EMBnet.journal最新文献_第2页

Future of Exosome Bioinformatics. 外泌体生物信息学的未来。

EMBnet.journal Pub Date : 2023-01-01 DOI: 10.14806/ej.28.0.1015

Dimitrios P Vlachakis, Kalliopi Io Diakou, George P Chrousos

{"title":"Future of Exosome Bioinformatics.","authors":"Dimitrios P Vlachakis, Kalliopi Io Diakou, George P Chrousos","doi":"10.14806/ej.28.0.1015","DOIUrl":"https://doi.org/10.14806/ej.28.0.1015","url":null,"abstract":"Exosomes are under intense study as a promising means for drug or biomarker discovery, primarily due to their implication in intercellular communication and the emergence of disease states and their potential as a cutting-edge, natural delivery system at a nanoscale level. The proteins and nucleic acid cargo of exosomes has been at the center of exosome bioinformatic analysis in the context of health and disease, towards the hunt for novel biomarkers and diagnostics. However, the exosomal lipid composition has been emerging as an interesting target of study as well. Exosomes derived from different sources exhibit enrichment of specific lipid classes and various lipid compositions under different physiological conditions. Therefore, there is a mounting need for exosome lipidomic studies to build the foundation for novel therapeutic studies that use exosomal components. Bioinformatic pipelines are under development to efficiently identify, quantify and elucidate the exosomal lipids and their roles in disease. Cutting-edge bioinformatic tools, such as LipidXplorer, LUX Score, and LipidHome allow the execution of essential analyses such as shotgun lipidomics, and the detection of systematic differences in lipid composition and metadata processing. In the case of pancreatic cancer, an admittedly prevalent and life-threatening disease, these tools have yielded novel exosome lipid biomarkers. Furthermore, bioinformatic platforms such as “Lipidomics Informatics for Life-Science” enable fast and integrated access to these pipelines in a user-friendly manner. Modern bioinformatic methods facilitate the processing of exosome lipidomics","PeriodicalId":72893,"journal":{"name":"EMBnet.journal","volume":"28 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10065464/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9611072","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Validation of the Greek Version of Social Appearance Anxiety Scale in Adolescents and Young Adults. 希腊版青少年和青年社会外表焦虑量表的验证。

EMBnet.journal Pub Date : 2023-01-01 DOI: 10.14806/ej.28.0.1027

Triada Konstantina Papapanou, Flora Bacopoulou, Maria Michou, Christina Kanaka-Gantenbein, Dimitrios Vlachakis, George P Chrousos, Christina Darviri

{"title":"Validation of the Greek Version of Social Appearance Anxiety Scale in Adolescents and Young Adults.","authors":"Triada Konstantina Papapanou, Flora Bacopoulou, Maria Michou, Christina Kanaka-Gantenbein, Dimitrios Vlachakis, George P Chrousos, Christina Darviri","doi":"10.14806/ej.28.0.1027","DOIUrl":"https://doi.org/10.14806/ej.28.0.1027","url":null,"abstract":"Many people are worried about their social appearance. The fear of negative evaluation and judgment regarding one's look in social circumstances is referred to as social appearance anxiety. Social appearance anxiety belongs to social anxiety. The aim of the present study was to validate the Social Appearance Anxiety Scale (SAAS) in the Greek language and to examine its psychometric properties. An online survey was conducted in a Greek population sample of adolescents and young adults aged 18 to 35 years. The survey instruments included the Social Appearance Anxiety Scale, the Social Physique Anxiety Scale (SPAS), 2 subscales of Multidimensional Body-Self Relations Questionnaire Appearance Scale (MBSRQ), the Appearance Schemas Inventory-Revised Scale (ASI-R) and the Depression Anxiety Stress Scale (DASS). A total of 429 respondents participated in this research. The statistical analysis showed that the Greek version of the SAAS has good psychometric properties. The internal consistency of questions within the SAAS was 0.942. Positive correlations were found between SAAS and SPAS, the overweight preoccupation subscale of MBSRQ, the ASI-R and the DASS, while negative correlations were observed between SAAS and the appearance evaluation subscale of MBSRQ and age. The results of this study suggest that the Greek version of SAAS can be used as a reliable and valid instrument in the Greek population.","PeriodicalId":72893,"journal":{"name":"EMBnet.journal","volume":"28 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10270691/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9668963","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Validation of the Eating Habits Questionnaire in Greek adults. 希腊成年人饮食习惯问卷的验证。

EMBnet.journal Pub Date : 2023-01-01 DOI: 10.14806/ej.28.0.1029

Georgia Bali, Ioulia Kokka, Fragiskos Gonidakis, Eleni Papakonstantinou, Dimitrios Vlachakis, George P Chrousos, Christina Kanaka-Gantenbein, Flora Bacopoulou

{"title":"Validation of the Eating Habits Questionnaire in Greek adults.","authors":"Georgia Bali, Ioulia Kokka, Fragiskos Gonidakis, Eleni Papakonstantinou, Dimitrios Vlachakis, George P Chrousos, Christina Kanaka-Gantenbein, Flora Bacopoulou","doi":"10.14806/ej.28.0.1029","DOIUrl":"https://doi.org/10.14806/ej.28.0.1029","url":null,"abstract":"Healthy eating has gained ground in people's daily lives in modern society. However, an overwhelming preoccupation with healthy eating can lead to a pathological form setting the ground for orthorexia nervosa. This study aimed to validate the Greek version of the Eating Habits Questionnaire (EHQ) in adults 18 to 65 years old. The EHQ evaluates orthorexia nervosa traits. An online survey was conducted among adults of the general Greek population by administrating a battery of self-report instruments. The IPIP Big-Five personality questionnaire, Beck's Depression Inventory, the Obsessive-Compulsive Inventory-Revised, the Bulimic Investigatory Test, the Edinburg BITE, and the Eating Attitudes Test-13 were used. Internal consistency, test-retest reliability, and convergent and criterion validity were examined. A total of 551 adults (92.2% females) voluntarily participated in the study. Results suggest that the Greek version of the instrument has good psychometric properties. Analysis revealed a 3-factor model explaining 48.20% of the total variance. Cronbach's alphas ranged between 0.80 to 0.82, indicating good internal consistency. The test-retest reliability analysis showed no statistically significant difference between the measurements of the first and the post-2 weeks. Correlations with other eating disorder-related constructs were found to be weak to moderate. Body mass index was not significantly correlated with neither of the three EHQ subscales. The Greek version of EHQ is a robust instrument that could be used in clinical practice and research in the field of eating disorders in Greece.","PeriodicalId":72893,"journal":{"name":"EMBnet.journal","volume":"28 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10299750/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10104106","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

A Bioinformatics pipeline for variant discovery from Targeted Next Generation Sequencing of the human mitochondrial genome 从下一代人类线粒体基因组测序中发现变异的生物信息学管道

EMBnet.journal Pub Date : 2022-09-30 DOI: 10.14806/ej.28.0.1007

L. Jayasekera, K. Senanayake, R. Ranasinghe, K. Tennekoon

引用次数: 0

In memory of Dr. Allan Orozco 为了纪念艾伦·奥罗斯科博士

EMBnet.journal Pub Date : 2022-07-25 DOI: 10.14806/ej.27.0.1017

Emiliano Barreto-Hernández

引用次数: 0

Structural analysis on mutations related to Alzheimer’s disease 阿尔茨海默病相关突变的结构分析

EMBnet.journal Pub Date : 2022-07-07 DOI: 10.14806/ej.27.0.1011

A. Avramouli, Eleftheria Polychronidou, P. Vlamos

引用次数: 0

A rational structure-based drug design strategy for the discovery of novel antiviral agents against the Yellow Fever Virus helicase 一种基于合理结构的药物设计策略，用于发现针对黄热病病毒解旋酶的新型抗病毒药物

EMBnet.journal Pub Date : 2022-07-07 DOI: 10.14806/ej.27.0.1009

Eleni D Papakonstantinou, Katerina Pierouli, G. Goulielmos, E. Eliopoulos

{"title":"A rational structure-based drug design strategy for the discovery of novel antiviral agents against the Yellow Fever Virus helicase","authors":"Eleni D Papakonstantinou, Katerina Pierouli, G. Goulielmos, E. Eliopoulos","doi":"10.14806/ej.27.0.1009","DOIUrl":"https://doi.org/10.14806/ej.27.0.1009","url":null,"abstract":"Yellow Fever is a viral hemorrhagic disease that is transmitted mainly through arthropods with high mortality rates. Yellow Fever Virus (YFV) is an enveloped positive sense single-stranded RNA virus, member of the Flaviviridae family and the Flavivirus genus, and is endemic in countries of Africa and South America. However, recent cases of infection in North America, Asia and Europe are highlighting the potential risk of an outbreak with no effective treatment available and the urgent need to develop potent antiviral agents against the YFV. In this direction a range of specific modulators were designed and in silico evaluated in an effort to hinder the enzymatic activity of the YFV helicase as a prominent pharmacological target. Following a structure-based rational drug design pipeline, a phylogenetic analysis of Flaviviridae viruses and an in-depth evolutionary study on the Yellow Fever Virus helicase has provided invaluable insights into structural conservation and structural elements and features that are vital for the viral helicase function. Using comparative modelling and molecular dynamics simulations the YFV helicase-ssRNA complex was established, and the specific molecular interactions and physicochemical properties of the complex could be analyzed and used towards the designing and elucidation of a specific YFV 3D pharmacophore model. A high throughput virtual screening simulation was conducted to assess a set of in-house maintained low molecular weight compounds as bioactive inhibitors of the YFV helicase enzyme. The in-silico study described herein, could pave the way towards the designing and more efficient screening of potential novel modulator compounds against the YFV as well as attest and designate the NS3 helicase as an antiviral pharmacological target of uttermost value and potential.","PeriodicalId":72893,"journal":{"name":"EMBnet.journal","volume":"65 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-07-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"76612353","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Deep Learning concepts for genomics : an overview 基因组学的深度学习概念:概述

EMBnet.journal Pub Date : 2022-06-03 DOI: 10.14806/ej.27.0.990

Merouane Elazami Elhassani, Loïc Maisonnasse, Antoine Olgiati, Rey Jerome, Majda Rehali, P. Duroux, V. Giudicelli, S. Kossida

引用次数: 0

Molecular fusion events in carcinogenic organisms: a bioinformatics study for the detection of fused proteins between viruses, bacteria and eukaryotes. 致癌生物中的分子融合事件:检测病毒、细菌和真核生物之间融合蛋白的生物信息学研究。

EMBnet.journal Pub Date : 2022-04-01 DOI: 10.14806/ej.27.0.1004

Eleni D Papakonstantinou, K. Diakou, Thanasis Mitsis, Konstantina Dragoumani, F. Bacopoulou, V. Megalooikonomou, S. Kossida, G. Chrousos, D. Vlachakis

{"title":"Molecular fusion events in carcinogenic organisms: a bioinformatics study for the detection of fused proteins between viruses, bacteria and eukaryotes.","authors":"Eleni D Papakonstantinou, K. Diakou, Thanasis Mitsis, Konstantina Dragoumani, F. Bacopoulou, V. Megalooikonomou, S. Kossida, G. Chrousos, D. Vlachakis","doi":"10.14806/ej.27.0.1004","DOIUrl":"https://doi.org/10.14806/ej.27.0.1004","url":null,"abstract":"Molecular fusion events have a prominent role in the initial steps of carcinogenesis. In this study, a bioinformatics analysis was performed between four organisms that are known to induce cancer development in humans: two viruses, Human Herpesvirus 4, and Human T-cell leukaemia virus, one bacterium, Helicobacter Pylori, and one trematode, Schistosoma mansoni. The annotated proteomes from these organisms were analysed using the SAFE software to identify protein fusion events, which may provide insight into protein function similarities and possible merging events during the course of evolution. Based on the results, five fused proteins with very similar functions were detected, whereas proteins with different functions that might act in the same molecular complex or biochemical pathway were not found. Thus, this study analysed the above four well-known cancer-related organisms with de novo bioinformatics programs and provided useful information on protein fusion events, hopefully leading to deeper understanding of carcinogenenesis.","PeriodicalId":72893,"journal":{"name":"EMBnet.journal","volume":"14 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"81656133","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The medical cyborg concept 医疗生化人的概念

EMBnet.journal Pub Date : 2022-04-01 DOI: 10.14806/ej.27.0.1005

Eleni D Papakonstantinou, Thanasis Mitsis, Konstantina Dragoumani, F. Bacopoulou, V. Megalooikonomou, G. Chrousos, D. Vlachakis

引用次数: 1