MIClique: An Algorithm to Identify Differentially Coexpressed Disease Gene Subset from Microarray Data

Computational analysis of microarray data has provided an effective way to identify disease-related genes. Traditional disease gene selection methods from microarray data such as statistical test always focus on differentially expressed genes in different samples by individual gene prioritization. These traditional methods might miss differentially coexpressed (DCE) gene subsets because they ignore the interaction between genes. In this paper, MIClique algorithm is proposed to identify DEC gene subsets based on mutual information and clique analysis. Mutual information is used to measure the coexpression relationship between each pair of genes in two different kinds of samples. Clique analysis is a commonly used method in biological network, which generally represents biological module of similar function. By applying the MIClique algorithm to real gene expression data, some DEC gene subsets which correlated under one experimental condition but uncorrelated under another condition are detected from the graph of colon dataset and leukemia dataset

Graph Based Long-Term And Short-Term Interest Model for Click-Through Rate Prediction

Click-through rate (CTR) prediction aims to predict the probability that the user will click an item, which has been one of the key tasks in online recommender and advertising systems. In such systems, rich user behavior (viz. long- and short-term) has been proved to be of great value in capturing user interests. Both industry and academy have paid much attention to this topic and propose different approaches to modeling with long-term and short-term user behavior data. But there are still some unresolved issues. More specially, (1) rule and truncation based methods to extract information from long-term behavior are easy to cause information loss, and (2) single feedback behavior regardless of scenario to extract information from short-term behavior lead to information confusion and noise. To fill this gap, we propose a Graph based Long-term and Short-term interest Model, termed GLSM. It consists of a multi-interest graph structure for capturing long-term user behavior, a multi-scenario heterogeneous sequence model for modeling short-term information, then an adaptive fusion mechanism to fused information from long-term and short-term behaviors. Comprehensive experiments on real-world datasets, GLSM achieved SOTA score on offline metrics. At the same time, the GLSM algorithm has been deployed in our industrial application, bringing 4.9% CTR and 4.3% GMV lift, which is significant to the business.Comment: CIKM 2022 accepte

Entoptic image quality of the retinal vasculature

AbstractSpatial details of entoptically visible retinal vessels were investigated using transcleral and Maxwellian-view stimulators. Nine normal subjects provided detailed drawings of the entoptic images which were digitized and superimposed onto digitized fundus photographs and fluorescein angiograms from the same eyes. Subjects also used a tracing method to locate visible entoptic features. The trans-scleral method provided images similar in detail to standard fundus photography (lacking capillary detail, but capturing larger arteries, veins, arterioles and venules) in the macula and around the disk. The Maxwellian-view method illuminated the fovea (7.7 degree field) and provided foveola capillary detail (capillaries traversing the foveola, the capillary arcade forming the FAZ) as well as the larger foveal vessels supplying the foveola, and often contained more foveal detail that available with fluorescein angiography

The Trypanosoma \u3ci\u3ebrucei\u3c/i\u3e MitoCarta and its regulation and splicing pattern during development

It has long been known that trypanosomes regulate mitochondrial biogenesis during the life cycle of the parasite; however, the mitochondrial protein inventory (MitoCarta) and its regulation remain unknown. We present a novel computational method for genome-wide prediction of mitochondrial proteins using a support vector machine-based classifier with ~90% prediction accuracy. Using this method, we predicted the mitochondrial localization of 468 proteins with high confidence and have experimentally verified the localization of a subset of these proteins. We then applied a recently developed parallel sequencing technology to determine the expression profiles and the splicing patterns of a total of 1065 predicted MitoCarta transcripts during the development of the parasite, and showed that 435 of the transcripts significantly changed their expressions while 630 remain unchanged in any of the three life stages analyzed. Furthermore, we identified 298 alternatively splicing events, a small subset of which could lead to dual localization of the corresponding proteins

The Trypanosoma brucei MitoCarta and its regulation and splicing pattern during development

It has long been known that trypanosomes regulate mitochondrial biogenesis during the life cycle of the parasite; however, the mitochondrial protein inventory (MitoCarta) and its regulation remain unknown. We present a novel computational method for genome-wide prediction of mitochondrial proteins using a support vector machine-based classifier with ∼90% prediction accuracy. Using this method, we predicted the mitochondrial localization of 468 proteins with high confidence and have experimentally verified the localization of a subset of these proteins. We then applied a recently developed parallel sequencing technology to determine the expression profiles and the splicing patterns of a total of 1065 predicted MitoCarta transcripts during the development of the parasite, and showed that 435 of the transcripts significantly changed their expressions while 630 remain unchanged in any of the three life stages analyzed. Furthermore, we identified 298 alternatively splicing events, a small subset of which could lead to dual localization of the corresponding protein

Intense duskside lower band chorus waves observed by Van Allen Probes: Generation and potential acceleration effect on radiation belt electrons

Abstract Local acceleration driven by whistler mode chorus waves largely accounts for the enhancement of radiation belt relativistic electron fluxes, whose favored region is usually considered to be the plasmatrough with magnetic local time approximately from midnight through dawn to noon. On 2 October 2013, the Van Allen Probes recorded a rarely reported event of intense duskside lower band chorus waves (with power spectral density up to 10-3nT 2/Hz) in the low-latitude region outside of L=5. Such chorus waves are found to be generated by the substorm-injected anisotropic suprathermal electrons and have a potentially strong acceleration effect on the radiation belt energetic electrons. This event study demonstrates the possibility of broader spatial regions with effective electron acceleration by chorus waves than previously expected. For such intense duskside chorus waves, the occurrence probability, the preferential excitation conditions, the time duration, and the accurate contribution to the long-term evolution of radiation belt electron fluxes may need further investigations in future

Determination of banned pigment quinoline yellow in pastries by salting out assisted-high performance liquid chromatography

ObjectiveTo develop an analytical method for fast determination of banned pigment quinoline yellow in pastries by salting out assisted-high performance liquid chromatography.MethodsThe sample was extracted with 40% methanol-sodium chloride-water， precipitated with potassium ferrocyanide-zinc acetate solution， eluted with mobile phase of methanol-0.02 mol/L ammonium acetate solution， separated by X-Bridge C18 column v（150 mm×4.6 mm， 3.5 μm）， and detected with diode -array detector by external standard method.ResultsThe method showed good linearity （r>0.999） in the range of 0.4-40.0 μg/mL. The limit of detection （S/N=3） was 1.25 mg/kg and the limit of quantification （S/N=10） was 5.0 mg/kg. The average recoveries of three different concentrations level at 5.0， 10.0 and 50.0 mg/kg ranged from 89.18% to 110.10%， with relative standard deviation in the range of 2.83%-8.65%.ConclusionThe method was convenient， accurate and reproducible， and it was suitable for qualitative and quantitative analysis of banned pigment quinoline yellow in pastries

Magnetohydrodynamic Simulation of the Interaction between Interplanetary Strong Shock and Magnetic Cloud and its Consequent Geoeffectiveness 2: Oblique Collision

Numerical studies of the interplanetary "shock overtaking magnetic cloud (MC)" event are continued by a 2.5 dimensional magnetohydrodynamic (MHD) model in heliospheric meridional plane. Interplanetary direct collision (DC)/oblique collision (OC) between an MC and a shock results from their same/different initial propagation orientations. For radially erupted MC and shock in solar corona, the orientations are only determined respectively by their heliographic locations. OC is investigated in contrast with the results in DC \citep{Xiong2006}. The shock front behaves as a smooth arc. The cannibalized part of MC is highly compressed by the shock front along its normal. As the shock propagates gradually into the preceding MC body, the most violent interaction is transferred sideways with an accompanying significant narrowing of the MC's angular width. The opposite deflections of MC body and shock aphelion in OC occur simultaneously through the process of the shock penetrating the MC. After the shock's passage, the MC is restored to its oblate morphology. With the decrease of MC-shock commencement interval, the shock front at 1 AU traverses MC body and is responsible for the same change trend of the latitude of the greatest geoeffectiveness of MC-shock compound. Regardless of shock orientation, shock penetration location regarding the maximum geoeffectiveness is right at MC core on the condition of very strong shock intensity. An appropriate angular difference between the initial eruption of an MC and an overtaking shock leads to the maximum deflection of the MC body. The larger the shock intensity is, the greater is the deflection angle. The interaction of MCs with other disturbances could be a cause of deflected propagation of interplanetary coronal mass ejection (ICME).Comment: 38 pages, 8 figure

Nonstorm time dynamics of electron radiation belts observed by the Van Allen Probes

Abstract Storm time electron radiation belt dynamics have been widely investigated for many years. Here we present a rarely reported nonstorm time event of electron radiation belt evolution observed by the Van Allen Probes during 21-24 February 2013. Within 2 days, a new belt centering around L=5.8 formed and gradually merged with the original outer belt, with the enhancement of relativistic electron fluxes by a factor of up to 50. Strong chorus waves (with power spectral density up to 10-4nT2/Hz) occurred in the region L\u3e5. Taking into account the local acceleration driven by these chorus waves, the two-dimensional STEERB can approximately reproduce the observed energy spectrums at the center of the new belt. These results clearly illustrate the complexity of electron radiation belt behaviors and the importance of chorus-driven local acceleration even during the nonstorm times