Recently, the attention of the research community has been focused on long non-coding RNAs (lncRNAs) and their physiological/pathological implications. As the number of experiments increase in a ...rapid rate and transcriptional units are better annotated, databases indexing lncRNA properties and function gradually become essential tools to this process. Aim of DIANA-LncBase (www.microrna.gr/LncBase) is to reinforce researchers' attempts and unravel microRNA (miRNA)-lncRNA putative functional interactions. This study provides, for the first time, a comprehensive annotation of miRNA targets on lncRNAs. DIANA-LncBase hosts transcriptome-wide experimentally verified and computationally predicted miRNA recognition elements (MREs) on human and mouse lncRNAs. The analysis performed includes an integration of most of the available lncRNA resources, relevant high-throughput HITS-CLIP and PAR-CLIP experimental data as well as state-of-the-art in silico target predictions. The experimentally supported entries available in DIANA-LncBase correspond to >5000 interactions, while the computationally predicted interactions exceed 10 million. DIANA-LncBase hosts detailed information for each miRNA-lncRNA pair, such as external links, graphic plots of transcripts' genomic location, representation of the binding sites, lncRNA tissue expression as well as MREs conservation and prediction scores.
Identifying, amongst millions of publications available in MEDLINE, those that are relevant to specific microRNAs (miRNAs) of interest based on keyword search faces major obstacles. References to ...miRNA names in the literature often deviate from standard nomenclature for various reasons, since even the official nomenclature evolves. For instance, a single miRNA name may identify two completely different molecules or two different names may refer to the same molecule. mirPub is a database with a powerful and intuitive interface, which facilitates searching for miRNA literature, addressing the aforementioned issues. To provide effective search services, mirPub applies text mining techniques on MEDLINE, integrates data from several curated databases and exploits data from its user community following a crowdsourcing approach. Other key features include an interactive visualization service that illustrates intuitively the evolution of miRNA data, tag clouds summarizing the relevance of publications to particular diseases, cell types or tissues and access to TarBase 6.0 data to oversee genes related to miRNA publications.
mirPub is freely available at http://www.microrna.gr/mirpub/.
vergoulis@imis.athena-innovation.gr or dalamag@imis.athena-innovation.gr
Supplementary data are available at Bioinformatics online.
MicroRNAs (miRNAs) are small endogenous RNA molecules that regulate gene expression through mRNA degradation and/or translation repression, affecting many biological processes. DIANA-microT web ...server (http://www.microrna.gr/webServer) is dedicated to miRNA target prediction/functional analysis, and it is being widely used from the scientific community, since its initial launch in 2009. DIANA-microT v5.0, the new version of the microT server, has been significantly enhanced with an improved target prediction algorithm, DIANA-microT-CDS. It has been updated to incorporate miRBase version 18 and Ensembl version 69. The in silico-predicted miRNA-gene interactions in Homo sapiens, Mus musculus, Drosophila melanogaster and Caenorhabditis elegans exceed 11 million in total. The web server was completely redesigned, to host a series of sophisticated workflows, which can be used directly from the on-line web interface, enabling users without the necessary bioinformatics infrastructure to perform advanced multi-step functional miRNA analyses. For instance, one available pipeline performs miRNA target prediction using different thresholds and meta-analysis statistics, followed by pathway enrichment analysis. DIANA-microT web server v5.0 also supports a complete integration with the Taverna Workflow Management System (WMS), using the in-house developed DIANA-Taverna Plug-in. This plug-in provides ready-to-use modules for miRNA target prediction and functional analysis, which can be used to form advanced high-throughput analysis pipelines.
MicroRNAs (miRNAs) are key regulators of diverse biological processes and their functional analysis has been deemed central in many research pipelines. The new version of DIANA-miRPath web server was ...redesigned from the ground-up. The user of DNA Intelligent Analysis (DIANA) DIANA-miRPath v2.0 can now utilize miRNA targets predicted with high accuracy based on DIANA-microT-CDS and/or experimentally verified targets from TarBase v6; combine results with merging and meta-analysis algorithms; perform hierarchical clustering of miRNAs and pathways based on their interaction levels; as well as elaborate sophisticated visualizations, such as dendrograms or miRNA versus pathway heat maps, from an intuitive and easy to use web interface. New modules enable DIANA-miRPath server to provide information regarding pathogenic single nucleotide polymorphisms (SNPs) in miRNA target sites (SNPs module) or to annotate all the predicted and experimentally validated miRNA targets in a selected molecular pathway (Reverse Search module). DIANA-miRPath v2.0 is an efficient and yet easy to use tool that can be incorporated successfully into miRNA-related analysis pipelines. It provides for the first time a series of highly specific tools for miRNA-targeted pathway analysis via a web interface and can be accessed at http://www.microrna.gr/miRPathv2.
COVID-19 mainly causes a lower respiratory tract illness, meaning there has been great interest in the chest and lung radiological findings seen during the course of the disease. Most of this ...interest has centred around the computed tomographic findings. Most commonly, computed tomographic images report ground-glass opacities but a less common finding, and potential complication associated with COVID-19, is pneumatocele formation. In this case series, we describe the presentation and management of three patients with large pneumatoceles that developed during the recovery phase of COVID-19. A conservative approach is most recommended, with surgical intervention reserved for complicated cases that cause cardiorespiratory compromise.
In the present work we aim at performance optimization of a speaker-independent emotion recognition system through speech feature selection process. Specifically, relying on the speech feature set ...defined in the Interspeech 2009 Emotion Challenge, we studied the relative importance of the individual speech parameters, and based on their ranking, a subset of speech parameters that offered advantageous performance was selected. The affect-emotion recognizer utilized here relies on a GMM-UBM-based classifier. In all experiments, we followed the experimental setup defined by the Interspeech 2009 Emotion Challenge, utilizing the FAU Aibo Emotion Corpus of spontaneous, emotionally coloured speech. The experimental results indicate that the correct choice of the speech parameters can lead to better performance than the baseline one.
► We describe the design, implementation and evaluation of a speech interface for serious games. ► The serious games support cognitive behavioural treatment of patients. ► The speech interface ...provides crucial feedback to these serious games. ► Evaluation of the speech and emotion recognition component showed satisfactory performance. ► The games utilizing the speech interface are successfully used for treatment of mental disorders.
We describe a novel design, implementation and evaluation of a speech interface, as part of a platform for the development of serious games. The speech interface consists of the speech recognition component and the emotion recognition from speech component. The speech interface relies on a platform designed and implemented to support the development of serious games, which supports cognitive-based treatment of patients with mental disorders. The implementation of the speech interface is based on the Olympus/RavenClaw framework. This framework has been extended for the needs of the specific serious games and the respective application domain, by integrating new components, such as emotion recognition from speech. The evaluation of the speech interface utilized purposely collected domain-specific dataset. The speech recognition experiments show that emotional speech moderately affects the performance of the speech interface. Furthermore, the emotion detectors demonstrated satisfying performance for the emotion states of interest, Anger and Boredom, and contributed towards successful modelling of the patient’s emotion status. The performance achieved for speech recognition and for the detection of the emotional states of interest was satisfactory. Recent evaluation of the serious games showed that the patients started to show new coping styles with negative emotions in normal stress life situations.
Expression of emotional state is considered to be a core facet of an individual's emotional competence. Emotional processing in BN has not been often studied and has not been considered from a broad ...perspective. This study aimed at examining the implicit and explicit emotional expression in BN patients, in the acute state and after recovery. Sixty-three female participants were included: 22 BN, 22 recovered BN (R-BN), and 19 healthy controls (HC). The clinical cases were drawn from consecutive admissions and diagnosed according to DSM-IV-TR diagnostic criteria. Self reported (explicit) emotional expression was measured with State-Trait Anger Expression Inventory-2, State-Trait Anxiety Inventory, and Symptom Check List-90 items-Revised. Emotional facial expression (implicit) was recorded by means of an integrated camera (by detecting Facial Feature Tracking), during a 20 minutes therapeutic video game. In the acute illness explicit emotional expression anxiety (p<0.001) and anger (p<0.05) was increased. In the recovered group this was decreased to an intermediate level between the acute illness and healthy controls anxiety (p<0.001) and anger (p<0.05). In the implicit measurement of emotional expression patients with acute BN expressed more joy (p<0.001) and less anger (p<0.001) than both healthy controls and those in the recovered group. These findings suggest that there are differences in the implicit and explicit emotional processing in BN, which is significantly reduced after recovery, suggesting an improvement in emotional regulation.
Celotno besedilo
Dostopno za:
DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
The MoveOn speech and noise database was purposely designed and implemented in support of research on spoken dialogue interaction in a motorcycle environment. The distinctiveness of the MoveOn ...database results from the requirements of the application domain—an information support and operational command and control system for the two-wheel police force—and also from the specifics of the adverse open-air acoustic environment. In this article, we first outline the target application, motivating the database design and purpose, and then report on the implementation details. The main challenges related to the choice of equipment, the organization of recording sessions, and some difficulties that were experienced during this effort, are discussed. We offer a detailed account of the database statistics, the suggested data splits in subsets, and discuss results from automatic speech recognition experiments which illustrate the degree of complexity of the operational environment.
Affect Recognition in Real Life Scenarios Kostoulas, Theodoros; Ganchev, Todor; Fakotakis, Nikos
Toward Autonomous, Adaptive, and Context-Aware Multimodal Interfaces. Theoretical and Practical Issues
Book Chapter
Recenzirano
Affect awareness is important for improving human-computer interaction, but also facilitates the detection of atypical behaviours, danger, or crisis situations in surveillance and in human behaviour ...monitoring applications. The present work aims at the detection and recognition of specific affective states, such as panic, anger, happiness in close to real-world conditions. The affect recognition scheme investigated here relies on an utterance-level audio parameterization technique and a robust pattern recognition scheme based on the Gaussian Mixture Models with Universal Background Modelling (GMM-UBM) paradigm. We evaluate the applicability of the suggested architecture on the PROMETHEUS database, implemented in a number of indoor and outdoor conditions. The experimental results demonstrate the potential of the suggested architecture on the challenging task of affect recognition in real world conditions. However, further enhancement of the affect recognition performance would be needed before any deployment of practical applications.
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