Special Session Proposals

SS1 High-throughput genomics: bioinformatic tools and medical applications

Genomics is concerned with the sequencing and analysis of an organism’s genome. It is involved in the understanding of how every single gene can affect the entire genome. This goal is mainly afforded using the current, cost-effective, high throughput sequencing technologies. These technologies produce a huge amount of data that usually require high performance computing solutions and opens new ways for the study of genomics, but also transcriptomics, gene expression, and systems biology, among others. The continuous improvements and broader applications on sequencing technologies is producing a continuous new demand of improved high-throughput bioinformatics tools. Genomics is concerned with the sequencing and analysis of an organism genome taking advantage of the current, cost-effective, high throughput sequencing technologies. Continuous improvement on genomics is producing a continuous new demand of enhanced high-throughput bioinformatics tools. In this context, the generation, integration and interpretation of genetic and genomic data is driving a new era of healthcare and patient management. Medical genomics (or genomic medicine) is this emerging discipline that involves the use of genomic information about a patient as part of the clinical care with diagnostic or therapeutic purposes to improve the health outcomes. Moreover, it can be considered a subset of precision medicine that is having an impact in the fields of oncology, pharmacology, rare and undiagnosed diseases, and infectious diseases.The aim of this special session is to bring together researchers in medicine, genomics, and bioinformatics to translate medical genomics research into new diagnostic, therapeutic, and preventive medical approaches. Therefore, we invite authors to submit original research, new tools or pipelines, or their update, and review articles on relevant topics, such as (but not limited to):

  • Tools for data pre-processing (quality control and filtering)
  • Tools for sequence mapping
  • Tools for the comparison of two read libraries without an external reference.
  • Tools for genomic variants (such as variant calling or variant annotation)
  • Tools for functional annotation: identification of domains, orthologues, genetic markers, controlled vocabulary (GO, KEGG, InterPro...)
  • Tools for gene expression studies
  • Tools for Chip-Seq data
  • Integrative workflows and pipelines

Prof. M. Gonzalo Claros, Department of Molecular Biology and Biochemistry, University of Málaga, Spain.
Dr. Javier Pérez Florido, Bioinformatics Research Area, Fundación Progreso y Salud, Seville, Spain.
Dr. Francisco M. Ortuño, Bioinformatics Research Area, Fundación Progreso y Salud, Seville, Spain.

SS2 Omics data acquisition, processing, and analysis

Motivation and Objectives Automation and intelligent measurement devices produce multiparametric and structured datasets of huge amount. The incorporation of the multivariate data analysis, artificial intelligence, neural networks, and agent based modeling exceeds the experiences of the classical straightforward evaluation and reveal emergent attributes, dependences, or relations. For the wide spectrum of techniques, genomics, transcriptomics, metabolomics, proteomics, lipidomics, aquaphotomics, etc, it is required superposition of expert knowledge from bioinformatics, biophysics, and biocybernetics. The series of systematic experiments have to deal also with the data pipelines, databases, sharing, and proper description. The integrated concepts offer robust evaluation, verification, and comparison.

In this special section should be provided discussion on novel approaches in measurement, algorithms, methods, software, and data management focused on the omic sciences. The topic should cover practical examples, strong results, and future visions.

Organizer: Dr. Jan Urban

Dr. Jan Urban obtained his engineering degree in Cybernetics in 2005, and his PhD in Biophysics in 2010. As a postdoc he spent time in Norway, USA, Austria, and Gran Canaria. In 2012 he obtained Award of the South Bohemia University rector for the best publication. In 2018 he obtained Award of the faculty dean for the applied research. Since 2014 he his a head of Laboratory of signal and image processing, Institute of Complex Systems. His research is focused on metabolomics, resolution, and noise in biological tasks.