derived based on the filter approach. Finally, the ESWL for controlled structures are presented with a gust response factor approach. The ESWL estimation for a tall chimney controlled by IVAs is illustrated, and the results revealed a significant ESWL reduction effect of the IVAs, particularly for the cross-wind vortex resonance. In the presented framework, the conventional uncontrolled ESWL can be converted to the controlled one with a control ratio. The closed form solution of the control ratio is provided, which enables a quick estimation of ESWL for controlled structures particularly in the preliminary design stage. The presented approach has the potential to be extended to more complex structures and vibration control devices

Preparation and Magnetic Properties of Polycrystalline Eu 2 O 3 Microwires

In this paper, large-scale Eu 2 O 3 microwires with great length were successfully fabricated by a simple and facile electrodeposition and a subsequent heat-treatment. The morphology and structure of the as-deposited and the annealing microwires were studied in detail by SEM, EDS, XPS and TEM, and the results indicate that the as-deposited Eu(OH) 3 microwires are amorphous, and Eu 2 O 3 microwires after annealing are polycrystalline with body center cubic structure. Moreover, the magnetic properties of Eu 2 O 3 microwires were also investigated. The Eu 2 O 3 sample shows a non-typical magnetism which might result from oxygen vacancies confirmed by XPS

Genome-wide exploration of the molecular evolution and regulatory network of mitogen-activated protein kinase cascades upon multiple stresses in Brachypodium distachyon

Abstract Background Brachypodium distachyon is emerging as a widely recognized model plant that has very close relations with several economically important Poaceae species. MAPK cascade is known to be an evolutionarily conserved signaling module involved in multiple stresses. Although the gene sequences of MAPK and MAPKK family have been fully identified in B. distachyon, the information related to the upstream MAPKKK gene family especially the regulatory network among MAPKs, MAPKKs and MAPKKKs upon multiple stresses remains to be understood. Results In this study, we have identified MAPKKKs which belong to the biggest gene family of MAPK cascade kinases. We have systematically investigated the evolution of whole MAPK cascade kinase gene family in terms of gene structures, protein structural organization, chromosomal localization, orthologs construction and gene duplication analysis. Our results showed that most BdMAPK cascade kinases were located at the low-CpG-density region, and the clustered members in each group shared similar structures of the genes and proteins. Synteny analysis showed that 62 or 21 pairs of duplicated orthologs were present between B. distachyon and Oryza sativa, or between B. distachyon and Arabidopsis thaliana respectively. Gene expression data revealed that BdMAPK cascade kinases were rapidly regulated by stresses and phytohormones. Importantly, we have constructed a regulation network based on co-expression patterns of the expression profiles upon multiple stresses performed in this study. Conclusions BdMAPK cascade kinases were involved in the signaling pathways of multiple stresses in B. distachyon. The network of co-expression regulation showed the most of duplicated BdMAPK cascade kinase gene orthologs demonstrated their convergent function, whereas few of them developed divergent function in the evolutionary process. The molecular evolution analysis of identified MAPK family genes and the constructed MAPK cascade regulation network under multiple stresses provide valuable information for further investigation of the functions of BdMAPK cascade kinase genes

Django framework based web application for objective analysis of hypokinetic dysarthria

This master´s thesis deals with the calculation of parameters that would be able to differentiate healthy speech and speech impaired by hypokinetic dysarthria. There was staged hypokinetic dysarthria, which is a motoric disorder of speech and vocal tract. Were studied speech signal processing methods. Further parameters were studied, which could well differentiate healthy and diseased speech. Subsequently, these parameters were programmed in Python programming language. The next step was to create a web application in Django framework, which is used for the analysis of the dyzartic speech