Robin's Viewer: Using deep-learning predictions to assist EEG annotation

Machine learning techniques such as deep learning have been increasingly used to assist EEG annotation, by automating artifact recognition, sleep staging, and seizure detection. In lack of automation, the annotation process is prone to bias, even for trained annotators. On the other hand, completely automated processes do not offer the users the opportunity to inspect the models' output and re-evaluate potential false predictions. As a first step toward addressing these challenges, we developed Robin's Viewer (RV), a Python-based EEG viewer for annotating time-series EEG data. The key feature distinguishing RV from existing EEG viewers is the visualization of output predictions of deep-learning models trained to recognize patterns in EEG data. RV was developed on top of the plotting library Plotly, the app-building framework Dash, and the popular M/EEG analysis toolbox MNE. It is an open-source, platform-independent, interactive web application, which supports common EEG-file formats to facilitate easy integration with other EEG toolboxes. RV includes common features of other EEG viewers, e.g., a view-slider, tools for marking bad channels and transient artifacts, and customizable preprocessing. Altogether, RV is an EEG viewer that combines the predictive power of deep-learning models and the knowledge of scientists and clinicians to optimize EEG annotation. With the training of new deep-learning models, RV could be developed to detect clinical patterns other than artifacts, for example sleep stages and EEG abnormalities.

Research on the effect of different types of short music videos on viewers' psychological emotions

There is now widespread agreement that different types of short music videos can cause viewers to have psychological emotions, and significant new findings have been discovered in the study of how music affects listeners' affective reactions. However, there is still controversy regarding research on the inclinations toward behavior and autonomic neurophysiological reactions of musical emotions. The psychological states of viewers of various types of short music videos are yet unknown and require further study. This study investigates how different types of short music videos affect viewers' psychological responses, placing particular emphasis on the following variables: rhythm type (stable rhythm and flow rhythm) and music short video type (narrative, live, and funny). In an experiment, viewers' psychological responses to several short music videos were investigated to determine the impact of different short music video styles and rhythms on musically induced emotions.

An intraoperative test device for aortic valve repair

OBJECTIVE

Aortic valve repair is currently in transition from surgical improvisation to a reproducible operation and an option for many patients with aortic regurgitation. Our research efforts at improving reproducibility include development of methods for intraoperatively testing and visualizing the valve in its diastolic state.

METHODS

We developed a device that can be intraoperatively secured in the transected aorta allowing the aortic root to be pressurized and the closed valve to be inspected endoscopically. Our device includes a chamber that can be pressurized with crystalloid solution and ports for introduction of an endoscope and measuring gauges. We show use of the device in explanted porcine hearts to visualize the aortic valve and to measure leaflet coaptation height in normal valves and in valves that have undergone valve repair procedures.

RESULTS

The procedure of introducing and securing the device in the aorta, pressurizing the valve, and endoscopically visualizing the closed valve is done in less than 1 minute. The device easily and reversibly attaches to the aortic root and allows direct inspection of the aortic valve under conditions that mimic diastole. It enables the surgeon to intraoperatively study the valve immediately before repair to determine mechanisms of incompetence and immediately after the repair to assess competence. We also show its use in measuring valve leaflet coaptation height in the diastolic state.

CONCLUSIONS

This device enables more relevant prerepair valve assessment and also enables a test of postrepair valve competence under physiological pressures.

BAC-BROWSER: The Tool for Visualization and Analysis of Prokaryotic Genomes

Prokaryotes are actively studied objects in the scope of genomic regulation. Microbiologists need special tools for complex analysis of data to study and identification of regulatory mechanism in bacteria and archaea. We developed a tool BAC-BROWSER, specifically for visualization and analysis of small prokaryotic genomes. BAC-BROWSER provides tools for different types of analysis to study a wide set of regulatory mechanisms of prokaryotes: -transcriptional regulation by transcription factors (TFs), analysis of TFs, their targets, and binding sites.-other regulatory motifs, promoters, terminators and ribosome binding sites-transcriptional regulation by variation of operon structure, alternative starts or ends of transcription.-non-coding RNAs, antisense RNAs-RNA secondary structure, riboswitches-GC content, GC skew, codon usage BAC-browser incorporated free programs accelerating the verification of obtained results: primer design and oligocalculator, vector visualization, the tool for synthetic gene construction. The program is designed for Windows operating system and freely available for download in http://smdb.rcpcm.org/tools/index.html.

Chromatic: WebAssembly-Based Cancer Genome Viewer

Chromatic is a novel web-browser tool that enables researchers to visually inspect genomic variations identified through next-generation sequencing of cancer data sets to determine whether such calls are, in fact, valid. It is the first cancer bioinformatics tool developed using WebAssembly technology, which comprises a portable, low-level byte code format that provides for the rapid execution of programs within supported web browsers. It has been designed expressly for ease of use by scientists without extensive expertise in bioinformatics.

The Cognitive Information Effect of Televised News

The purpose of this review is to summarize the key findings which prove that the biased perceptions of viewers may provide an inaccurate image of the informational validity of televised news. The news may generate distorted recollections of what occurred in particular reported events if displayed routines influence viewers not to pay attention to the essential features of a narrative. Elaborating on Fiske and Hartley (2010), Zelizer (2010), and Gunter (2015), we indicate that the character of the news setting has altered and individuals' news consumption routines have changed in adapting to media advancements. The news may be undergone at various psychological stages by news publics. Televised news may transmit information undeviatingly to publics that may (not) be committed successfully to memory. Our paper shows that individuals' skills to handle information that is displayed in a linguistic configuration are influenced by their abilities in the utilization of certain symbol systems that are employed to represent notions and meanings. Televised news may shape what individuals grasp, influence their perceptions, convictions, and views regarding prevailing events and matters, and transmit knowledge and interpretation. If news stories can be jotted down in a linguistic style that sidesteps making needless processing demands and captivate news users by facilitating them to make connections with former knowledge, they may be more worthy of note and more edifying. We conclude that news narratives present a cognitive demanding task to individuals, displaying novel information regarding evolving events in a multifarious format. Broadcast news exhibits intricate contents, displaying configurations that employ excessively the cognitive abilities for information processing of viewers.