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Sunday, 09 Feb 2020 - Saturday, 15 Feb 2020


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

Registration Fee

300,- € (double room) / 400,- € (single room)

Available AV equipment

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



Villa Plemelj
Prešernova 39
4260 Bled, Slovenia
Phone: +386 4 5743 023
GPS Coordinates: 46.371121,14.108504
Hotel Astoria
Prešernova 44
4260 Bled, Slovenia
Phone: +386 4 579 44 00
Fax:     +386 4 579 44 01

View Larger Map

How to get there
From Ljubljana airport you have the following options to get to the Winterseminar:
  • take a regular taxi (approx. 50 €)
  • public bus transfer, first to Ljubljana city and from there to Bled
  • Airport Shuttle ZUP prevozi (recommended, special rates for groups)
If you arrive via train at Lesce-Bled, you can take a taxi or go by bus to the main bus station (search for connections from Lesce to Bled)


Arrival and Get Together at the Villa 9 Feb 20205pmVilla Plemlj
Opening Session 10 Feb 20204pmHotel Astoria
Session Chair: Ronny Lorenz
Slides Speaker Talk Title
Ronny LorenzWelcome and opening of the TBI Winterseminar
Freja Maj KellerisIntegration of Methylation Data into a CRISPR-Cas9 Off-Target Assessment Model
Florian MockHow to use sequences in Deep Learning
Celia DiezelNanopore sequencing or short story about long reads
Sarah KrautwurstDiving into RNA-protein interactions
Lisa-Marie BarfPan-genomes are the new reference genomes
Maximilian ArltAn Introduction to the Analysis of Ancient Sequencing Data
Muriel_RitschTranscribed EVEs in Myotis lucifugus
Graph Theory 11 Feb 20204pmHotel Astoria
Session Chair: Jakob Lykke Andersen
Slides Speaker Talk Title
Angel RodriguezUsing clustering to improve a max-cut approximation algorithm.
Carsten SeemannSymmetrized Phylogenetic Relations
David SchallerSomething about orthology inference using best matches
Anahy SantiagoConnectivity on directed Hypergraphs
Bioinformatics II 8pmHotel Astoria
Session Chair: Sven Findeiss
Slides Speaker Talk Title
Veerendra GandekarIdentification of Long non-coding RNAs in Neurodegenerative diseases
Sarah v. LoehneysenThe Prokrastinator: Combining illumina and nanopore reads for de novo genome assembly
Carmen BruckmannAutomated clustering for microbial cytometric data
Sebastian KrautwurstRNA methylation calling with nanopore sequencing
Christiane GaertnerSlaPPy: The thing you want to do with oxford nanopore!
Group Photo 12 Feb 20203:30pmHotel Astoria (Entrance)
RNA I 12 Feb 20204pmHotel Astoria
Session Chair: Stephan Bernhart
Slides Speaker Talk Title
Lucas VieiraNon-Coding RNAs in colorectal cancer: a bioinformatics perspective
Tobias HagemannPredicting ncRNA candidates in smallRNA-seq data
Kevin LamkiewiczReducing haystacks to needles: Comparative Genomics based on viral clusters
Daniel DesiroFlexible RNA-RNA interactions in influenza A virus
Vivian BrandenburgTranscriptome-wide structure probing with Lead-Seq
Maria WaldlKinetics of RNA-RNA Interactions
Irene BeckmannConstrained folding simulations of RNA-RNA Interaction in 3D
RNA II 12 Feb 20208pmHotel Astoria
Session Chair: Sebastian Will
Slides Speaker Talk Title
Julia WielachMachine learning for RNA structure prediction
Hua-Ting YaoExponentially Few RNA Structures are Designable
Yann PontyCounting tree alignments and algorithmic consequences
Peter StadlerBi-Alignment
Cheminformatics 13 Feb 20208pmHotel Astoria
Session Chair: Christoph Flamm
Slides Speaker Talk Title
Philipp HoneggerComputational Spectroscopy of Reverse Micelles
Bojana RistivojcevicGraph Rewrite Rule Database
Mikkel PilegaardGraph Transformations in an Enzymatic Context
Sarah BerkemerOdonomics
Transcriptomics 14 Feb 20204pmHotel Astoria
Slides Speaker Talk Title
Dominik OttoBayesian RNA-Seq Deconvolution
John AndersMapping mass spectra onto a genome
Marie LataretuComparative mutli-tissue virus-host transcriptomics with Nextflow
Natasha JorgeDifferentially expressed transcript regions in Alzheimer's disease


Further Information

Find detailed information here.

Registered Participants

Name (headcount: 54) Email Affiliation
RonnyLorenzronny (at) Wien
Peter F.Stadlerstudla (at) bioinf.uni-leipzIg.deBioinformatik Uni Leipzig
YannPontyyann.ponty (at) lix.polytechnique.frCNRS/Ecole Polytechnique
EmanuelBarthemanuel.barth (at) uni-jena.deFSU Jena
KevinLamkiewiczkevin.lamkiewicz (at) uni-jena.deFSU Jena
FlorianMockflorian.mock (at) uni-jena.deFSU Jena
MarieLataretumarie.lataretu (at) uni-jena.deFSU Jena
MurielRitschanne.muriel.christin.ritsch (at) uni-jena.deFSU Jena
DominikOttodominik.otto (at) izi.fraunhofer.deFraunhofer IZI
JuliaWielacha01447400 (at) Wien
BojanaRistivojcevicbojana.risti (at) hotmail.comTBI Wien
NatashaJorgenitandressa (at) gmail.comBioinformatik Uni Leipzig
LucasVieiralucas (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
SebastianKrautwurstsebastian.krautwurst (at) uni-jena.deFSU Jena
SarahKrautwurstsarah.krautwurst (at) uni-jena.deFSU Jena
DanielDesiròdaniel.desiro (at) uni-jena.deFSU Jena
ChristophFlammxtof (at) Wien
Carsten R.Seemanncarsten (at) bioinf.uni-leipzig.deMPI MIS Leipzig
IvoHofackerivo (at) Wien
Jakob LykkeAndersenjlandersen (at) imada.sdu.dkSDU Odense
MaximilianArltmaximilian.arlt (at) uni-jena.deFSU Jena
SebastianWillwill (at) Wien
Lisa-MarieBarflisa-marie.barf (at) uni-jena.deFSU Jena
FranziskaHufskyfranziska.hufsky (at) uni-jena.deFSU Jena
MarcelRiegerfranziska.hufsky (at) uni-jena.defamily member
MarikHufskyfranziska.hufsky (at) uni-jena.defamily member
CarmenBruckmanncarmen.bruckmann (at) ufz.deUFZ Leipzig
Hua-TingYaohua-ting.yao (at) polytechnique.eduEcole Polytechnique/McGill University
ChristianeGärtnerchristiane (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
JohnAndersjohnanders (at) posteo.deBioinformatik Uni Leipzig
MikkelPilegaardmipil15 (at) student.sdu.dkSDU Odense
TobiasHagemannth70tylu (at) studserv.uni-leipzig.deBioinformatik Uni Leipzig
StephanBernhartberni (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
SvenFindeißsven (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
SarahBerkemerbsarah (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
Sarahvon Löhneysenlsarah (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
DavidSchallersdavid (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
AngelRodriguezaerfangel (at) gmail.comBioinformatik Uni Leipzig
MariaWaldlmaria (at) Wien
Irene K.Beckmannirene (at) Wien
ManjaMarzmanja (at) uni-jena.deFSU Jena
Freja MajKellerisfreja (at) rth.dkRTH Copenhagen
NicolasWiesekewieseke (at) informatik.uni-leipzig.deSIKS Uni Leipzig
VeerendraGadekarveer (at) rth.dkRTH Copenhagen
RolfBackofenbackofen (at) informatik.uni-freiburg.deUni Freiburg
VivianBrandenburgVivian.Brandenburg (at) rub.deRUB Bochum
BrunoSargueilbruno.sargueil (at) parisdescartes.frCNRS
MehmetTekmantekman (at) informatik.uni-freiburg.deUni Freiburg
PhilippHoneggerphilipp.honegger (at) Wien
JosefLeydoldjosef.leydold (at) Wien
StefanieKehrsteffi (at) bioinf.uni-leipzig.deBioinformatik Uni Leipzig
AnahySantiagojpscw (at) hotmail.comBioinformatik Uni Leipzig
CeliaDiezelcelia.diezel (at) uni-jena.deFSU Jena
NinoBasicnino.basic (at) famnit.upr.siUniversity of Primorska, Koper