The PRoteomics IDEntification (PRIDE) Converter 2 Framework: An Improved Suite of Tools to Facilitate Data Submission to the PRIDE Database and the ProteomeXchange Consortium

The original PRIDE Converter tool greatly simplified the process of submitting mass spectrometry (MS)-based proteomics data to the PRIDE database. However, after much user feedback, it was noted that the tool had some limitations and could not handle several user requirements that were now becoming commonplace. This prompted us to design and implement a whole new suite of tools that would build on the successes of the original PRIDE Converter and allow users to generate submission-ready, well-annotated PRIDE XML files. The PRIDE Converter 2 tool suite allows users to convert search result files into PRIDE XML (the format needed for performing submissions to the PRIDE database), generate mzTab skeleton files that can be used as a basis to submit quantitative and gel-based MS data, and post-process PRIDE XML files by filtering out contaminants and empty spectra, or by merging several PRIDE XML files together. All the tools have both a graphical user interface that provides a dialog-based, user-friendly way to convert and prepare files for submission, as well as a command-line interface that can be used to integrate the tools into existing or novel pipelines, for batch processing and power users. The PRIDE Converter 2 tool suite will thus become a cornerstone in the submission process to PRIDE and, by extension, to the ProteomeXchange consortium of MS-proteomics data repositories.publishedVersio

Landscape of sign language research based on smartphone apps: coherent literature analysis, motivations, open challenges, recommendations and future directions for app assessment

Numerous nations have prioritised the inclusion of citizens with disabilities, such as hearing loss, in all aspects of social life. Sign language is used by this population, yet they still have trouble communicating with others. Many sign language apps are being created to help bridge the communication gap as a result of technology advances enabled by the widespread use of smartphones. These apps are widely used because they are accessible and inexpensive. The services and capabilities they offer and the quality of their content, however, differ greatly. Evaluation of the quality of the content provided by these applications is necessary if they are to have any kind of real effect. A thorough evaluation like this will inspire developers to work hard on new apps, which will lead to improved software development and experience overall. This research used a systematic literature review (SLR) method, which is recognised in gaining a broad understanding of the study whilst offer- ing additional information for future investigations. SLR was adopted in this research for smartphone-based sign language apps to understand the area and main discussion aspects utilised in the assessment. These studies were reviewed on the basis of related work analysis, main issues, discussions and methodological aspects. Results revealed that the evaluation of sign language mobile apps is scarce. Thus, we proposed a future direction for the quality assessment of these apps. The findings will benefit normal-hearing and hearing-impaired users and open up a new area where researchers and developers could work together on sign language mobile apps. The results will help hearing and non-hearing users and will pave the way for future collaboration between academicians and app developers in the field of sign language technology

The PRoteomics IDEntification (PRIDE) converter 2 framework: an improved suite of tools to facilitate data submission to the PRIDE database and the ProteomeXchange consortium

The original PRIDE Converter tool greatly simplified the process of submitting mass spectrometry (MS)-based proteomics data to the PRIDE database. However, after much user feedback, it was noted that the tool had some limitations and could not handle several user requirements that were now becoming commonplace. This prompted us to design and implement a whole new suite of tools that would build on the successes of the original PRIDE Converter and allow users to generate submission-ready, well-annotated PRIDE XML files. The PRIDE Converter 2 tool suite allows users to convert search result files into PRIDE XML (the format needed for performing submissions to the PRIDE database), generate mzTab skeleton files that can be used as a basis to submit quantitative and gel-based MS data, and post-process PRIDE XML files by filtering out contaminants and empty spectra, or by merging several PRIDE XML files together. All the tools have both a graphical user interface that provides a dialog-based, user-friendly way to convert and prepare files for submission, as well as a command-line interface that can be used to integrate the tools into existing or novel pipelines, for batch processing and power users. The PRIDE Converter 2 tool suite will thus become a cornerstone in the submission process to PRIDE and, by extension, to the ProteomeXchange consortium of MSproteomics data repositories

High-risk exposure without personal protective equipment and infection with SARS-CoV-2 in-hospital workers - The CoV-CONTACT cohort.

International audienc

High-risk exposure without personal protective equipment and infection with SARS-CoV-2 in-hospital workers - The CoV-CONTACT cohort

International audienc

High-risk exposure without personal protective equipment and infection with SARS-CoV-2 in-hospital workers - The CoV-CONTACT cohort

International audienc