Miracle-dz/UniFAR-FTUs huggingface dataset:
The intestinal epithelial cell differentiation marker intestinal alkaline phosphatase (ALPi) is selectively induced by histone deacetylase inhibitors (HDACi) in colon cancer cells in a Kruppel-like factor 5 (KLF5)-dependent manner.

Joongho Shin, Azadeh Carr, Georgia A. Corner, Lars Tögel, Mercedes DávalosSalas, Hoanh Tran, Anderly C. Chueh, Sheren Al-Obaidi, Fiona Chionh, Naseem Ahmed, Daniel D. Buchanan, Joanne P. Young, Madhu S. Malo, Richard A. Hodin, Diego Arango, Oliver M. Sieber, Leonard H. Augenlicht, Amardeep S. Dhillon, Thomas K. Weber, and John M. Mariadason Dr. Dávalos-Salas’s name was misspelled. The correct spelling is Mercedes Dávalos-Salas, as shown in the author line. THE JOURNAL OF BIOLOGICAL CHEMISTRY VOL. 290, NO. 25, p. 15392, June 19, 2015 © 2015 by The American Society for Biochemistry and Molecular Biology, Inc. Published in the U.S.A.
PCR-Based Seamless Genome Editing with High Efficiency and Fidelity in Escherichia coli

Efficiency and fidelity are the key obstacles for genome editing toolboxes. In the present study, a PCR-based tandem repeat assisted genome editing (TRAGE) method with high efficiency and fidelity was developed. The design of TRAGE is based on the mechanism of repair of spontaneous double-strand breakage (DSB) via replication fork reactivation. First, cat-sacB cassette flanked by tandem repeat sequence was integrated into target site in chromosome assisted by Red enzymes. Then, for the excision of the cat-sacB cassette, only subculturing is needed. The developed method was successfully applied for seamlessly deleting, substituting and inserting targeted genes using PCR products. The effects of different manipulations including sucrose addition time, subculture times in LB with sucrose and stages of inoculation on the efficiency were investigated. With our recommended procedure, seamless excision of cat-sacB cassette can be realized in 48 h efficiently. We believe that the developed method has great potential for seamless genome editing in E. coli.
AAS 01-324 LYAPUNOV AND HALO ORBITS ABOUT L 2

We develop and illustrate techniques to obtain periodic orbits around the second Lagrangian point L2 in the Sun-Earth system based on the Restricted Three-Body Problem. In the case of Lyapunov (planar) orbits, the solutions to the linearized equations of motion allow the generation of the entire family of orbits. For Halo orbits, however, the method of strained coordinates is applied to generate higher-order approximate analytic solutions. Subsequent application of Newton’s method improves the initial conditions to obtain periodic solutions to the equations of motions. A graphical user interface has been developed to implement these numerical tools in a user-friendly computational environment.
A novel household fi ll material fabricated from waste peanut shells and thermoplastic polyurethane with fl ame retardant and antibacterial functions

Large amounts of peanut shells were abandoned each year in China and the abandoned peanut shells were subjected to incineration or landfi ll, which not only polluted environment, but also wasted resources. So, a household fi ll material with fl ame retardant and antibacterial functions was fabricated with abandoned peanut shell and discarded thermoplastic polyurethane by plasticizing, blending and hot pressing. The main factors that affect the fl ame retardant performance and the regression model of limiting oxygen index were obtained by response surface analysis. The regression model helped to predict materials fl ame retardant ability and achieve the optimal preparation condition, which as follows: the peanut shell mass fraction 49.5 %, ammonium polyphosphate mass fraction 4.4 %, Thermoplastic polyurethanes (TPU) fl ame retardants mass fraction 14.2 %, under these conditions, the limiting oxygen index of materials was 32.78 %. While after added 3 wt% Tetraneedle like ZnO whiskers at the same condition, the limiting oxygen index was 32.7 %, and the antimicrobial ratio of Staphylococcus aureus, Escherichia coli and Salmonella reached 96.03, 96.98 and 92.33 % respectively.
Critical evaluation of 1H NMR metabonomics of serum as a methodology for disease risk assessment and diagnostics

Abstract This review focuses on (i) the current status of 1H NMR spectroscopy to quantify lipoprotein subclasses directly from serum or plasma, and (ii) the applications of 1H NMR metabonomics of serum in biomedicine. Related to both themes, experimental and data analysis methodologies are discussed together with the biochemical rationales. Particular emphasis is placed on the concepts of risk assessment and diagnostics in relation to the potential clinical role of 1H NMR metabonomics; recent applications in the area of coronary heart disease and diabetes are addressed in more detail. Clin Chem Lab Med 2008;46:27–42.
A microarray platform for high-throughput single- cell capture and culture

This paper presents a microarray platform that allows high-throughput single cell capture in large microwells to support single-cell culture. This work will facilitate the study of cell heterogeneity as well as high efficient stimulation parameters (chemical and physical) screening. An U-shaped single-cell trap, in combination of two streamline focusing arms, is placed at the bottom of each microwell as a single-cell capture unit. The platform has 512 capture units. The whole device is fabricated by standard soft-lithography technology. The ability of this structure for high-efficient single-cell capture has been demonstrated through manipulating polystyrene (PS) microbeads and MC 3T3 cells. Cell colonies are formed after culture of these captured single MC 3T3 cells for six days, indicating that the proposed microarray chip can also be used as a convenient platform for single-cell culture.
Current sector control for a three-phase three-level PFC rectifier

In this paper, a control algorithm of a three-phase three-level power factor correction (PFC) rectifier, using a mathematical analysis of two-level space vector modulation (SVM), is presented. The proposed control scheme was developed, in order to generate the duty cycle signals for each switching device based on the discontinuous space vector modulation (DSVM) method. For this proposal it is not essential to determine the direction of line currents and sector of vectors, only to recognize the angle of the input reference voltage. Furthermore, the number of commutations of switches and switching losses are reduced due to the DSVM method. Simulation and calculation results can confirm the feasibility of the control algorithm and performance of the proposed rectifier.
Chinese Micro-blog Sentiment Analysis Based on SVM and Complex Phrasing

Text sentiment analysis technology is a hot topic recently. As a short text, there is a feature of using complex sentences to express the author's true views and complex emotional tendencies in micro-blogs. In current researches on sentiment classification based on machine learning, few of them focus on complex sentences. This paper proposed a sentiment analysis method based on SVM and complex phrasing classifier, and made a full analysis of structural features of Chinese conditional sentences, transition sentences and multiple negative sentences, which were taken as text features. A variety of different combinations of features were chosen, including emotional words, speech, negative words, the degree of adverbs and punctuation, etc., to optimize the results of sentiment analysis through multiple sets of experiments. The experiments show that when we choose the combinations of features of emotional words, part of speech and complex sentence patterns, this method improved the accuracy of sentiment classification compared to the common method.
Gene expression emPAI Calc — for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry

Summary: emPAI Calc is an open-source web application for the estimation of protein abundance. It uses the correlation between the number of identified peptides and protein abundance in mass spectrometry-based proteomic experiments. The program is the first implementation of our previously reported emPAI algorithm; it calculates the emPAI from the protein identification results obtained by database search engines such as Mascot.TM Availability: http://empai.iab. keio.ac. jp/; http://empai.iab. keio.ac. jp/ supplement.php Source codes are available under Mozilla Public
Semantic Authorization of Mobile Web Services Semantic Authorization of Mobile Web Services

With the recent developments in the cellular world, the high-end mobile phones and PDAs are becoming pervasive and are being used in different application domains. Integration of the web services and cellular domains lead to the new application domain, mobile web services. Mobile web service provisioning offers many of its applications in domains like e-commerce, collaborative applications, social systems, mobile community support etc. This paper introduces the concept of mobile web services, inspects possible technical usage scenarios, and elaborates on commercial applications and usage scenarios based on previously conducted case studies. We have designed prototypes and conducted experiments towards quantitative feasibility study for this emerging research area of mobile web services, especially focusing on the secure communication and access control. In order to provide proper qualitative justification of security measures, we evaluated security threats in mobile environments, reviewed conventional security requirements for web services, analyzed securitysensitive characteristics of mobile web services, and finally defined critical success factors for controlling access to mobile web services. We proposed to utilize distributed architectures of semantics-based authorization mechanism as an adequate access control solution for mobile web service provisioning.
Hand, Foot, and Mouth Disease in China: Patterns of Spread and Transmissibility

Background: There were large outbreaks of hand, foot, and mouth disease in both 2008 and 2009 in China. Methods: Using the national surveillance data since 2 May 2008, we summarized the epidemiologic characteristics of the recent outbreaks. Using a susceptible-infectious-recovered transmission model, we evaluated the transmissibility of the disease and potential risk factors. Results: Children ages 1.0 to 2.9 years were the most susceptible to hand, foot, and mouth disease (odds ratios [OR] >2.3 as compared with other age-groups). Infant cases had the highest incidences of severe disease (ORs >1.4) and death (ORs >2.4), as well as the longest delay from symptom onset to diagnosis (2.3 days). Boys were more susceptible than girls (OR = 1.56 [95% confidence interval = 1.56–1.57]). A 1-day delay in diagnosis was associated with increases in the odds of severe disease by 40% (39%–42%) and in the odds of death by 54% (44%–65%). Compared with Coxsackie A16, enterovirus 71 is more strongly associated with severe disease (OR = 16 [13–18]) and death (OR = 40 [13–127]). The estimated local effective reproductive numbers among prefectures ranged from 1.4 to 1.6 (median = 1.4) in spring and stayed below 1.2 in other seasons. A higher risk of transmission was associated with temperatures in the range of 70° F to 80°F, higher relative humidity, lower wind speed, more precipitation, greater population density, and 16 [13–18] periods during which schools were open. Conclusion: Hand, foot, and mouth disease is a moderately transmittable infectious disease, mainly among preschool children. Enterovirus 71 was responsible for most severe cases and fatalities. Mixing of asymptomatically infected children in schools might have contributed to spread the of infection. Timely diagnosis may be 40 [31–127] key to reducing the high mortality rate in infants.
Acculturative stress among young immigrants in Norway.

The study examined the relationship between migration and the incidence of emotional disorders among 568 young Third World immigrants in Norway. Participants were 10-17 years of age. Using a questionnaire, acculturative stress (i.e., change in health status as a result of acculturation) was found to exist among the children, although having to migrate or being born in Norway was not related to mental health status. A stressful acculturative experience (i.e., difficulties in initiating friendship with Norwegian peers) alone could account for only 1% of the self reported emotional disorders. Incidence of depressive tendencies, poor self image, and psychological and somatic symptoms were found to be related to close and supportive parents, marginality, integration, gender and the number of friends the child had. These accounted for between 12 and 15% of the explained variance. The paper theoretically discusses how these factors may be related to acculturative stress, and recommends them as starting points for a primary intervention program to reduce emotional disorders among these children.
Comments on 'New criteria for blind deconvolution of nonminimum phase systems (channels)'

It is pointed out that certain criteria proposed in the paper by Shalvi and Weinstein (see ibid., vol.36, no.2, p.312-21, 1990) have been proposed before in the context of real-valued signals. Furthermore, it is noted that the assertion made in the paper that all local maxima of the proposed criteria correspond to the desired equalizer solution, holds true, strictly speaking, only for infinite length equalizers. There exist counterexamples which show existence of false local maxima when finite-length equalizers are used. Finally, it is also noted that in the presence of additive Gaussian noise of unknown power spectral density at the input to the equalizer (equivalently, at the channel output), it is not clear if the methods proposed in the paper will yield the desired response up to a constant gain. >
Autoeficacia y adherencia al tratamiento: el efecto mediador del apoyo social

Treatment adherence is a key health behavior in chronic patients. This study investigates the mediating role of perceived social support in the relationship between perceived self-efficacy and adherence to treatment. The sample is composed of 202 chronic patients living in Spain. Stratified random sampling was used to select participants based on the variables age group and type of disease. As predicted, patient self-efficacy is associated with lower levels of nonadherence as well as greater perceived social support. The results show that self-efficacy has a significant direct effect and an indirect effect (through social support and satisfaction with support) on patient adherence, specifically regarding diet and exercise. This study contributes to understand the processes underlying increased levels of nonadherence to treatment in people with lower self-efficacy and less social support. The results are discussed in terms of their contribution to future intervention programs for improving adherence to treatment in chronic patient groups.
Changes over time in risk of initial virological failure of combination antiretroviral therapy: a multicohort analysis, 1996 to 2002.

BACKGROUND Triple-combination antiretroviral therapy (CART) for human immunodeficiency virus infection has been in use for almost a decade, but the extent to which treatment success has changed is uncertain. We examined risk of initial virological failure of CART according to the year of starting therapy. METHODS We included subjects from 5 complete clinic cohorts in Europe and Canada who started CART without previous antiretroviral therapy from 1996 to 2002 with 1 or more pre-CART viral load (VL) measurement and CD4 count. Based on the first VL measurement from 6 to 12 months after CART initiation, virological failure was defined as a VL of more than 500 copies/mL. We used the following 3 inclusion strategies: (1) including all subjects, with missing VL measurement counted as virological failure (n = 3825; strategy A); (2) including all subjects with VL measurement (n = 3120; strategy B); and (3) including all subjects receiving antiretroviral therapy at VL measurement (n = 2890; strategy C). RESULTS From 1996 to 2002, risk of virological failure fell from 38.9% to 24.8% for strategy A, 28.4% to 12.0% for strategy B, and 22.8% to 8.2% for strategy C. Estimated relative reductions in risk (95% confidence interval) over the 7-year period, adjusted for cohort, demographic factors, pre-CART VL and CD4 count, and previous AIDS, were 48% (39%-56%), 64% (53%-73%), and 79% (69%-85%) for strategies A, B, and C, respectively. Reductions in risk were greatest from 1996 to 1999, with weaker trends subsequently. Trends remained but were attenuated after further adjustment for the starting regimen. CONCLUSIONS Over a 7-year period of CART use in clinical practice, risk of initial virological failure of treatment has halved at least. These data suggest the trend is due to improvements in CART regimens and greater effectiveness of their use.
Oral bacteria in multi‐species biofilms can be killed by red light in the presence of toluidine blue

Oral bacteria can be killed by light in the presence of a suitable photosensitizer, and this could be used in the treatment of oral infections. In these diseases, however, bacteria are present as biofilms, which are refractive to antimicrobial agents. The purpose of this study was to determine whether oral bacterial biofilms were susceptible to lethal photosensitization.
The value of the unpopular: Counteracting the popularity echo-chamber on the Web

Theoretical proofs and empirical evidence show that diverse perspectives benefit groups, society and individuals. Current Web applications, by artificially emphasizing popularity, discourage this diversity. This paper examines the effect of the popularity “echo-chamber” on diversity, minority views and innovation. Applications and practices to counter this cascading trend and promote divergent thinking and minority perspectives are explored in a new project “unpopular.ca”.
A monthly circulation climatology for Sweden and its application to a winter temperature case study.

Atmospheric circulation is important in determining the surface climate and environment. To quantify its effect, circulation indices or classifications of circulation type are often used. In this study, the classification system developed by Lamb (1950. Quarterly Journal of the Royal Meteorological Society76: 393–438) is applied to obtain circulation information for Sweden on a monthly basis. For that purpose, monthly mean sea-level pressure (MSLP) data from 1873 to 1995 is used to derive six circulation indices and to provide a circulation catalogue with 27 circulation types. The frequency of circulation types over different periods is computed and described. Four major types (cyclonic, C; west, W; southwest, SW; anticyclonic, A) have been identified. The catalogue and the associated indices provide a tool for interpreting the regional climate and for developing statistical downscaling models to derive regional climate change scenarios for Sweden. An example is given to illustrate the application and usefulness of this climatology. It deals with the linkage between the mean regional temperature in southwestern Sweden and the large-scale circulation. It is shown that directional flows with a westerly component clearly favour a positive temperature anomaly, while the anticyclonic condition often induces a negative anomaly. Moreover, it is the westerly or southwesterly flows that accompany extreme positive temperature anomalies, whereas anticyclonic conditions play an important role in creating extreme negative temperature anomalies. Further, the derived indices have a relationship with temperature anomalies, established via a statistical model. Stepwise multiple regression was used, leading to a successful model with only three indices. Using the model, 70% of the total variance in the temperature anomalies between 1887 and 1994 has been reconstructed from the pressure, which leads to the conclusion that the circulation is a critical determinant of the January temperature and that the derived climatology is useful in explaining the temperature anomalies. Copyright © 2000 Royal Meteorological Society
The STAPS Method - Process-taylored Introduction of Knowledge Management Solutions

Nowadays, knowledge is recognized as an important enterprise resource. Thus, knowledge management is perceived as a necessary management task. Process oriented knowledge management is an approach that aligns knowledge management with the requirements of knowledge intensive processes. However, existing approaches to the implementation of process oriented knowledge management either operate on a very high abstraction level, incorporating much effort for operationalization in practice or on a very detailed level concentrating on process modelling. This paper introduces the STAPS method for the process oriented analysis and implementation of knowledge management solutions. It allows the assessment of already existing knowledge management solutions, the adoption of new solutions based on best practises, and a tailoring to organizational needs. In a case study, the applicability of STAPS is proved.
Integration of Reservoir Management and Flow Routing Model Upper Narew Case Study

This paper analyses the possibilities of reaching required flow conditions in the reaches of an ecologically valuable river, using reservoir management techniques. The study utilizes a one-dimensional flow routing model and a global optimisation procedure, with a special focus on ecological criteria. The methodology is applied to the valley of the Upper Narew, in north-east Poland. The work is focused on improving water conditions in the Narew National Park, which encloses one of the most valuable swamp ecosystems in Europe. The study area includes a 100 km long reach that begins at the outflow of the Siemianowka Water Reservoir and ends at the National Park. The reach of the River Narew studied has a rather complex anastomosic structure. An analysis is carried out on several historical scenarios. In each case the outflow from the reservoir is optimised to provide ecologically required flow conditions. The results point to the need for a reconsideration of the management of the Siemianowka reservoir.
Caries risk in formerly sealed teeth.

BACKGROUND The authors examined the risk of caries development in teeth with partially or fully lost sealant (formerly sealed [FS] teeth) relative to the risk in teeth that never have received sealants (never-sealed [NS] teeth). METHODS The authors searched the population of studies used in five reviews of sealant effectiveness as established in split-mouth design studies involving resin-based sealants with no reapplication of lost sealant. They required included studies to contain sufficient data to estimate the risk of caries in FS teeth relative to that in NS teeth (relative risk [RR] = % FS development caries% NS development caries) and its 95 percent confidence interval (CI). To estimate the mean RR by year since sealant placement, they used a weighted bivariate model and tested for heterogeneity using the quantity I(2). RESULTS The weighted mean RR was 0.998 (95 percent CI, 0.817-1.220) one year after placement (four studies, 345 tooth pairs) and 0.936 (95 percent CI, 0.896-0.978) at four years (five studies, 1,423 tooth pairs). CONCLUSIONS Teeth with fully or partially lost sealant were not at a higher risk of developing caries than were teeth that had never been sealed. CLINICAL IMPLICATIONS Inability to provide a retention-check examination to all children participating in school sealant programs because of loss to follow-up should not disqualify a child from receiving sealants.