Cíl: Změna antidepresivní či antipsychotické terapie je často nezbytná a musí být provedena efektivně a pokud možno s minimalizací neodůvodněného přerušení léčby. Z těchto důvodů byl vytvořen jednoduchý asistenční softwarový nástroj - aplikace SwitchApp, která je určena k "evidence based" určení doby podávání a výše dávek jednotlivých léčivých přípravků při jejich změně a významně usnadní psychiatrům nebo lékařům jiných odborností provést příslušnou změnu terapie. Materiál a metoda: Datové podklady pro aplikaci SwitchApp byly získány z veřejných zdrojů (souhrny údajů o přípravcích, odborná literatura, doporučené postupy). Vyhodnocením spotřeb byla určena v České republice nejčastěji používaná antipsychotika i antidepresiva. Na základě wireframů, zadání a dodaných podkladů byla nejdříve vytvořena webová stránka (za pomoci frameworků ASP.NET Core a Angular), která byla interně uživatelsky testována. Po schválení finální podoby webové stránky byla vyvinuta mobilní aplikace pro zařízení s operačními systémy Android a iOS (použití frameworku Apache Cordova). Výsledky: Webová aplikace má velmi jednoduché intuitivní rozhraní a je umístěna na webové adrese www.switchapp.cz. Aplikace pro mobilní telefony je ke stažení a instalaci pod názvem SwitchApp (TME solutions, s. r. o. - lékařství) na platformách Google Play (Android) a App Store (iOS). An-tipsychotika i antidepresiva jsou nabízena z rolovacích seznamů v levé části obrazovky, terapeutické dávky zadávány v části pravé. Po zadání požadovaných údajů (povinné jsou účinné látky, dávka nemusí být zadána) lze získat v případě antipsychotik přehledný dávkovací graf a textový popis, v případě antidepresiv textový popis, jakým způsobem provést změnu léčivého přípravku. Závěr: SwitchApp je první a jediný webový portál a mobilní aplikace v českém jazyce usnadňující plánování schématu při změně léčivých přípravků. Aplikace nabízí přehledný návod, v němž lékař získá "evidence based" doporučení pro postupnou změnu dávkování antipsychotika nebo antidepresiva, jejichž léčbu ukončuje nebo zahajuje. Validitu výstupů stvrzuje odborná garance Psychiatrické společnosti ČLS JEP, nicméně jedná se pouze o doporučující návrh postupu, kterým se lékař při změně farmakoterapie u těchto skupin pacientů řídí, neboť vždy je nutné zohledňovat celkový zdravotní stav léčených pacientů.

Objective: Switching the treatment with antidepressant and antipsychotic drugs is often necessary and must be carried out effectively to minimize unjustified treatment interruptions. For these reasons, we have decided to create a simple assistance software tool - the SwitchApp application. This application can serve as an "evidence-based" guide to determine the duration of administration and the dosing of individual medicinal products when switching between them, and thus substantially assist psychiatrists when switching respective therapy. Material and methods: Data for the Switch App were obtained from public sources (summaries of product characteristics, scientific literature, guidelines). The most frequently used antipsychotics and antidepressants in the Czech Republic have been selected. A website was first created based on wireframes, assignments and provided documentation (using ASP.NET Core and Angular frames), which has been internally tested by a user. When the final version of the website was approved, a mobile application was developed for Android and iOS devices (using the Apache Cordova framework). Results: The web application has a very simple intuitive interface, which can be accessed on www.switchapp.cz. The application for mobile phones can be downloaded and installed under the name SwitchApp (TME solutions s.r.o. - medicine) on the Google Play (Android) and App Store (iOS) platforms. Antipsychotics and antidepressants are selected from the scrolling lists in the left part of the screen and therapeutic doses are entered in the right part of the screen. After entering the required data (active substances are mandatory, the dose does not have to be entered) and clicking on the box "evaluate", a clear dosing chart and a text description in case of antipsychotics and a text description in case of antidepressants are displayed. Conclusion: SwitchApp is the first and the only Web portal and a mobile application in the Czech language assisting physicians to plan a schedule when switching medicinal products. The application contains a clear guide offering physicians evidence-based recommendations for the gradual change of dosing of antipsychotics or antidepressants they are discontinuing or initiating. The validity of the outcomes is confirmed by the professional guarantee of the Psychiatric Society of the Czech Medical Association of J. E. Purkyne. However, this is only a recommended proposal for the procedure when switching pharmacotherapy in such groups of patients, but the overall health status must always be taken into account.

• MeSH
• antidepresiva aplikace a dávkování   MeSH
• antipsychotika aplikace a dávkování   MeSH
• lidé MeSH
• mobilní aplikace * MeSH
• náhrada léků * metody   MeSH
• rozvrh dávkování léků MeSH
• směrnice pro lékařskou praxi jako téma MeSH
• telemedicína metody   MeSH
• Check Tag
• lidé MeSH
• Publikační typ
• práce podpořená grantem MeSH
• Geografické názvy
• Česká republika MeSH

PURPOSE: Ktrans$$ {K}^{\mathrm{trans}} $$ has often been proposed as a quantitative imaging biomarker for diagnosis, prognosis, and treatment response assessment for various tumors. None of the many software tools for Ktrans$$ {K}^{\mathrm{trans}} $$ quantification are standardized. The ISMRM Open Science Initiative for Perfusion Imaging-Dynamic Contrast-Enhanced (OSIPI-DCE) challenge was designed to benchmark methods to better help the efforts to standardize Ktrans$$ {K}^{\mathrm{trans}} $$ measurement. METHODS: A framework was created to evaluate Ktrans$$ {K}^{\mathrm{trans}} $$ values produced by DCE-MRI analysis pipelines to enable benchmarking. The perfusion MRI community was invited to apply their pipelines for Ktrans$$ {K}^{\mathrm{trans}} $$ quantification in glioblastoma from clinical and synthetic patients. Submissions were required to include the entrants' Ktrans$$ {K}^{\mathrm{trans}} $$ values, the applied software, and a standard operating procedure. These were evaluated using the proposed OSIPIgold$$ \mathrm{OSIP}{\mathrm{I}}_{\mathrm{gold}} $$ score defined with accuracy, repeatability, and reproducibility components. RESULTS: Across the 10 received submissions, the OSIPIgold$$ \mathrm{OSIP}{\mathrm{I}}_{\mathrm{gold}} $$ score ranged from 28% to 78% with a 59% median. The accuracy, repeatability, and reproducibility scores ranged from 0.54 to 0.92, 0.64 to 0.86, and 0.65 to 1.00, respectively (0-1 = lowest-highest). Manual arterial input function selection markedly affected the reproducibility and showed greater variability in Ktrans$$ {K}^{\mathrm{trans}} $$ analysis than automated methods. Furthermore, provision of a detailed standard operating procedure was critical for higher reproducibility. CONCLUSIONS: This study reports results from the OSIPI-DCE challenge and highlights the high inter-software variability within Ktrans$$ {K}^{\mathrm{trans}} $$ estimation, providing a framework for ongoing benchmarking against the scores presented. Through this challenge, the participating teams were ranked based on the performance of their software tools in the particular setting of this challenge. In a real-world clinical setting, many of these tools may perform differently with different benchmarking methodology.

• MeSH
• algoritmy MeSH
• kontrastní látky * MeSH
• lidé MeSH
• magnetická rezonanční tomografie * metody   MeSH
• reprodukovatelnost výsledků MeSH
• software MeSH
• Check Tag
• lidé MeSH
• Publikační typ
• časopisecké články MeSH

Image processing in cryogenic electron tomography (cryoET) is currently at a similar state as Single Particle Analysis (SPA) in cryogenic electron microscopy (cryoEM) was a few years ago. Its data processing workflows are far from being well defined and the user experience is still not smooth. Moreover, file formats of different software packages and their associated metadata are not standardized, mainly since different packages are developed by different groups, focusing on different steps of the data processing pipeline. The Scipion framework, originally developed for SPA (de la Rosa-Trevín et al., 2016), has a generic python workflow engine that gives it the versatility to be extended to other fields, as demonstrated for model building (Martínez et al., 2020). In this article, we provide an extension of Scipion based on a set of tomography plugins (referred to as ScipionTomo hereafter), with a similar purpose: to allow users to be focused on the data processing and analysis instead of having to deal with multiple software installation issues and the inconvenience of switching from one to another, converting metadata files, managing possible incompatibilities, scripting (writing a simple program in a language that the computer must convert to machine language each time the program is run), etcetera. Additionally, having all the software available in an integrated platform allows comparing the results of different algorithms trying to solve the same problem. In this way, the commonalities and differences between estimated parameters shed light on which results can be more trusted than others. ScipionTomo is developed by a collaborative multidisciplinary team composed of Scipion team engineers, structural biologists, and in some cases, the developers whose software packages have been integrated. It is open to anyone in the field willing to contribute to this project. The result is a framework extension that combines the acquired knowledge of Scipion developers in close collaboration with third-party developers, and the on-demand design of functionalities requested by beta testers applying this solution to actual biological problems.

• MeSH
• algoritmy MeSH
• elektronová kryomikroskopie metody   MeSH
• počítačové zpracování obrazu metody   MeSH
• reprodukovatelnost výsledků MeSH
• software * MeSH
• tomografie elektronová * MeSH
• Publikační typ
• časopisecké články MeSH

MOTIVATION: Upgrade and integration of triplex software into the R/Bioconductor framework. RESULTS: We combined a previously published implementation of a triplex DNA search algorithm with visualization to create a versatile R/Bioconductor package 'triplex'. The new package provides functions that can be used to search Bioconductor genomes and other DNA sequence data for occurrence of nucleotide patterns capable of forming intramolecular triplexes (H-DNA). Functions producing 2D and 3D diagrams of the identified triplexes allow instant visualization of the search results. Leveraging the power of Biostrings and GRanges classes, the results get fully integrated into the existing Bioconductor framework, allowing their passage to other Genome visualization and annotation packages, such as GenomeGraphs, rtracklayer or Gviz. AVAILABILITY: R package 'triplex' is available from Bioconductor (bioconductor.org). CONTACT: lexa@fi.muni.cz SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

• MeSH
• algoritmy MeSH
• DNA chemie   MeSH
• genomika MeSH
• počítačová grafika MeSH
• sekvenční analýza DNA MeSH
• software * MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH

Publikace uznávaných autorů shrnuje současné poznání v oblasti analýzy a návrhu podnikových informačních systémů. Je určena jak studentům vysokých škol, tak odborné veřejnosti z podniků a jiných organizací, ve kterých řeší informační systémy, případně ze softwarových firem, konkrétně zejména profesím Manažer rozvoje a provozu IS/ICT, Vývojář / IS architekt, Byznys analytik / architekt. Monografie se zabývá rolí informačních systémů a technologií (IS/ICT) v dnešním světě, analyzuje vztah byznysu a informačních technologií, popisuje možné a nutné potíže plynoucí ze složitosti IS/ICT a argumentuje některé přístupy k řízení rozvoje IS, a to zejména byznys analýzu, architektonické přístupy, metodické přístupy k budování IS a přístupy založené na službách. Podrobný popis disciplín tvorby IS je založen na metodice MMDIS a vícedimenzionálním přístupu. Dále jsou popsány metody a notace modelování informačních systémů (procesní, funkční, datové modelování, modelování objektů a další).

As in other areas of experimental science, operation of electrophysiological laboratory, design and performance of electrophysiological experiments, collection, storage and sharing of experimental data and metadata, analysis and interpretation of these data, and publication of results are time consuming activities. If these activities are well organized and supported by a suitable infrastructure, work efficiency of researchers increases significantly. This article deals with the main concepts, design, and development of software and hardware infrastructure for research in electrophysiology. The described infrastructure has been primarily developed for the needs of neuroinformatics laboratory at the University of West Bohemia, the Czech Republic. However, from the beginning it has been also designed and developed to be open and applicable in laboratories that do similar research. After introducing the laboratory and the whole architectural concept the individual parts of the infrastructure are described. The central element of the software infrastructure is a web-based portal that enables community researchers to store, share, download and search data and metadata from electrophysiological experiments. The data model, domain ontology and usage of semantic web languages and technologies are described. Current data publication policy used in the portal is briefly introduced. The registration of the portal within Neuroscience Information Framework is described. Then the methods used for processing of electrophysiological signals are presented. The specific modifications of these methods introduced by laboratory researches are summarized; the methods are organized into a laboratory workflow. Other parts of the software infrastructure include mobile and offline solutions for data/metadata storing and a hardware stimulator communicating with an EEG amplifier and recording software.

• Publikační typ
• časopisecké články MeSH

E-photosynthesis framework is a web-based platform for modeling and analysis of photosynthetic processes. Compared to its earlier version, the present platform employs advanced software methods and technologies to support an effective implementation of vastly diverse kinetic models of photosynthesis. We report on the first phase implementation of the tool new version and demonstrate the functionalities of model visualization, presentation of model components, rate constants, initial conditions and of model annotation. The demonstration also includes export of a model to the Systems Biology Markup Language format and remote numerical simulation of the model.

• MeSH
• biologické modely MeSH
• fotosyntéza fyziologie   MeSH
• internet MeSH
• kinetika MeSH
• počítačová simulace MeSH
• software MeSH
• systémová biologie metody   MeSH
• výpočetní biologie metody   MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH

In the framework of forensic anthropology osteometric techniques are generally preferred over visual examinations due to a higher level of reproducibility and repeatability; qualities that are crucial within a legal context. The use of osteometric methods has been further reinforced by incorporating statistically-based algorithms and large reference samples in a variety of user-friendly software applications. However, the continued increase in admixture of human populations have made the use of osteometric methods for estimation of ancestry much more complex, which confounds one of major requirements of ancestry assessment - intra-population homogeneity. The present paper tests the accuracy of ancestry and sex assessment using four identification software tools, specifically FORDISC 2.0, FORDISC 3.1.293, COLIPR 1.5.2 and 3D-ID 1.0. Software accuracy was tested in a sample of 174 documented human crania of Brazilian origin composed of different ancestral groups (i.e., European Brazilians, Afro-Brazilians, and Japanese Brazilians and of admixed ancestry). The results show that regardless of the software algorithm employed and composition of the reference database, all methods were able to allocate approximately 50% of Brazilian specimens to an appropriate major reference group. Of the three ancestral groups, Afro-Brazilians were especially prone to misclassification. Japanese Brazilians, by contrast, were shown to be relatively easily recognizable as being of Asian descent but at the same time showed a strong affinity towards Hispanic crania, in particularly when the classification based on FDB was carried out in FORDISC. For crania of admixed origin all of the algorithms showed a considerable higher rate of inconsistency with a tendency for misclassification into Asian and American Hispanic groups. Sex assessments revealed an overall modest to poor reliability (60-71% of correctly classified specimens) using the tested software programs with unbalanced individual rates for males and females. The highest and atypically balanced rate of classification for sex assessment was provided by COLIPR software, which reached 78% of correctly assessed crania.

• MeSH
• lidé MeSH
• populační skupiny etnologie   MeSH
• software normy   MeSH
• soudní antropologie * metody   MeSH
• určení pohlaví podle kostry metody   MeSH
• Check Tag
• lidé MeSH
• mužské pohlaví MeSH
• ženské pohlaví MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH
• validační studie MeSH
• Geografické názvy
• Brazílie MeSH

V našem sdělení představujeme použití programu CODE-STAT pro rozbor a hodnocení proběhlých KPR v rámci přednemocniční péče Zdravotnické záchranné služby Libereckého kraje. S pomocí programu jsme schopni analyzovat zásahy a poskytovat zpětnou vazbu o průběhu lékařům i zdravotnickým záchranářům. Data, která během výjezdu zaznamenává monitor Lifepak 15 jsou na dálku přenesená do počítače, kde software umožnuje na časové ose rozebrat jednotlivé aspekty zásahu jako jsou křivka EKG, kapnografie, saturace kyslíkem i další neměřené hodnoty. Získaná data lze také velice dobře použít v rámci výuky KPR.

In our communication, we present the use of the CODE-STAT program for the analysis and evaluation of the performed CPR within the framework of pre-hospital care of the Emergency Medical Service of the Liberec Region. With the help of the program, we can analyze the interventions and provide feedback to doctors and paramedics. The data recorded by the Lifepak 15 monitor during EMS run are remotely transferred to a computer, where the software enables the analysis of individual aspects of the intervention on the timeline, such as the ECG curve, capnography, oxygen saturation and other unmeasured values. The obtained data can also be very well used in CPR teaching.

• MeSH
• kardiopulmonální resuscitace * metody   MeSH
• kontinuální vzdělávání MeSH
• lidé MeSH
• monitorování fyziologických funkcí MeSH
• pomocní zdravotničtí pracovníci výchova   MeSH
• urgentní zdravotnické služby MeSH
• zlepšení kvality MeSH
• Check Tag
• lidé MeSH

3D imaging approaches based on X-ray microcomputed tomography (microCT) have become increasingly accessible with advancements in methods, instruments and expertise. The synergy of material and life sciences has impacted biomedical research by proposing new tools for investigation. However, data sharing remains challenging as microCT files are usually in the range of gigabytes and require specific and expensive software for rendering and interpretation. Here, we provide an advanced method for visualisation and interpretation of microCT data with small file formats, readable on all operating systems, using freely available Portable Document Format (PDF) software. Our method is based on the conversion of volumetric data into interactive 3D PDF, allowing rotation, movement, magnification and setting modifications of objects, thus providing an intuitive approach to analyse structures in a 3D context. We describe the complete pipeline from data acquisition, data processing and compression, to 3D PDF formatting on an example of craniofacial anatomical morphology in the mouse embryo. Our procedure is widely applicable in biological research and can be used as a framework to analyse volumetric data from any research field relying on 3D rendering and CT-biomedical imaging.

• MeSH
• anatomické modely MeSH
• automatizované zpracování dat MeSH
• komprese dat statistika a číselné údaje   MeSH
• lebka anatomie a histologie   embryologie   MeSH
• myši MeSH
• obličejové kosti anatomie a histologie   embryologie   MeSH
• rentgenová mikrotomografie statistika a číselné údaje   MeSH
• rentgenový obraz - interpretace počítačová MeSH
• šíření informací metody   MeSH
• software * MeSH
• zobrazování trojrozměrné statistika a číselné údaje   MeSH
• zvířata MeSH
• Check Tag
• myši MeSH
• zvířata MeSH
• Publikační typ
• časopisecké články MeSH
• práce podpořená grantem MeSH