Time

Sunday, 10 Feb 2019 - Sunday, 17 Feb 2019

Topics

"Computational Biology, Computational Mathematics, Theoretical Biology, Bioinformatics, Biological Networks"

Registration Fee

275,- € (double room) / 375,- € (single room)

Available AV equipment

black board, overhead projector, beamer, laptop (linux) network, internet access via Wlan

Participants

• Institute of Theoretical Chemistry (University of Vienna)
• Department of Bioinformatics (University of Leipzig)
• Chair of Bioinformatics (University of Freiburg)
• Center for non-coding RNA in Technology and Health (RTH) (University of Copenhagen)
• and guests (by invitation only).

Location(s)

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Program

• Sun 0
• Mon 11
• Tue 12
• Wed 0
• Thu 14
• Fri 14
• Sat 0
• All 51

Arrival and Get Together at the Villa 10 Feb 20196pmVilla Plemlj

Opening Session 11 Feb 20184pmHotel Astoria

Session Chair: Ronny Lorenz
Slides	Speaker	Talk Title
	Ronny Lorenz	Welcome and opening of the TBI Winterseminar
	Joerg Fallmann + Stephan Bernhart	Bierinformatics
	Bernhard Thiel	Predicting a lncRNA 3D structure with the help of SAXS data
	Daniel Desiro	SilentMutations (SIM): a tool for analyzing long-range RNA-RNA interactions in viral genomes and structured RNAs
	Giulia Corsi	On-target prediction and assessment of CRISPR/Cas9 cleavage efficiency

Networks and Cheminformatics 11 Feb 20198pmHotel Astoria

Session Chair: Christoph Flamm
Slides	Speaker	Talk Title
	Cesim Erten	Employing PPI Networks in Cancer Gene/Module Identification
	Mariam Farmann	Human & Bordetella pertussis co-expression networks
	Jakob Lykke Andersen	Introduction to Graphtheory in Cheminformatics
	Tobias Madsen	Decomposition and Evaluation of Graph Transformation Rules
	Emil Houtved Andersen	Reduction of Graph-Grammar Models by grouping of tautomers
	Thomas Hansen	Graph Canonicalization and Algorithmic Engineering
	Nikolai Noejgaard	A Generic Group Contribution Method

RNA Design 12 Feb 20174pmHotel Astoria

Session Chair: Yann Ponty
Slides	Speaker	Talk Title
	Mario Moerl	RNaseP riboswitch design and testing
	Stefan Hammer	Design objective functions (neg. design) and ligand triggered RNA switch
	Sven Findeiss	sRNA triggered translational OFF switch
	Felix Kuehnl	Neomycin Rioboswitch design and testing
	Sebastian Will	Infrared and sequence sampling (positiv design)
	Sarah Berkemer	Exploring Neutral Networks for RNA sequences

Graph Theory 12 Feb 20198pmHotel Astoria

Session Chair: Christian Hoener zu Siederdissen
Slides	Speaker	Talk Title
	Christoph Flamm	Beyond Boltzmann: A brief Intro to Dissipative Systems by Example
	Manuela Geiss	How to find false positive orthologs?
	Carmen Bruckmann	(Orthology-)Relations on rooted Median Graphs
	Carsten R. Seemann	R-Metrices and Mixing Hybrids
	Angel Rodriguez Fernandez	Fitness Landscape of the 2-spin model
	Drago Bokal	Technological valley of death as an emergent evolutionary phenomenon

Discrete Biomathematics Afternoon at the Adriatic Coast 2019 13 Feb 20199:30amFAMNIT, University of Primorska, Koper, Slovenia

Group Photo 14 Feb 20193:30pmHotel Astoria (Entrance)

RNA I 14 Feb 20194pmHotel Astoria

Session Chair: Zasha Weinberg
Slides	Speaker	Talk Title
	Yann Ponty	Integrative Probing Analysis of Nucleic Acids Empowered by Multiple Accessibility Profiles
	Vladimir Reinharz	Sequence covariations between a disordered protein and a structured RNA
	Maria Waldl	Structural alignment of kinetic trajectories reveals conserved transient structures
	Gregor Entzian	Approximate RNA folding kinetics
	Irene K. Beckmann	Trajectories of CopA-CopT under the "CPU microscope"
	Alexandre Paschoal	Feature Selection of Long Non-Coding RNAs in Plants

Omics I 14 Feb 20178pmHotel Astoria

Session Chair: Stephan Bernhart
Slides	Speaker	Talk Title
	Sebastian Krautwurst	Distributed representations of protein domains and genomes and their compositionality
	Douglas Domingues	Intertwining of transposable elements and non coding RNAs in plant genomes
	Lisa-Marie Barf	Whole genome comparison among bacteria
	Polina Drozdova	Accessing size and complexity of the Eulimnogammarus verrucosus genome
	Marie Lataretu	Annotation and differential expression analysis of non-coding RNAs in 16 freely accessible bat genomes
	Maximilian Collatz	Prediction of B-Cell Epitopes
	Paul Klemm	Need for Speed: Proteinortho Nitro
	Jeremias Schebera	Super Genome Browser

RNA II 15 Feb 20194pmHotel Astoria

Session Chair: Vladimir Reinharz
Slides	Speaker	Talk Title
	Milad Miladi	RNA alignment and folding with Markov chains
	Teresa Mueller	Structure-based RNA alignment: the trouble with locality
	Rick Gelhausen	Constraint maximal inter-molecular helix lengths within RNA-RNA interaction prediction improves sRNA target prediction
	Ferhat Alkan	How to decipher the structural secrets of an RNA behind its translational efficiency?
	Alexander Mitrofanov	Identification of CRISPR arrays using machine learning approach
	Iris Eckert	Discovering Ribosomal Leaders in Bacteria and Archaea
	Pablo Cataldo	6S RNA in Lactic Acid Bacteria

Omics II 15 Feb 20198pmHotel Astoria

Session Chair: Florian Eggenhofer
Slides	Speaker	Talk Title
	Florian Heyl	CLIP-Explorer: CLIP-Seq data analysis in Galaxy
	Adrian Geissler	The BSGatlas: A fine-grained atlas of the Bacillus subtillis genome
	John Anders	Using mass spectrometry to discover new proteins
	Nadezhda Doncheva	Modeling of human pathways in animal models: possibilities and limitations
	Natasha Andressa Nogueira Jorge	Non coding RNAs high throughput sequencing data to classify human blood cell types and lung tumor samples.
	Cristian Arley Velandia Huerto	How to improve the detection of miRNA homologs? an outlook from tunicate genomes.
	Lukas Bartonek	VOLPES - an interactive visualization tool for physicochemical sequence properties

Workshops 16 Feb 20192pmVilla Plemelj

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Further Information

Find detailed information here.

Registered Participants