Round table thematic science talks and discussions, set 2
Table 12: Antibiotic resistance, a modern pandemic crisis---development of novel anti-microbial strategies
Location: Room 1
Leaders: Sven Bergström (MIMS), Anders Sjöstedt (MIMS), Bernt Eric Uhlin (MIMS)
The increasing prevalence of antibiotic resistance represents a burgeoning public health crisis, with drug resistant infections potentially outstripping cancer as a cause of death by 2050. Developing anti-virulence instead of antibacterial strategies is perhaps the most viable approach to combat the rising levels of antibiotic resistance. Anti-virulence strategies modulate bacterial or host processes which are required for optimal infectivity, and so pose no direct stress on bacterial growth. We will discuss and describe novel treatment strategies, synergistic treatments and which bacterial species pose the largest threat to mankind.
Table 13: New developments in drug sensitivity and resistance testing
Location: Room 2
Leaders: Krister Wennerberg (FIMM), Daria Bulanova (FIMM), Prson Gautam (FIMM)
The heterogeneity of cancer cells sets a need to characterize drug sensitivity profiles in the various subpopulations in a tumor. We apply multiplexed imaging-based cell viability and death readouts to score subpopulation-specific drug responses within primary tumor samples. Real-time cell health measurement assays allow us to normalize and reliably quantify the selective responses of each subpopulation. We can use this approach to develop models to predict effective combinatorial treatments for cancer.
Table 14: Lipidome and disease
Location: Room 3
Leaders: Irep Gözen (NCMM), Vidya Velagapudi (FIMM)
Table 15: Genetic, molecular and cellular aspects of neuron types in the mammalian brain: some examples and future perspectives
Location: Room 4
Leaders: Marco Copogna (DANDRITE), Keisuke Yonehara (DANDRITE), Sadegh Nabavi (DANDRITE)
We will present various aspects of current research to elucidate the role of various neuron types present in the mammalian brain.
Table 16: From psychiatric risk gene to neuronal function
Location: Room 6
Leaders: Simon Glerup (DANDRITE), Simon Mølgaard (DANDRITE), Camilla Gustafsen (DANDRITE)
This round table will present examples, strategies and methods for going from the identification of a psychiatric risk variant, to biochemical and functional characterization and further to studying its role in neuronal circuits.
Table 17: RNA-seq to reveal molecular mechanisms of bacterial infections
Location: Room 10
Leaders: Jörgen Johansson (MIMS), Vasili Haryuk (MIMS), Sun Nyunt Wai (MIMS)
We will discuss the power of RNA-seq to identify and determine molecular mechanisms used by bacteria to cause and maintain infection in mammalian hosts. Specifically, we will discuss 1) suitable pipelines for analyses of RNA-seq data, 2) best ways to compare data from different experiments, 3) common normalisation problems, 4) predictions of operons, 5) transcriptional start sites, etc.
Table 18: How to make sense of GWAS hits – from discovery to function
Location: Room 11
Leaders: Christian Benner (FIMM), Taru Tukiainen (FIMM), Jaakko Leinonen (FIMM)
Genome-wide association studies (GWAS) have pinpointed numerous associations between phenotypes and genetic loci. While many identified loci have been unexpected, i.e. pointing to novel candidate genes and mechanisms, further elucidation of gene function is a big challenge. We will present how fine-mapping, animal-, and expression-studies may be utilized to dissect the function of newly identified GWAS hits.
Table 19: Functional genomics screens and analyzing big data
Location: Banquet Hall Side
Leaders: Yevhen Akimov (FIMM), Alok Jaiswal (FIMM), Ashwini Kumar (FIMM)
High-throughput molecular profiling methods are frequently used to obtain a genome-scale portrait of genomic and transcriptomic landscape of tumors or cancer cell models. Similarly, genome-wide loss-of-function screens, based on RNAi or CRISPR, allow the interrogation of the functional landscape of cancer cells complementing the exploration of therapeutic landscape based on drug sensitivity screens. We will discuss these methods, the characteristics of the data produced and how to analyse them.
Table 20: Visual data exploration
Leaders: Simon Anders (FIMM), Svetlana Ovchinnikova (FIMM)
In order to find needles of biological insight in haystacks of big data, we need good tools for exploratory data analysis, which allow the user to interactively drill down into the details of an analysis. We are working on such tools and will present and demo them. Emphasis will be on ways to understand the relationship between many samples (e.g. of patients in a cohort, or of single cells in scRNA-Seq) (our "focusedMDS" tool) and to trace findings back to raw data by means of "linked charts" that allow the user to step backwards through the analysis pipeline. We will show how our tools can be used to rapidly set up and connect web-based interactive charts for any kind of heterogeneous big data set.
Table 21: Science communication
Leaders: Mari Kaunisto (FIMM), Annabel Darby (NCMM/Partnership), Eva-Maria Diehl (MIMS), Susanne Sjøgaard (DANDRITE)
We will discuss the strategies and challenges of external communication of science and how researchers are an important part of the process.
Table 22: Advanced imaging for studies of molecular mechanisms
Leaders: Åke Forsberg (MIMS), Magnus Kjaergaard (DANDRITE), Peter Horvath (FIMM)
We will cover different approaches and techniques to facilitate studies of molecular interactions and mechanisms in vivo. In addition we will also discuss technologies to study functional targeting of proteins at the molecular level in vivo.