A5046977129- Gene expression and cancer classification
- Single-cell and spatial transcriptomics
- Cancer Genomics and Diagnostics
- Molecular Biology Techniques and Applications
- Water Quality Monitoring Technologies
- Parathyroid Disorders and Treatments
- Mass Spectrometry Techniques and Applications
- Cancer-related molecular mechanisms research
- Metabolomics and Mass Spectrometry Studies
- Bioinformatics and Genomic Networks
- Gene Regulatory Network Analysis
- Water Quality and Pollution Assessment
- Advanced Proteomics Techniques and Applications
- Extracellular vesicles in disease
- MicroRNA in disease regulation
- Organ Transplantation Techniques and Outcomes
- Probiotics and Fermented Foods
- Groundwater and Watershed Analysis
- Microbial Metabolic Engineering and Bioproduction
- Rough Sets and Fuzzy Logic
- Cell Image Analysis Techniques
- IoT-based Smart Home Systems
- Epigenetics and DNA Methylation
- Plant biochemistry and biosynthesis
- Traditional Chinese Medicine Studies
Thi Qar University
2025
Indiana Wesleyan University
2025
Center for Translational Molecular Medicine
2024
University Hospital of Zurich
2023
University of Zurich
2023
Cairo University
2023
European Bioinformatics Institute
2017-2022
University of Glasgow
2016-2018
Innsbruck Medical University
2016
Switch
2016
Abstract Expression Atlas is EMBL-EBI’s resource for gene and protein expression. It sources compiles data on the abundance localisation of RNA proteins in various biological systems contexts provides open access to this research community. With increased availability single cell RNA-Seq datasets public archives, we have now extended with a new added-value service display expression cells. Single Cell was launched 2018 currently includes 123 studies from 12 species. The website can be...
Expression Atlas (http://www.ebi.ac.uk/gxa) is an added value database that provides information about gene and protein expression in different species contexts, such as tissue, developmental stage, disease or cell type. The available public controlled access data sets from sources are curated re-analysed using standardized, open source pipelines made for queries, download visualization. As of August 2017, holds 3,126 studies across 33 species, including 731 plants. Data large-scale RNA...
The EMBL-EBI Expression Atlas is an added value knowledge base that enables researchers to answer the question of where (tissue, organism part, developmental stage, cell type) and under which conditions (disease, treatment, gender, etc) a gene or protein interest expressed. brings together data from >4500 expression studies >65 different species, across tissues. It makes these freely available in easy visualise form, after expert curation accurately represent intended experimental design,...
Abstract Plant Reactome (https://plantreactome.gramene.org) is an open-source, comparative plant pathway knowledgebase of the Gramene project. It uses Oryza sativa (rice) as a reference species for manual curation pathways and extends knowledge to another 82 via gene-orthology projection using data model framework. currently hosts 298 pathways, including metabolic transport transcriptional networks, hormone signaling developmental processes. In addition browsing users can upload analyze...
Aging | doi:10.18632/aging.100948. Ruth McClelland, Kelly Christensen, Suhaib Mohammed, Dagmara McGuinness, Josephine Cooney, Andisheh Bakshi, Evangelia Demou, Ewan MacDonald, Muriel Caslake, Peter Stenvinkel, Paul G. Shiels
Abstract The number of mass spectrometry (MS)-based proteomics datasets in the public domain keeps increasing, particularly those generated by Data Independent Acquisition (DIA) approaches such as SWATH-MS. Unlike Dependent datasets, re-use DIA has been rather limited to date, despite its high potential, due technical challenges involved. We introduce a (re-)analysis pipeline for SWATH-MS which includes combination metadata annotation protocols, automated workflows MS data analysis,...
Remote sensing and GIS technologies help in decision-making processes to reduce pollution treatment time. In this study, we aim investigate using remote data predicting water quality parameters of the Tigris River. Our approach involves development mathematical statistical models that leverage satellite imagery predict relevant parameters. Over 2018 2019, fourteen different locations along River were surveyed. Measurements for eight collected simultaneously with images at each location....
Delayed graft function is a prevalent clinical problem in renal transplantation for which there no objective system to predict occurrence advance. It can result significant increase the necessity hospitalisation post-transplant and risk factor other complications.The importance of microRNAs (miRNAs), specific subclass small RNA, have been clearly demonstrated influence many pathways health disease. To investigate miRNAs on allograft performance post-transplant, expression panel...
The clinical interest in probiotics as live microorganisms continues to rise because these deliver health benefits at suitable dose ranges. Probiotics were first applied for gastrointestinal disorders but scientists now investigate their ability affect mental alongside metabolic diseases and skin conditions cardiovascular health. human body obtains various advantages from which consist of maintaining microbial equilibrium reinforcing immune responses along with gut wall function generating...
Abstract Chronic kidney disease and associated comorbidities (diabetes, cardiovascular diseases) manifest with an accelerated ageing phenotype, leading ultimately to organ failure renal replacement therapy. This process can be modulated by epigenetic environmental factors which promote loss of physiological function resilience stress earlier, linking biological age adverse outcomes post‐transplantation including delayed graft (DGF). The molecular features underpinning this have yet fully...
Owing to its pronounced regenerative capacity in many tissues and organs, the zebrafish brain represents an ideal platform understand endogenous regeneration mechanisms that restore tissue integrity function upon injury or disease. Although radial glial neuronal cell populations have been characterized with respect specific marker genes, comprehensive transcriptomic profiling of regenerating telencephalon has not conducted so far. Here, by processing lesioned unlesioned hemispheres...
Abstract Single-cell RNA-Seq (scRNA-Seq) data analysis requires expertise in command-line tools, programming languages and scaling on compute infrastructure. As scRNA-Seq becomes widespread, computational pipelines need to be more accessible, simpler scalable. We introduce an interactive environment for scRNA-Seq, based Galaxy, with ~70 functions from major single-cell which can run clusters, cloud providers or single machines, bring the scRNA-Seq.
It is not a trivial step to move from single-cell RNA-sequencing (scRNA-seq) data production analysis. There lack of intuitive training materials and easy-to-use analysis tools, researchers can find it difficult master the basics scRNA-seq quality control later analysis.We have developed range practical scripts, together with their corresponding Galaxy wrappers, that make accessible previously daunted by prospect We implement "visualize-filter-visualize" paradigm through simple command line...
ABSTRACT The number of mass spectrometry (MS)-based proteomics datasets in the public domain keeps increasing, particularly those generated by Data Independent Acquisition (DIA) approaches such as SWATH-MS. Unlike Dependent datasets, re-use DIA has been rather limited to date, despite its high potential, due technical challenges involved. We introduce a (re-)analysis pipeline for SWATH-MS which includes combination metadata annotation protocols, automated workflows MS data analysis,...
Abstract Background Accumulation of reactive oxygen species and inflammation are major features diabetic vasculopathy, yet the underlying mechanisms remain elusive. LncRNAs emerging as important players in pathogenesis cardiovascular disease. PANDA, a newly identified lncRNA, is key regulator cellular senescence, apoptosis oxidative stress. Purpose To investigate role molecular mechanism PANDA vascular Methods RNAseq was performed to aorta specimen from no patients well HAECs exposed 5 mM 25...
The article explores how cloud infrastructure is revolutionizing contemporary enterprise applications in a variety of fields. It examines computing has transformed DevOps procedures, machine learning, big data analytics, storage, and IoT deployments. thorough discusses cloud-based solutions have developed, emphasizing they helped to lower costs, increase operational efficiency, facilitate digital transformation. From adopting cutting-edge AI integrating complex the shows businesses...
Abstract Background It is not a trivial step to move from single-cell RNA-seq (scRNA-seq) data production analysis. There lack of intuitive training materials and easy-to-use analysis tools, researchers can find it difficult master the basics scRNA-seq quality control Results We have developed range scripts, together with their corresponding Galaxy wrappers, that make accessible previously daunted by prospect The simple command-line tools point-and-click nature makes easy assess, visualise,...
The advent of low-cost sequencing and genotyping technologies has made DNA data widely accessible to individuals. Ancestry tests (from companies like 23andMe, DNA, Family Tree etc.) continue be one the most popular genetic in this space. Over 15 million have been sold so far by ancestry testing companies. These also empower end consumer sharing their raw with them. While predicting haplogroups (Mt Y) is just component doing test, more actionable applications having lie area health, wellness,...