Systems Bioinformatics Unit

Systems Bioinformatics Unit
-Omics
Genomics, Transcriptomics, Proteomics, Metabolomics, Metagenomics
Our aim

Systems Bioinformatics Unit

Systems Bioinformatics Unit
-Omics
Genomics, Transcriptomics, Proteomics, Metabolomics, Metagenomics

The large amount of data resulting from modern -omics approaches, as well as the complexity of these data, have made the existence of computer systems and suitable personnel for their analysis a constant need as well as a huge opportunity. Correct evaluation of the results of various techniques through programming solutions and software is crucial for scientific progress as well as for ensuring accuracy, safety and saving time and money.

In the last years our laboratory has implemented protocols and published papers on transcriptomic, genomic and metabolomic analyses, as well as bioinformatic drug repositioning. All these areas are of particular importance both in daily clinical practice, to achieve Medical Precision, but also for the global pharmaceutical industry, which through drug repositioning can easily and quickly breathe new life into old drugs.

The Unit is a focal point of IMPReS not only analyzing the data resulting from the experiments and measurements of the other units but also utilizing synthetic approaches, such as biological networks and the exploration of signaling pathways. It mainly works collaboratively with the other units but can also autonomously provide data analysis and evaluation services, as well as consulting services to researchers who want to integrate one of the services of IMPReS into their protocols. Besides, an area that is particularly problematic in the analysis services provided so far by companies and centers, is the explanation of the application and usefulness of analysis results, Our goal is to change this paradigm.

Systems Bioinformatics Unit
-Omics
Genomics, Transcriptomics, Proteomics, Metabolomics, Metagenomics
Equipment

Equipment

Equipment

The unit is equipped with 2 high performance computers (THREADRIPPER 3990X, 64Cores/128Threads) with 256GB DDR4 3600 and 6TB NVme disks suitable for processing large -omics data by applications running on Windows and Unix.

In addition, it has an external data storage system (Network Access System 16TB) for the long-term preservation of experimental data and the necessary security backups.

The data are stored in compliance with all the rules established by the General Data Protection Regulation (GDPR), ensuring the anonymous and secure processing of medical and biological data.

Equipment
Research Activities

Research Activities

Research Activities

Bioinformatics analysis is used to comprehensively process research results with analyses on unit-generated and open-access data:

Research Activities

Molecular Background of Idiopathic Inflammatory Bowel Diseases

Idiopathic Inflammatory Bowel Diseases (IBD), which constitute a major group of diseases of the gastrointestinal tract, are characterized by chronic and recurrent, of immunological origin and unknown etiology inflammation. The two main manifestations of IBD are Crohn's Disease (CD) and Ulcerative Colitis (UC), whose etiology has mechanisms involving both acquired and innate immunity. These are types of autoimmune diseases in which there is a chronic and persistent intestinal inflammation that appears to be correlated with many different factors, such as genetic predisposition, environment, and the composition of the intestinal flora.

Molecular Background of Atrial Fibrillation

Atrial fibrillation (AF) is the most common cardiac arrhythmia worldwide and is characterized by uncoordinated contraction, which can potentially lead to thrombus formation, ischemic strokes, even death. Expression differences in genes involved in fibrosis or inflammation can promote cardiac remodeling, which leads to the development and maintenance of atrial fibrillation. However, the underlying molecular mechanisms are still not well understood. Because of this insufficient knowledge of the pathogenic mechanisms of AF, therapeutic strategies are limited to the prevention of its complications, such as stroke, rather than the disease itself. Our aim is to identify new genes that play a critical role in the development of AF and can provide clues to the disease's pathogenic mechanisms but also be used as pharmacological targets to reverse the pathophysiological process behind the disease.

Molecular Background of Heart Failure

Dilated Cardiomyopathy (DCM) and Ischemic Cardiomyopathy (ICM) are the most common causes of Heart Failure (HF), a syndrome with an estimated prevalence of 64.3 million people worldwide. The aim of the present study is to elucidate the gene signature of DCM and ICM, denoted as DiSig (Dilated cardiomyopathy Signature) and IsSig (Ischemic cardiomyopathy Signature), respectively, through bioinformatic analysis.

Molecular Background of COVID-19

COVID-19 is a respiratory infectious disease caused by the prototype coronavirus SARS-CoV-2 and has created a global health crisis. The disease causes a variety of symptoms in patients, ranging from mild cold-like symptoms to severe acute respiratory syndrome and sometimes death. The purpose of the present study is to discover potential drug targets using transcriptomic data from blood and lung.

Gut Microbiome

The intestinal microflora and by extension its genetic material (microbiome) has been associated with a multitude of diseases mainly of immunological and metabolic nature. The intestinal microflora, which is the total number of microorganisms of gastrointestinal tract of the intestine (bacteria, viruses, fungi), seems to be involved in many pathogenic mechanisms of various pathological conditions both of the gastrointestinal tract and of a;; systems in general and has been the subject of extensive research the last years. It is a unique identifier for each person and is influenced by geographical, nutritional, and in general environmental conditions. Nowadays it is considered a symbiotic "organism", providing numerous benefits to the host. Through state-of-the-art bioinformatics approaches our studies attempt to unravel the role of the microbiome during homeostasis and disease.