Laboratory Website Research Articles

Rancang Bangun Sistem Pendataan Mahasiswa Dan Rekap Nilai, Presensi Praktikum Stimik Sepuluh Nopember Jayapura Berbasis Web

The laboratory is a tool and setting to support the implementation of learning as it relates to the growth of knowledge, abilities, and scientific discoveries. Various tasks performed in the lab, like practicum and administrative tasks in the computer training laboratory, are still done manually using a computer but are not based on information methods. The previous laboratory website is still used for data collecting for practicum participants and recaps of practicum vacations. As a result, they frequently run into problems while trying to recapitulate student data, track attendance for practicum activities, or even teach vacation recap. This is due to an outdated system still having issues. Taking into account the foregoing context, this essay will outline the steps involved in creating a laboratory information system that can

Pengembangan Desain Laboratorium Zakat dan Wakaf pada Jurusan Manajemen Zakat dan Wakaf (Studi Kasus Laboratorium POZAWA / Pondok Zakat dan Wakaf Jurusan Manajemen Zakat dan Wakaf FEBI UIN Prof. K.H. Saifuddin Zuhri Purwokerto

The laboratory is a means and a place to support learning activities related to measurement, testing, developing understanding and skills, as well as innovation in accordance with the disciplines and fields of work that exist in universities. Laboratory of Pondok Zakat and Waqf (Lab. POZAWA) FEBI UIN Prof. K.H. Saifuddin Zuhri Purwokerto plays an important role in strengthening student competencies. So it needs to be developed so that it becomes a quality laboratory with high competitiveness and becomes a reference laboratory in the development of Zakat and Waqf Management at the national level. The method used in this research is the analytical-descriptive method, to describe a factual and actual phenomenon, event or event as it was at the time the research was conducted. The results of this study conveyed that the development of the Pondok Zakat and Waqf Laboratory Design (POZAWA Laboratory) was carried out through 6 (six) efforts, including: 1). Procurement of laboratory equipment for complete facilities in the laboratory room, 2). Procurement of laboratory assistants and technicians, 3). Foster Village Development, 4). Development of extension studios (PODCAST or radio) as information channels, 5). Improving the quantity and quality of laboratory services, 6). Creating a laboratory web site. Apart from that, efforts were also made to map fields of cultivation or business and to make strategic alternative decisions

Accessibility and visibility of genetic testing for haemophilia across Europe: Where do we stand?

Haemophilia is characterized by bleeding complications resulting from clotting factor VIII (FVIII) or IX (FIX) deficiency. Identifying the causal pathogenic genetic variant denotes a vital aspect of haemophilia management. This study evaluated the accessibility and performances of genetic testing for haemophilia across Europe. The types of genetic analyses, techniques used, turn-around time (TAT) and costs were collected and analysed, as were data updating and quality control. Reported data were retrieved from open access resources, including international databases, Google, laboratory websites, PubMed and government organizations. Overall, 51 genetic laboratories across 15 European countries providing recently updated molecular haemophilia testing were identified. Gene sequencing for small variants of both F8 and F9 genes was provided in most surveyed laboratories. Almost two-thirds of them offer analysis for inversions using a polymerase chain reaction (PCR) method and detection of copy number variation (CNV) using multiplex ligation-dependent probe amplification (MLPA). Cost and TAT were found to vary considerably. In total, 74% of laboratories exhibited a last modified date or change history. The same percentage of laboratories was in possession of an ISO 15189 standard accreditation, whereas only few of them recently performed external quality assessment schemes (EQA) for haemophilia. Despite several initiatives to improve access to genetic testing for haemophilia, such access must still be improved. Our study similarly revealed the large heterogeneity of the variants tested, techniques employed, TAT, cost and quality among the surveyed laboratories.

Technical specifications for a baseline survey on the prevalence of methicillin-resistant Staphylococcus aureus (MRSA) in pigs.

The European Commission requested scientific and technical assistance in the preparation of a EU‐wide baseline survey protocol for a European Union (EU) coordinated monitoring programme on the prevalence of methicillin‐resistant Staphylococcus Aureus (MRSA) in pigs. The objective of the survey is to estimate the MRSA prevalence in batches of fattening pigs at slaughter at both European and national levels, with a 95% level of confidence and a level of precision of 10% considering an expected prevalence of 50%. The survey protocol defines the target population, the sample size for the survey, sample collection requirements, the analytical methods (for isolation, identification, phenotypic susceptibility testing and further genotypic testing of MRSA isolates), the data reporting requirements and the plan of analysis. The samples are to be analysed according to the laboratory protocols available on the European Union Reference Laboratory (EURL‐AR) website. Generalised linear models will be used to estimate proportion (with 95% confidence intervals) of batches of slaughter pigs tested positive to MRSA. The necessary data to be reported by the EU Member States to support this baseline survey are presented in three data models. The results of the survey should be reported using the EFSA data collection framework.

Determination of the Empirical Electrokinetic Equilibrium Condition of Microorganisms in Microfluidic Devices.

The increased concern regarding emerging pathogens and antibiotic resistance has drawn interest in the development of rapid and robust microfluidic techniques to analyze microorganisms. The novel parameter known as the electrokinetic equilibrium condition () was presented in recent studies, providing an approach to analyze microparticles in microchannels employing unique electrokinetic (EK) signatures. While the shows great promise, current estimation approaches can be time-consuming or heavily user-dependent for accurate values. The present contribution aims to analyze existing approaches for estimating this parameter and modify the process into an accurate yet simple technique for estimating the EK behavior of microorganisms in insulator-based microfluidic devices. The technique presented here yields the parameter called the empirical electrokinetic equilibrium condition () which works well as a value for initial approximations of trapping conditions in insulator-based EK (iEK) microfluidic systems. A total of six types of microorganisms were analyzed in this study (three bacteria and three bacteriophages). The proposed approach estimated values employing images of trapped microorganisms, yielding high reproducibility (SD 5.0–8.8%). Furthermore, stable trapping voltages (sTVs) were estimated from values for distinct channel designs to test that this parameter is system-independent and good agreement was obtained when comparing estimated sTVs vs. experimental values (SD 0.3–19.6%). The encouraging results from this work were used to generate an EK library of data, available on our laboratory website. The data in this library can be used to design tailored iEK microfluidic devices for the analysis of microorganisms.

Four Text‐Mining Methods for Measuring Elaboration

AbstractWhen individuals engage in divergent thinking, they vary on their Elaboration, or the degree to which they explain and embellish their responses. Although Elaboration has been considered relevant to creativity research for decades, its measurement has remained under‐developed. Here, we leverage technical and methodological perspectives from the text‐mining literature to posit four methods for quantifying elaboration: Unweighted Word Count, Stoplisted Inclusion, Part of Speech Inclusion, and Inverse Frequency Weighting. Although the Unweighted Word Count method is becoming typical in the field, more complex weighting methods appear to better fit the conceptualization of Elaboration. We explain the benefits of each of the included methods and demonstrate their application to responses from the Alternate Uses Task: showing that all four of these text‐mining methods produced Elaboration scores with high levels of reliability, but the Stoplisted Inclusion method appeared to maximize the score validity both in terms of criteria correlations and power to discriminate among creative experts and non‐experts. We offer an open‐access module for creativity researchers to apply these methods to their own data via our laboratory website [https://openscoring.du.edu/].

Novel scheme of k-SVM analysis using PCA and NN for detection of MRI brain images

The MRI brain image detection and classification is very crucial for medical science. From last few years, various methods are being presented. Here in this paper, we proposed a novel approach to classify a given MRI brain image as normal or abnormal i.e. affected through tumor. The performed method firstly taken the wavelet transform for feature extraction from the images then applied principle component analysis to decrease the dimensions of features. Then the decreased features are being employed to kernel –support vector machine (k-SVM). Here the data has been taken for seven general brain diseases viz. glioma, Alzheimer’s disease, Sarcoma, coma, LINN, IPOL, HPOL. We collected the data of 20 normal and 140 abnormal patients from Harvard Medical Laboratory website. Here four methods of SVM are performed such as L-Kernel, RBF, Poly, and NN. The comparative analysis is also being performed by the existing literatures which illustrates the result by DWT+PCA+KSVM by applying with GRB Kernel. Our classification gives fast and accurate results and assist doctors to distinguish between normal or abnormal to certain precision values.

Dose-Response Metabolomics To Understand Biochemical Mechanisms and Off-Target Drug Effects with the TOXcms Software.

Small-molecule drugs and toxicants commonly interact with more than a single protein target, each of which may have unique effects on cellular phenotype. Although untargeted metabolomics is often applied to understand the mode of action of these chemicals, simple pairwise comparisons of treated and untreated samples are insufficient to resolve the effects of disrupting two or more independent protein targets. Here, we introduce a workflow for dose-response metabolomics to evaluate chemicals that potentially affect multiple proteins with different potencies. Our approach relies on treating samples with various concentrations of compound prior to analysis with mass spectrometry-based metabolomics. Data are then processed with software we developed called TOXcms, which statistically evaluates dose-response trends for each metabolomic signal according to user-defined tolerances and subsequently groups those that follow the same pattern. Although TOXcms was built upon the XCMS framework, it is compatible with any metabolomic data-processing software. Additionally, to enable correlation of dose responses beyond those that can be measured by metabolomics, TOXcms also accepts data from respirometry, cell death assays, other omic platforms, etc. In this work, we primarily focus on applying dose-response metabolomics to find off-target effects of drugs. Using metformin and etomoxir as examples, we demonstrate that each group of dose-response patterns identified by TOXcms signifies a metabolic response to a different protein target with a unique drug binding affinity. TOXcms is freely available on our laboratory website at http://pattilab.wustl.edu/software/toxcms .

William Jagust: Arrow Through The Rings

William Jagust: Arrow Through The Rings

Evaluation of the Performance of Online GPS/GNSS Data Processing Services for Monitoring the Land Deformations and Movements

In recent years, the Global Navigation Satellite Services (GNSS) technology has been frequently employed for monitoring the Earth crust deformation and movement. Such applications necessitate high positional accuracy that can be achieved through processing GPS/GNSS data with scientific software such as BERENSE, GAMIT, and GIPSY-OSIS. Nevertheless, these scientific softwares are sophisticated and have not been published as free open source software. Therefore, this study has been conducted to evaluate an alternative solution, GNSS online processing services, which may obtain this privilege freely. In this study, eight years of GNSS raw data for TEHN station, which located in Iran, have been downloaded from UNAVCO website on a daily basis. Furthermore, TEHN GNSS observations are processed with CSRS-PPP, which is based on Precise Point Positioning (PPP) algorithm, and OPUS, which is based on double difference (DD) algorithm, to compare between these two techniques in terms of station velocity estimation and Earth deformation. On the other hand, TEHN station solutions that produce via scientific software, GIPSY-OSIS, are obtained from Nevada Geodetic Laboratory (NGL) website for data validation. Eventually, the results show that both GNSS online processing services (CSRS-PPP and OPUS) are credibly efficient to estimate station velocities, while CSRS-PPP trustworthy service for monitoring the Earth deformation. 

Field of coherence of GPS-measured earth tremors

A new method for investigating the coherence field of the noise component of high-frequency GPS time series is proposed. The method is applied to the main territory of the USA, which is characterized by a dense network of GPS stations. The data are presented in steps of 5 min from February 28, 2013, until June 29, 2019, on the Nevada Geodetic Laboratory Web site. The proposed method estimates the spatial distribution of the mean values of multiple coherence, calculated within nodes of a regular grid, between GPS coordinates of a given number of nearest operable stations and the periods at which the maximum values of coherence are reached. The two-dimensional probability density of the positions of places where the coherence maximum is most often realized is estimated. These estimates can be obtained for the entire history of observations and also in a sliding time window of a given length, which makes it possible to trace the dynamics of changes in time in the coherence field of the earth’s tremor. The entropy of the two-dimensional probability density of places of concentration of maximum values of coherence allows us to distinguish seasonal changes in the structure of the coherence field of GPS noise. To study the temporal dynamics, we use the auxiliary time series of changes in the maximum multiple coherence at 50 reference points located throughout the study area. The study of the coherence properties of this auxiliary 50-dimensional time series (“secondary coherence”) in a 180-day sliding time window highlighted a series of synchronization bursts of earth’s surface tremors.

SWAT‐LUT: A Desktop Graphical User Interface for Updating Land Use in SWAT

AbstractLong‐term simulations of agricultural watersheds have often been done assuming constant land use over time, but this is not a realistic assumption for many agricultural regions. This paper presents the soil and water assessment tool (SWAT)‐Landuse Update Tool (LUT), a standalone, user‐friendly desktop‐based tool for updating land use in the SWAT model that allows users to process multi‐year land use data. SWAT‐LUT is compatible with several SWAT model interfaces, provides users with several options to easily prepare and incorporate land use changes (LUCs) over a simulation period, and allows users to incorporate past or emerging land use categories. Incorporation of LUCs is expected to provide realistic model parameterization and scenario simulations. SWAT‐LUT is a public domain interface written in Python programming language. Two applications at the Fort Cobb Reservoir Experimental Watershed located in Oklahoma and pertinent results are provided to demonstrate its use. Incorporating LUCs related to implementation of recommended conservation practices over the years reduced discharge, evapotranspiration, sediment, total nitrogen, and total phosphorus loads by 59%, 9%, 68%, 53%, and 88%, respectively. The user’s manual is included in this article as Supporting Information. The SWAT‐LUT executable file and an example SWAT project with three land use rasters and the user’s manual are available at the United States Department of Agriculture‐Agricultural Research Service Grazinglands Research Laboratory website under Software. Editor’s note: This paper is part of the featured series on Optimizing Ogallala Aquifer Water Use to Sustain Food Systems. See the February 2019 issue for the introduction and background to the series.

Abstract 4625: Mouse strains for cancer research at The Jackson Laboratory Repository

Abstract Genetically defined mice have been the cornerstone of cancer research and resources at The Jackson Laboratory since the founding of the laboratory nearly nine decades ago. The Jackson Laboratory distributes more than 10,500 strains to the scientific community, many with applications in cancer research, including mouse models for specific cancers, xenograft models, immunodeficient platforms for PDX studies, multi-purpose “tool strains” (such as CRISPR cas9-expressing lines), recombinase expressing strains, as well as conditional and inducible expression lines (such as Cre-lox). New to the JAX Repository collection is a KrasLSL-A146T strain with inducible mutant Kras A146T for use in research of gastrointestinal tract and hematological cancers. The tamoxifen-inducible model for pancreatic ductal adenocarcinoma (PDAC), KPCX, and the related conditional activatable Kras allele/floxed Trp53 double mutant line, KP, have recently been developed. Inducible expression of mutant human speckle-type POZ protein (SPOP) in one newly acquired line allows study of prostate tumorigenesis. The portfolio of strains useful for engraftment studies has expanded, complementing the versatile humanized NOD scid gamma (NSG) platform lines. For custom generation of mutant strains, the Repository distributes a variety of research tool strains such as cas9-expressing lines, both constitutive expressing and Cre-inducible models, on different defined genetic backgrounds. Other recently added mutants allow research of the role of inflammation in cancer and screening immunomodulatory cancer therapies. In addition to safeguarding each strain by cryopreservation, the Repository‘s comprehensive quality control program confirms mutation identity and genetic background, and screens for unwanted alleles (such as stray GFP, cre, lacZ, etc.). Investigators can search for specific strains on the JAX Mice website, or peruse the Oncology Therapeutic Area webpage for cancer research related strains and resources. Researchers can submit their strains to be considered for inclusion in the Repository on The Jackson Laboratory website: www.jax.org/donate-a-mouse The Jackson Laboratory Repository is supported by the NIH, The Howard Hughes Medical Institute, and other private charitable foundations. Citation Format: Deborah Boswell, Stephen Rockwood, Cathleen Lutz, The JAX Repository Team. Mouse strains for cancer research at The Jackson Laboratory Repository [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2019; 2019 Mar 29-Apr 3; Atlanta, GA. Philadelphia (PA): AACR; Cancer Res 2019;79(13 Suppl):Abstract nr 4625.

Usability Testing of Laboratory Website using a Participatory Design Approach

Website is one of supporting facilities that used by universities as communication and marketing media. The Industrial Modelling and Simulation Laboratory website is one of the academic websites at the Islamic University of Indonesia. There are still problems found on the website such as not uniform display content, less attractive appearance, complex navigation and too many link layouts. It was indicated that the website has not been easy and effective to be used so that an evaluation and usability testing needs to be carried out to improve the function of the website. The research method used was participatory design, performance measurement and usability scale (SUS) system questionnaire. The purpose of this study was to determine the results of evaluation based on participatory design and the level of usability on the proposed website. The evaluation process identifies problems and suggestions for improvement through 2 iteration stages to produce a proposal design. In the process of usability testing the proposed website shows that the proposal for a new laboratory website has an effectiveness level of 78%, an efficiency level of 76% and a satisfaction level of 74% with excellent categories.

Meteorological Observations in the Japanese Alps Region

Mountainous areas are quite sensitive to global-scale environmental changes, such as warming. Therefore, the effect of global warming on these meteorological elements is a critical issue. However, Mt. Fuji Weather Station, which was once a symbol of meteorological observation in mountainous areas, has remained unmanned since August 2004. Of the other observation sites of the Japan Meteorological Agency, Nobeyama, at 1350 m.a.s.l. elevation, is the highest. When evaluating the effects of a global-scale warming event on regional-scale environmental change in the Japanese Alps at a high elevation of 1350 m.a.s.l., it must be noted that the lack of meteorological observation data at high elevations impedes any evaluations of the effects of warming on the ecological system and water resources in mountainous ranges. A network of 14 meteorological observatories has been developed by Shinshu University in the Japanese Alps, which have already started recording observations. The highest observation site is Mt. Yari, at 3125 m.a.s.l.. Observation data from these sites are sent to a computer at the laboratory via a data communication mobile telephone network or a phone line throughout the year. These meteorological observation data are available on the laboratory website in quasi-real time. The interannual variability of annual mean temperature and snow depth in the Japanese Alps region are discussed.

Research Group Introduction: Power Electronics Laboratory, Dept. of Electrical and Electronic Systems Engineering, Ibaraki University

Our research interests include cell equalizers for energy storage systems, differential power processing converters for photovoltaic panels, multiport converters, etc. Students are actively involved in their respective research projects to improve and strengthen their skills everyday. For more details, please visit our laboratory website (http://pel.ee.ibaraki.ac.jp/index.html).

Numerical simulation analysis on the thermal performance of a building walls incorporating Phase Change Material (PCM) for thermal management

Phase Change Material (PCM) plays an essential role in a thermal energy storage device, mainly, by utilizing its relatively high storage density, and latent heat property. PCM is potentially applicable as buildings material as it is possible to incorporate in the building envelope for energy conservation. Energy Plus is the chosen software to simulate phase change material in the building envelope. This paper will discuss in detail the numerical analysis of building thermal characteristics using PCM materials on the walls for climatic conditions of Banda Aceh City. The PCM used is beeswax. The weather data used in the simulation was customized for the year 2015 from the National Renewable Energy Laboratory (NREL) website. Some separate parametric studies, i.e., a variation of PCM thermal conductivity, and temperature range, and results are presented. It was discovered that a PCM with a melting point from 21 to 23 °C led to maximum energy savings and greater peak load time shift, and is more suitable than other PCM temperature ranges for lightweight building construction.

Determination of ligand efficiency indices in a group of 7H-purine-2,6-dione derivatives with psychotropic activity using micellar electrokinetic chromatography.

Discovering hit compounds and optimization processes in medicinal chemistry nowadays could be improved by predictive tools, based on the relationship between structure of molecules and lipophilic properties. Lipophilicity of drug candidate can affect both the pharmacokinetic and pharmacodynamics properties, in particular, the ability of a molecule to cross the cell membrane. Among the new methods for determination of the lipophilicity of compounds, micellar electrokinetic chromatography (MEKC) is considered to be an appropriate one for bioactive molecules, as it closely mimics the physiological conditions. In this paper MEKC was used for the estimation of the lipophilicity of 24 derivatives of 8-alkoxy-7H-purine-2,6-dione, designed and synthesized as potential antidepressant/anxiolytic and antipsychotic agents. The results of experimental method were compared with calculated in silico parameters (AlogPs and milogP by Virtual Computational Laboratory website, log PPallas by Pallas 3.1, Mlog P by Marvin, log PChemS by ChemSketch, log PChemDraw by ChemBioUltra) using Principal Component Analysis (PCA) method. Finally, using estimated log P values for selected compounds ligand - lipophilicity efficiency (LLE), per cent efficiency index (PEI), and binding efficiency index (BEI) parameters were calculated. Applied MEKC procedure could be used for selection of potential lead structure in a group of 7H-purine-2,6-dione derivatives.

Solar and Wind Power Forecasting with Optimal ARIMA Parameters

The solar and wind renewable energy sources are gaining popularity to encourage green energy into the power system. The cost of generation of solar and wind energy sources are decreasing and competing with conventional coal-based generation. Therefore, it is very important to integrate these renewable sources into the power system. Integrating Solar and wind energy sources require to solve the uncertainty problem. Both the solar and wind energy generation is uncertain and not controllable. In this paper, sliding window optimal ARIMA forecasting algorithm is proposed to solve the uncertainty associated with solar and wind sources. The proposed forecasting method is used on the data collected from National Renewable Energy Laboratory website.

Identification of differentiated functional modules in papillary thyroid carcinoma by analyzing differential networks.

The incidence of papillary thyroid carcinoma (PTC) has dramatically increased over the past two decades. This study aimed to investigate the disparity of gene expression between PTC and normal tissues. Gene chip data of E-GEOD-33630 and E-GEOD-60542 were acquired and downloaded from European Bioinformatics Institute Part of the European Molecular Biology Laboratory website. E-GEOD-33630 data contained 94 test samples (49 PTC and 45 normal tissues), and E-GEOD-60542 data contained 63 test samples (33 PTC and thirty normal tissues). The two sets of data were analyzed by screening differential co-expression network (DCN) and identifying M-differential module. Three differential modules were gained after statistical comparison between the PTC and normal tissues (P < 0.05). Short coiled-coil protein (SCOC) gene was as the seed gene of module 1, which contained 7 nodes and 9 edges. Moreover, SYPL1 was the seed gene of module 2 with 10 nodes and 16 edges. THAP1 was the seed gene of module 3 that contained 9 nodes and 12 edges. Analysis and statistical comparison of the gene chip can effectively screen out differential expression genes between the PTC and normal tissues. Based on a large number of samples and gene chip detection, three seed genes of SCOC, SYPL1, and THAP1 are determined. These data provide novel insights into the pathogenesis of PTC. Significant changes in the expression levels between PTC and normal tissues suggest that SCOC, SYPL1, or THAP1 may play a vital role in the incidence and development of PTC, which serve as potential biomarkers for the diagnosis of PTC.