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Mysql

Manufactured by Oracle
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MySQL is a relational database management system (RDBMS) that provides robust data storage and management capabilities. It enables users to create, modify, and query structured data efficiently. MySQL serves as a core component in a wide range of applications and software solutions, offering a reliable and scalable platform for data-driven initiatives.

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27 protocols using mysql

1

Tyche: Secure Web-Based DICOM Viewer

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Tyche was set up as a browser-based program running on a Linux server. It employs Joomla!® (Open Source Matters, Inc., Joomla community, New York, NY, USA) for user management and several publicly licensed JavaScript libraries: dropzone (Matias Meno, MIT License) is used to upload images, and cornerstone (Chris Hafey, MIT License) and cornerstone Tools (Chris Hafey, MIT License) are used to display, analyze, and annotate DICOM images. Its programming languages are PHP (the PHP development team, Zend Technologies) and JavaScript® (Oracle Corporation, Austin, TX, USA), as well as MySQL (Oracle Corporation, Austin, TX, USA) for database management. All connections are secure sockets layer (SSL)-encrypted.
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2

Predicting In-Hospital Mortality Risk

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The prediction outcome of the study is the probability of in-hospital mortality, defined as patient’s condition upon leaving the hospital. Based on previous studies [19 (link)-22 (link)] and experts’ opinion (a total of 6 independent medical professionals and cardiologists in West China Hospital of Sichuan University), demographics, comorbidities, vital signs, and laboratory findings (Multimedia Appendix 2) were extracted from the eICU-CRD, using Structured Query Language (MySQL) queries (version 5.7.33; Oracle Corporation). The following tables from eICU-CRD were used: “diagnosis,” “intakeoutput,” “lab,” “patient,” and “nursecharting.” Except for the demographic characteristics, other variables were collected during the first 24 hours of each ICU admission. Furthermore, to avoid overfitting, Least Absolute Shrinkage and Selection Operator (LASSO) is used to select and filter the variables [23 (link),24 (link)].
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3

Weighted NHAMCS Data Analysis

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All analyses were conducted on weighted data, as recommended by the CDC’s NCHS website. The weighting is calculated using the most recent census data to provide a stratified representation of the national patient population. All participants’ records were stored in a relational database using the open-source database software MySQL (v. 5.7.11, Oracle, Redwood Shores, CA, USA). All analytics were performed using the open-source statistical computing software R (v 3.2.3, R Foundation, Vienna, Austria). The functions of svydesign and svyglm from the R package survey were used to account for stratified, clustered, and weighted variables in the NHAMCS data. Wald tests of association were used to determine significance for bivariate analyses. Stepwise regression via backward elimination was used including all independent variables mentioned above. Separate independent logistic regression models were run holding pain score as the sole independent variable and opioid use as the dependent variable. CDC detailed documentation of the NHAMCS instrument, methodology and data files that were used as the basis for these analyses are available elsewhere [25 ].
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4

Interactive Role-Playing Game Protocol

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Professor Gooley and the Flame of Mind was hosted on a computer server on the network of the home institution of the authors and was accessible by participants who activated their user accounts and logged in to their accounts via the log-in page [46 ]. This online interactive game was produced in Adobe Flash. Adobe Systems Incorporated and composed of digital elements including animations, graphics, and background music. The logical flow of this role-playing game was controlled by Adobe ActionScript version 3.0. Questionnaire data and user responses were stored in a MySQL (Oracle Corporation) database.
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5

Comprehensive Genomic Metadata Database

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Gene metadata (organism, genomic coordinates, strand, putative function) for every protein was extracted from the definition lines of the Ensembl FASTA files and stored into a custom designed MySQL (Oracle Corporation) relational database (see Figure S16), along with orthology relationships, based on our protein sequence clustering.
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6

Memory Game Protocol for Researchers

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The Memory Game consists of 3 parts: the front-end game interface, the researcher interface, and the application programming interface (API) that both communicate with. The front-end game interface is static HTML running a custom web application built with jQuery 1.11 (OpenJS Foundation) and reliant on the YouTube iFrame API. The researcher interface is a small custom PHP 7 application with no dependencies. The API itself is constructed on the PHP Slim framework v3.4, uses PHPMailer v5.3 to send confirmation or reminder emails through a local university SMTP server, and in turn saves the data in a MySQL (Oracle Corporation) database with any identifying information (email addresses) encrypted such that it can only be decoded and read by researchers with the correct key. The Memory Game is web based and can be accessed in [78 ].
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7

Analyzing Medication Use Patterns in Low-Grade Glioma Patients

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Data from the registries was imported into a mySQL (Oracle) database. Drug dispense were individually analysed for each patient (date and ATC-code) and combined with clinical data using Python. R statistical software version 3.1 was used for statistical analyses. For each day from 1 year prior to, until 1 year following index date, the proportion of patients classified as users of the drugs included in the different prescription groups was calculated and displayed as graphs with patients and controls, as well as confidence intervals (Fig. 1a, b, c).

a, b, c Graphs demonstrating the proportion of patients with LGG (red) (95% CI) versus controls (blue) with a use of antidepressants (a), sedatives (anxiolytics and hypnotics) (b) and anti-epileptics (c) in relation to time from one year prior to index date through one year following index date

Continuous variables were summarized using the median, first and third quartiles and compared between cases and controls using the Mann-Whitney U test. Categorical variables were summarized using counts and proportions and compared between cases and controls using the Fisher’s exact test. Univariable and multivariable logistic regression analyses were done using SPSS 25.0. Covariates were chosen based upon presumed relevance. All tests were two-sided and statistical significance level was set to a p-value < 0.05.
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8

Hepatitis B Screening and Vaccination Program

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A tablet application (Kiran app), web application (Kiran website), and database were created to facilitate and conduct an HBV screening and vaccination program in Arunachal Pradesh, India. The Kiran app was written in Android and developed by our software collaborators (CTIS, Rockville, MD). The web application was written in ASP.NET and hosted in the cloud on an Amazon Web Services server (Amazon, Seattle, WA). The database that stored all patient data was written in MySQL (Oracle, Redwood City, CA). Administrators monitored data for integrity. Technical support, database development, and maintenance were provided through CTIS.
Patient data collection through tablet and phlebotomy were done in West Kameng, East Kameng, Tawang, Lower Subansiri, and Papum Pare in Arunachal Pradesh, India. Our field headquarters was in Tezpur, Assam, and our central headquarters was in PG Hospital, Kolkata. Tablets and vacutainers for laboratory specimens were transported from the field headquarters to the field sites. Supplies always came from our central headquarters. Our aim was to screen as many participants as possible in 3 years.
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9

Automated Flow Cytometry Data Analysis

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FCS files were uploaded and analyzed using the ImmPort web-based FLOCK service (ImmPort-FLOCK) [9 ]. We chose ImmPort-FLOCK over other auto-gating algorithms because it is relatively robust to intersample fluorescence variability [6 (link)] and because the algorithm performed well in comparison with other auto-gating algorithms [10 (link)]. Version 1 of ImmPort-FLOCK, previously validated in the analysis of small-volume flow cytometry data [6 (link), 11 (link), 12 (link)], was used for our analyses with default settings. The analysis results were visualized using the ImmPort-FLOCK data visualization tool (Additional file 1, panel a).
We then downloaded the results for each analyzed FCS file and processed them for upload into a relational database (MySQL; Oracle, Redwood City, CA, USA). The database also contained the clinical data, enabling joining with the ImmPort-FLOCK results. SQL queries were used to extract flow cytometry results as described below.
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10

Visualizing Lymph Node Metastases in Cytoscape

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Cytoscape (version 3.14.2; Institute for Systems Biology) was used to visualize the lymph node metastases at each lymph node station.17 (link) We also used Python (version 3.6.9), NumPy (version 1.18.2) package, and Pandas (version 1.0.3) software library for data processing and matrix computation. MySQL (version 14.14; Oracle Corp), Django (version 3.0.4) web framework, Django-MySQL (version 3.5.0) database management system, and MySQLclient (version 1.4.6) database client application were used to visualize the data in Cytoscape.
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