|SS1|| Expanding Concept of Chaperone Therapy for Inherited Brain Diseases
Chaperone therapy is a new concept of molecular therapeutic approach, first developed for lysosomal diseases, utilizing small molecular competitive inhibitors of lysosomal enzymes. This concept has been gradually targeted to many diseases of other categories, utilizing various compounds not necessarily competitive inhibitors but also non-competitive inhibitors or endogenous protein chaperones (heat-shock proteins).
In this session we will discuss current trends of chaperone therapy targeting various types of neurological and non-neurological diseases caused by misfolded mutant proteins. This molecular approach will open a new therapeutic view for wide variety of diseases, genetic and non-genetic, and neurological and non-neurological, in the near future.
Yoshiyuki Suzuki, M.D., Ph.D., Tokyo Metropolitan Institute of Medical Science (Japan).
|SS2|| Quantitative and Systems Pharmacology: Thinking in a wider "systems-level" context accelerates drug discovery and enlightens our understanding of drug action
"Quantitative and Systems Pharmacology (QSP) is an emerging discipline focused on identifying and validating drug targets, understanding existing therapeutics and discovering new ones. The goal of QSP is to understand, in a precise, predictive manner, how drugs modulate cellular networks in space and time and how they impact human pathophysiology." (QSP White Paper - October, 2011)
Over the past three decades, the predominant paradigm in drug discovery was designing selective ligands for a specific target to avoid unwanted side effects. However, in the current post-genomic era, the aim is to design drugs that perturb biological networks rather than individual targets. The challenge is to be able to consider the complexity of physiological responses to treatments at very early stages of the drug development. In this way, current effort has been put into combining 0 chemogenomics with network biology to implement new network-pharmacology approaches to drug discovery; i.e. polypharmacology approaches combined with systems biology information, which advance further in both improving efficacy and predicting unwanted off-target effects. Furthermore, the use of network biology to understand drug action outputs treasured information, i.e for pharmaceutical companies, such as alternative therapeutic indications for approved drugs, associations between proteins and drug side effects, drug-drug interactions, or pathways and gene associations which provide leads for new drug targets that may drive drug development.
Following the line of QSP Workshops I and II (2008, 2010), the QSP White Paper (2011), or QSP Pittsburgh Workshop (2013), the goal of this symposium is to bring together interdisciplinary experts to help advance the understanding of how drugs act, with regard to their beneficial and toxic effects, by sharing new integrative, systems-based computational or experimental approaches/tools/ideas which allow to increase the probability that the newly discovered drugs will prove therapeutically beneficial, together with a reduction in the risk of serious adverse events.
Violeta I. Perez-Nueno, Ph.D., Senior Scientist, Harmonic Pharma, Nancy (France).
|SS3|| Hidden Markov Model (HMM) for Biological Sequence Modeling
Sequence Modeling is one of the most important problems in bioinformatics. In the sequential data modeling, Hidden Markov Models(HMMs) have been widely used to find similarity between sequences. Some of the most important topics in this session are:
Mohammad Soruri, Department of Electrical and Computer Engineering, University of Birjand, Birjand (Iran).
|SS4|| Advances in Computational Intelligence for Bioinformatics and Biomedicine
Biomedicine and, particularly, Bioinformatics are increasingly and rapidly becoming data-based sciences, an evolution driven by technological advances in image and signal non-invasive data acquisition (exemplified by the 2014 Nobel Prize in Chemistry for the development of super-resolved fluorescence microscopy). In the Biomedical field, the large amount of data generated from a wide range of devices and patients is creating challenging scenarios for researchers, related to storing, processing and even just transferring information in its electronic form, all these compounded by privacy and anonymity legal issues. This can equally be extended to Bioinformatics, with the burgeoning of the .omics sciences.
New data requirements require new approaches to data analysis, some of the most interesting ones are currently stemming from the fields of Computational Intelligence (CI) and Machine Learning (ML). This session is particularly interested in the proposal of novel CI and ML approaches to problems in the biomedical and bioinformatics domains.
Topics that are of interest to this session include (but are not necessarily limited to):
Alfredo Vellido, PhD, Department of Computer Science, Universitat Politécnica de Catalunya, BarcelonaTECH (UPC), Barcelona (Spain).
Jesus Giraldo, PhD, Institut de Neurociències and Unitat de Bioestadística, Universitat Autònoma de Barcelona (UAB), Cerdanyola del Vallès, Barcelona (Spain).
René Alquézar, PhD, Department of Computer Science, Universitat Politecnica de Catalunya, BarcelonaTECH (UPC), Barcelona (Spain).
|SS5|| Tools for Next Generation Sequencing data analysis
Next Generation Sequencing (NGS) is the main term used to describe a number of different modern sequencing technologies such as Illumina, Roche 454 Sequencing, Ion torrent, SOLiD sequencing and Pacific Biosciences. These technologies allow us to sequence DNA and RNA more quickly and cheaply than Sanger sequencing and have opened new ways for the study of genomics, transcriptomics and molecular biology, among others.
The continuous improvements on those technologies (longer read length, better read quality, greater throughput, etc) and the broad application of NGS in several research fields, have produced (and still produce) a huge amount of software tools for the analysis of NGS genomic/transcriptomic data.
We invite authors to submit original research, pipelines and review articles on topics related to software tools for NGS data analysis such as (but not limited to):
Javier Perez Florido, PhD, Genomics and Bioinformatics Platform of Andalusia (GBPA), Seville, (Spain).
Antonio Rueda Martin, Genomics and Bioinformatics Platform of Andalusia (GBPA), Seville, (Spain).
M. Gonzalo Claros Diaz, PhD, Department of Molecular Biology and Biochemistry, University of Malaga (Spain).
|SS6|| Dynamics networks in system medicine
Over the past two decades, it is increasingly recognized that a biological function can only rarely be attributed to an individual molecule. Instead, most biological functions arise from signaling and regulatory pathways connecting many constituents, such as proteins, and small molecules, allowing them to adapt to environmental changes. "Following on from this principle, a disease phenotype is rarely a consequence of an abnormality in a single effector gene product, but reflects various processes that interact in a complex network". Offering a unifying language to describe relations within such a complex system has made network science a central component of systems biology and recently system medicine. Despite the knowledge that biological networks can change with time and environment, much of the efforts have taken a static view. Time-varying networks support richer dynamics and may better reflect underlying biological changes in abnormal state versus normal state and this provides a powerful motivation and application domain for computational modelling. We introduce this session on the Dynamics Networks in System Medicine to encourage and support the development of computational methods that elucidate the dynamic network and its application in medicine. We will discuss current trends and potential biological and clinical applications of network-based approaches to human disease. We aim to bring together experts in different fields in order to promote cross fertilization between different communities.
Narsis Aftab Kiani, PhD, Computational Medicine Unit, Department of Medicine, Karolinska Institute (Sweden).
|SS7|| Interdisciplinary puzzles of measurements in biological systems
Natural sciences demand measurements of the subject of interest as a necessary part of the experimental process. Thus, for the proper understanding of the obtained datasets, it is the necessity to take into the question all mathematical, biological, chemical or technical conditions affecting the process of the measurement itself. While assumptions and recommendations within the field itself are usually concerned, some issues, especially discretization, quantization, experiment time, self-organization and consequent anomalous statistics might cause puzzling behavior.
In this special section we will describe particular examples across disciplines with joint systems theory based approach, including noise and baseline filtration in mass spectrometry, image processing and analysis, and distributed knowledge database. The aim of this section is to present an general overview of the systemic approach.
Jan Urban, PhD, Laboratory of Signal and Image Processing, Institute of Complex Systems, Faculty of Fisheries and protection of Waters, University of South Bohemia.(Czech republic).
|SS8|| Biological Networks: Insight from interactions
Post genomic era has ushered to say 'Ome' for integrated biology disciplines. The complete sequencing of the human genome has shown us a new era of Systems Biology (SB) referred to as omics'. From genomics to proteomics and furthermore, 'Omics'-es existing nowadays integrate many areas of biology. This resulted in an essential ascent from Bioinformatics to Systems Biology leaving room for identifying number of interactions in a cell. Tools have been developed to utilize evolutionary relationships towards understanding uncharacterized proteins while there is a need to generate and understand functional interaction networks. A systematic understanding of genes and proteins in a regulatory network has resulted in bringing the birth of System Biology (SB), there by raising several questions unanswered. Through this conference, we will dig some questions on why and how interactions especially protein-protein interactions (PPI) are useful while discussing methods to remove false positives by validating the data. The conference is aimed at the following two focal themes:
Prof. Alfredo Benso, PhD, Department of Control and Computer Engineering, Politecnico di Torino (Italy)
Dr. Prashanth Suravajhala, PhD, Founder of Bioclues.org and Director of Bioinformatics.org
|SS9|| Tissue engineering for biomedical and pharmacological applications
The concept of tissues appeared more than 200 years ago, since textures and attendant differences were described within the whole organism components. Instrumental developments in optics and biochemistry subsequently paved the way to transition from classical to molecular histology in order to decipher the molecular contexts associated with physiological or pathological development or function of a tissue. The aim of this special session is to provide an overview of the most cutting edge updates in tissues engineering technologies. This will cover the most recent developments for tissue proteomics, and the applications of the ultimate molecular histology method in pathology and pharmacology: MALDI Mass Spectrometry Imaging. This session will be of great relevance for people willing to have a relevant summary of possibilities in the field of tissue molecular engineering.
Rémi Longuespée, PhD, Laboratoire de Spectrométrie de Masse, University of Liege (Belgium).
|SS10|| Towards an effective telemedicine: an interdisciplinary approach
In the last 20 years many resources have been spent in experimentation and marketing of telemedicine systems, but - as pointed by several researchers - no real product has been fully realized - neither in developed or in underdeveloped countries. Many factors could be detected:
The constant improvement of ICT tools should be taken into account: at-home and mobile monitoring are both possible; virtual visits can be seen as a new way to perform an easier and more accepted style of patient-doctor communication (which is the basis of a new active role of patients in monitoring symptoms and evolution of the disease). The sharing of this new approach could be extended from patients to healthy people, obtaining tools for a real preventive medicine: a large amount of data could be gained, stored and analyzed outside the sanitary structures, contributing to a low-cost approach to health.
The goal of this session is to bring together interdisciplinary experts to develop (discuss about) these topics:
The session will have also the ambition of constituting a team of interdisciplinary research, spread over various countries, as a possible basis for an effective participation to European calls.
Maria Francesca Romano, Institute of Economics, Scuola Superiore Sant'Anna - Pisa (Italy)
Giorgio Buttazzo, Institute of Communication, Information and Perception Technologies (TeCIP), Scuola Superiore Sant'Anna, Pisa (Italy)
|SS11|| SS11A: High Performance Computing in Bioinformatics, Computational Biology and Computational Chemistry
The goal of this special session is to explore the use of emerging parallel computing architectures as well as High Performance Computing systems (Supercomputers, Clusters, Grids) for the simulation of relevant biological systems and for applications in Bioinformatics, Computational Biology and Computational Chemistry. We welcome papers, not submitted elsewhere for review, with a focus in topics of interest ranging from but not limited to:
Dr. Horacio Pérez-Sánchez, Dr. Afshin Fassihi and Dr. Jose M. Cecilia, Universidad Católica San Antonio de Murcia (UCAM), (Spain).
SS11B: High Performance Computing for Bioinformatics Applications
This Workshop has a focus on interdisciplinary nature and is designed to attract the participation from several groups including Computational Scientists, Bioscientists and the fast growing group of Bioinformatics researchers. It is primarily intended for computational scientists who are interested in Biomedical Research and the impact of high performance computing in the analysis of biomedical data and in advancing Biomedical Informatics. Bio-scientists with some background in computational concepts represent another group of intended participants. The interdisciplinary group of research groups with interests in Biomedical Informatics in general and Bioinformatics in particular will likely to be the group attracted the most to the workshop.
The Workshop topics include (but are not limited to) the following:
For more information, you can see the Call for Paper for this special session.SS11B Organizers:
Prof. Hesham H. Ali, Department of Computer Science, College of Information Science and Technology, University of Nebraska at Omaha (EEUU)
Prof. Mario Cannataro, Informatics and Biomedical Engineering University "Magna Graecia" of Catanzaro (Italy)
|SS12|| Advances in Drug Discovery
We welcome papers, not submitted elsewhere for review, with a focus in topics of interest ranging from but not limited to:
Dr. Horacio Pérez-Sánchez and Dr. Afshin Fassihi, Universidad Católica San Antonio de Murcia (UCAM), (Spain).
|SS13|| Deciphering the human genome
Accomplishment of "1000 Genomes Project" revealed immense amount of information about variation, mutation dynamics, and evolution of the human DNA sequences. These genomes have been already used in a number of bioinformatics studies, which added essential information about human populations, allele frequencies, local haplotype structures, distribution of common and rare genetic variants, and determination of human ancestry and familial relationships. Humans have modest intra-species genetic variations among mammals. Even so, the number of genetic variations between two persons from the same ethnic group is in the range of 3.4-5.2 millions. This gigantic pool of nucleotide variations is constantly updating by 40-100 novel mutations arriving in each person. Closely located mutations on the same DNA molecule are linked together forming haplotypes that are inherited as whole units and span over a considerable portion of a gene or several neighboring gene. An intense intermixture of millions of mutations occurs in every individual due to frequent meiotic recombinations during gametogenesis. Scientists and doctors are overwhelmed with this incredible amount of information revealed by new-generation sequencing techniques. Due to this complexity, we encountered significant challenges in deciphering genomic information and interpretation of genome-wide association studies.
The goal of this session is to discuss novel approaches and algorithms for processing of whole-genome SNP datasets in order to understand human health, history, and evolution.
Alexei Fedorov, Ph.D, Department of Medicine, Health Science Campus, The University of Toledo (EEUU)
|SS14|| Ambient Intelligence for Bioemotional Computing
Emotions have a strong influence in our vital signs and in our behavior. Systems that take our emotions and vital signs into account can improve our quality of life. The World Health Organization (WHO) characterizes a healthy life first of all with the prevention of diseases and secondly, in the case of the presence of disease, with the ability to adapt and self manage. Smart measurement of vital signs and of behavior can help to prevent diseases or to detect them before they become persistent. These signs are key to obtain individual data relevant to contribute to this understanding of healthy life.
The objective of this session is to present and discuss smart and unobtrusive methods to measure vital signs and capture emotions of the users and methods to process these data to improve their behavior and health.
Prof. Dr. Natividad Martinez, Internet of Things Laboratory, Reutlingen University (Germany).
Prof. Dr. Juan Antonio Ortega, University of Seville (Spain).
Prof. Dr. Ralf Seepold, Ubiquitous Computing Lab, HTWG Konstanz (Germany).
Prof. Xavier Estivill
Genomics and Disease group in the Centre for Genomic Regulation (CRG)
Prof. Alfonso Valencia
Spanish National Cancer Research Center (CNIO)
A Network Biology Approach to Therapeutics
Prof. Patrick Aloy,