GCB 2020 GERMAN CONFERENCE ON BIOINFORMATICS
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FRANKFURT
Mainz-Bingen
Bildquelle/Fotograf: Tobias Jakobi
Precision Medicine –
where Bioinformatics & Medical Informatics meet.
GCB 2020
GERMAN CONFERENCE
ON BIOINFORMATICS
14 – 17 SEPTEMBER
VIRTUAL CONFERENCE
PROGRAMME
PROGRAMME
gcb2020.de
g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
contents
ORGANIZER / COMMITTEE 3
SPONSORS / SUPPORTERS / EXHIBITORS 4
WORKSHOPS / TUTORIALS 5
LECTURE PROGRAMME 7–9
Tuesday, 15 September 7
Wednesday, 16 September 8
Thursday, 17 September 9
POSTER PROGRAMME 11
2g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
organizer | committee
local organizers
Ina Koch Goethe-University Frankfurt (Conference Chair)
Miguel Andrade Johannes Gutenberg University of Mainz
Ingo Ebersberger Goethe-University Frankfurt
Antje Krause TH Bingen
Franziska Matthäus Frankfurt Institute for Advanced Studies
Marcel Schulz Goethe-University Frankfurt
Kathi Zarnack Buchmann Institute for Molecular Life Sciences, Frankfurt am Main
programme committee
Miguel Andrade Johannes Gutenberg University of Mainz
Rolf Backofen University of Freiburg
Tim Beißbarth University of Göttingen
Christoph Dieterich University of Heidelberg
Ingo Ebersberger Goethe-University Frankfurt
Caroline Friedel LMU München
Ina Koch Goethe-University Frankfurt
Oliver Kohlbacher University of Tübingen
Antje Krause TH Bingen
Stefan Kurtz University of Hamburg
Mario Looso Max-Planck-Institute for Heart and Lung Research, Bad Nauheim
Franziska Matthäus Frankfurt Institute for Advanced Studies
Burkhard Morgenstern University of Göttingen
Heike Pospisil TH Wildau
Sven Rahmann University of Duisburg-Essen and TU Dortmund
Matthias Rarey University of Hamburg
Knut Reinert FU Berlin
Marcel Schulz Goethe-University Frankfurt)
Johannes Söding Max-Planck-Institut für biophysikalische Chemie, Göttingen
Rainer Spang University of Regensburg
Andrew Torda University of Hamburg
Martin Vingron Max-Planck-Institut für molekulare Genetik, Berlin
Bertram Weiß Bayer Pharma AG, Berlin
Kathi Zarnack Buchmann Institute for Molecular Life Sciences, Frankfurt
Ralf Zimmer LMU München
organizer
DECHEMA e.V.
Theodor-Heuss-Allee 25
60486 Frankfurt am Main
Germany
contact
Matthias Neumann
Phone: +49 (0)69 7564-254
Fax: +49 (0)69 7564-176
E-mail: matthias.neumann@dechema.de
3g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
sponsors | supporter
sponsor
Boehringer Ingelheim Pharma GmbH & Co. KG
Biberach an der Riß/D
supporter
de.NBI – German Network for Bioinformatics Infrastructure Fachgruppe Bioinformatik
Bielefeld/D Hamburg/D
GBM
Society for Biochemistry and Molecular Biology International Society for Computational Biology
Frankfurt am Main/D Leesburg/USA
EXHIBITORS
The German Network for Bioinformatics Infrastructure (de.NBI)
The German Network for Bioinformatics Infrastructure (de.NBI) is a distributed bioinformatics infrastructure which started in
March 2015 as an academic funding initiative of the German Ministry of Research and Education (BMBF). With its wide range of
bioinformatics expertise and renowned partner institutions, the de.NBI network delivers high-standard bioinformatics services,
comprehensive training, as well as powerful computing capacity (de.NBI Cloud) that contributes to the advancement of life
sciences research in Germany and Europe.
4g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
workshops | tutorials
Monday, 14 September 2020
Workshop/Tutorials
09:00 – 12:30 12:30 – 13:30 13:30 – 17:00/17:30
Room 1 WS1: Modern epigenomic analysis: WS1: Modern epigenomic analysis:
theory and practice theory and practice
Details Details
Room 2 WS2: Binding Site Prediction using KNIME WS2: Binding Site Prediction using KNIME
Analytics Platform and its Keras Deep Analytics Platform and its Keras Deep
Learning Integration Learning Integration
Details Details
Room 3 WS3: Tutorial: Reproducibility with Bioconda WS3: Tutorial: Reproducibility with Bioconda
and Snakemake and Snakemake
Details Details
Room 4 WS4: BioC++ - solving daily bioinformatic WS4: BioC++ - solving daily bioinformatic
tasks with C++ efficiently Lunch break tasks with C++ efficiently
Details Details
Room 5 WS5: iSEE: Interactive visualization of WS6: Protein Structure Fundamentals:
SummarizedExperiment objects Searching – Analyzing – Modeling
Details Details
Room 6 WS7: Expression and Single-Cell Analyses,
from Standard Methods to Predictive
Modeling and Machine Learning
Details
Room 7 Young Scientists’ Programme
17:00 – 17:30 CAREER TALK
Dr. Nicolai Raffler, DFG, Bonn
17:30 – 18:00 Q&A SESSION ON
INDUSTRIAL CAREER
Dr. Tommasi Andreani, Sanofi Deutschland
GmbH, Frankfurt am Main
Dr. Kolja Becker, Boehringer Ingelheim
Pharma GmbH & Co. KG, Biberach an der Riß
Dr. Holger Klein, Boehringer Ingelheim
Pharma GmbH & Co. KG, Biberach an der Riß
Dr. Max Siebert, BASF SE, Ludwigshafen
5THE GERMAN NETWORK FOR
BIOINFORMATICS INFRASTRUCTURE
Bioinformatics Solutions for Big Data
in the Life Sciences
SERVICE TRAINING de.NBI INDUSTRIAL
CLOUD FORUM
ϔǡ Training courses, Infrastructure, Consulting,
Databases, Summer schools, Platform and ǡ
Consulting, Hackathons,
Tools Webinars Service solutions
HUMAN BIOINFORMATICS PROTEOMICS AND LIPIDOMICS
MICROBIAL BIOINFORMATICS INTEGRATIVE BIOINFORMATICS
PLANT BIOINFORMATICS REFERENCE DATABASES
RNA BIOINFORMATICS DATA MANAGEMENT
Find out more at
www.denbi.de
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Ǧ͵͵ͷͻͶg c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
programme
Tuesday, 15 September 2020
09:00 OPENING
Chair: I. Koch, University of Frankfurt/D
09:05 keynote lecture
SARS-CoV-2 spreads through geospatially constrained dynamic infection networks causing bimodality in intervention outcome
B. Goldenbogen¹, S. Adler¹, O. Bodeit¹, J. Wodke¹, A. Korman¹, L. Bonn¹, X. Escalera-Fanjul¹, J. EL Haffner¹, M. Karnetzkiv, M. Krantz¹,
I. Maintz¹, L. Mallis¹, R. Moran Torres¹, H. Prawitz¹, P. Segelitz¹, M. Seeger¹, R. Linding¹, E. Klipp¹; ¹ Humboldt-Universität zu Berlin/D
09:45 Meet and discuss with the speaker of the previous session / Break
MEDICAL RESEARCH
Chair: I. Koch, University of Frankfurt/D
10:00 FBA reveals guanylate kinase as a potential target for antiviral therapies against SARS-CoV-2
A. Renz¹; L. Widerspick¹; A. Dräger¹; ¹ Universität Tübingen/D
10:20 GestaltMatch: breaking the limits of rare Mendelian disorder diagnosis by matching patients with next-generation phenotyping
T. Hsieh¹; A. Bar-Haim²; G. Nadav²; P. Krawitz¹; ¹ University of Bonn/D; ² FDNA, Boston/USA
10:40 Meet and discuss with the speaker of the previous session / Break
10:55 BiCoN: Network-constrained biclustering of patients and omics data
O. Lazareva¹; V. Do²; S. Canzar²; K. Yuan¹; J. Baumbach¹; P. Tieri³; D. Blumenthal¹; T. Kacprowski¹; M. List¹; ¹ Technical University of
Munich, Freising/D; ² LMU Munich/D; ³ Consiglio Nazionale delle Ricerche, Rome/I
11:15 Molecular epidemiology of Chikungunya virus in its endemic regions
T. Spicher¹; M. Delitz¹; A. de Bernardi Schneider²; M. Wolfinger¹; ¹ University of Vienna/A; ² University of California San Diego/USA
11:35 Meet and discuss with the speaker of the previous session / Break
11:50 Functional Genomics Meta-analysis to Identify Gene Set Enrichment Networks in Cardiac Hypertrophy
M. Angeloni¹; I. Thievessen¹; F. Engel¹; P. Magni²; F. Ferrazzi¹; ¹ Friedrich-Alexander-Universität (FAU), Erlangen-Nürnberg, Erlangen/D;
² University of Pavia/I
12:10 Detection of follicular regions in actin-stained whole slide images of the human lymph node by shock filter
P. Wurzel¹; J. Ackermann¹; H. Schäfer²; S. Scharf¹; M. Hansmann³; I. Koch¹; ¹ Goethe-Universität Frankfurt am Main/D; ² Hospital of the
Goethe University Frankfurt am Main/D; ³ Frankfurt Institute for Advanced Studies, Frankfurt am Main/D
12:30 Meet and discuss with the speaker of the previous session / Break
12:45 Lunch break – Meet and discuss with exhibitors and other attendees
Chair: M. Andrade, University of Mainz/D
13:30 keynote lecture
Molecular design with machine intelligence
G. Schneider¹; ¹ ETH Zürich/CH
14:10 Meet and discuss with the speaker of the previous session / Break
STRUCTURAL BIOLOGY
Chair:
14:25 Structure-based drug repositioning explains ibrutinib as VEGFR2 inhibitor
M. Adasme¹; D. Parisi²; K. Van Belle²; S. Salentin¹; V. Haupt³; G. Jennings¹; J. Heinrich¹; J. Jean Herman²; T. Louat²; Y. Moreau²;
M. Schroeder¹; ¹ Technische Universität Dresden/D; ² KU Leuven/B; ³ PharmAI GmbH, Dresden/D
14:45 Selectivity and Promiscuity of Ligand Binding from a Binding Site Perspective
O. Koch¹; ¹ Wilhems-Universität Münster/D
15:05 Meet and discuss with the speaker of the previous session / Break
Chair: I. Koch, University of Frankfurt/D
15:20 keynote lecture
MultiMAP: Dimensionality Reduction of Multiple Datasets by Manifold Approximation and Projection
S. Teichmann¹; ¹ Wellcome Sanger Institute, Hinxton/UK
16:00 Meet and discuss with the speaker of the previous session / Break
16:15 POSTER SESSIONS (16:15 – 17:15)
7g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
programme
Wednesday, 16 September 2020
09:00 OPENING
Chair: K. Zarnack, Buchmann Institute for Molecular Life Sciences, Frankfurt/D
09:05 keynote lecture
TBA
N. Rajewsky¹; ¹ MDC, Max Delbrück Center for Molecular Medicine, Berlin/D
09:45 Meet and discuss with the speaker of the previous session / Break
GENOMICS / METAGENOMICS
Chair: F. Matthäus, Frankfurt Institute for Advanced Studies/D
10:00 Deconvolution of “big data” in cancer genomics: from pan-cancer level to single cells
M. Chepeleva¹; Y. Wang¹; A. Kakoichankava²; A. Muller¹; T. Kaoma¹; P. Nazarov¹; ¹ Luxembourg Institute of Health, Strassen/L;
² Vitebsk State Medical University, Vitebsk/BY
10:20 VoronoiTreeraiser: a GUI application for func-tional intra- and inter-Omics comparison
H. Wehrmann¹; K. Oehler²; E. Schleiff³; S. Simm⁴; ¹ Frankfurt Institute of Advanced Studies (FIAS), Frankfurt am Main/D; ² Goethe
Universität, Frankfurt am Main/D; ³ Frankfurt Institute of Advanced Studies (FIAS) and Goethe University, Frankfurt am Main/D;
⁴ University Medicine Greifswald/D
10:40 Meet and discuss with the speakers of the previous session / Break
10:55 MOSGA: Modular Open-Source Genome Annotator
R. Martin¹; T. Hackl²; G. Hattab¹; M. Fischer²; D. Heider¹; ¹ Philips University of Marburg/D; ² Max Planck Institute for Medical Research,
Heidelberg/D
11:15 Identification and assessment of lake water quality indicators from sequencing data using machine learning methods
T. Sperlea¹; D. Beisser²; R. Martin¹; G. Hattab¹; J. Boenigk²; D. Heider¹; ¹ Philipps-Universität Marburg/D; ² University of Duisburg-
Essen, Essen/D
11:35 Meet and discuss with the speakers of the previous session / Break
Chair: M. Nowrousian; Ruhr-University Bochum/D
11:50 Quantitative comparison of within-sample heterogeneity scores for DNA methylation data
M. Scherer¹; ¹ Saarland University, Saarbruecken/D
12:10 Widespread effects of DNA methylation and intra-motif dependencies revealed by novel transcript factor binding models
J. Grau¹; F. Schmidt²; M. Schulz³; ¹ Martin Luther University Halle-Wittenberg, Halle/D; ² Genome Institute of Singapore/SGP;
³ Zentrum für Molekulare Medizin, Goethe Universität, Frankfurt am Main/D
12:30 Meet and discuss with the speakers of the previous session / Break
12:45 Lunch break – Meet and discuss with exhibitors and other attendees
Chair: I. Ebersberger, University of Frankfurt/D
13:30 keynote lecture
Beyond reference genomes: population-scale analysis of agricultural and medical genomes with long reads
M. Schatz¹; ¹ Johns Hopkins University, Baltimore, MD/USA
14:10 Meet and discuss with the speaker of the previous session / Break
14:25 YOUNG SCIENTISTS’ PROGRAMME
Flash Talks of selected poster
15:25 POSTER SESSIONS (15:25 – 16:25)
8g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
programme
Thursday, 17 September 2020
09:00 OPENING
Chair: A. Krause, TH Bingen/D
09:05 keynote lecture
From Data-to-Value: Convenience is key
M. Siebert¹; ¹ BASF SE, Ludwigshafen/D
INDUSTRIAL RESEARCH
Chair: F. Matthäus, Frankfurt Institute for Advanced Studies/D
09:45 Evaluation of computational methods for B-cell receptor reconstruction using single cell RNA-seq data
T. Andreani¹; D. Simaite¹; T. Klabunde¹; C. Struebing¹; C. Reimertz¹; R. Olfati-Saber²; ¹ Sanofi Deutschland GmbH, Frankfurt am Main/D;
² Sanofi Cambridge USA, Cambridge/USA
10:05 Meet and discuss with the speakers of the previous session / Break
10:20 Modelling Disease Progression in Retinal Diseases
K. Becker¹; ¹ Boehringer Ingelheim Pharma GmbH & Co. KG, Biberach an der Riß/D
10:40 Prediction of Biomarkers for Immune-Checkpoint Inhibition based on Genomic and Transcriptomic data
L. Feist¹; B. Rotter¹; ¹ GenXPro GmbH, Frankfurt am Main/D
11:00 Meet and discuss with the speakers of the previous session / Break
MACHINE LEARNING
Chair: M. Schulz, University of Frankfurt/D
11:15 Machine learning approach to predict transcriptional adaptation of cyanobacteria in response to stress
J. Berz¹; N. Fester²; C. Nitzsche³; E. Schleiff⁴; S. Simm³; ¹ Frankfurt Institute of Advanced Studies (FIAS), Frankfurt am Main/D; ² Goethe
University Frankfurt am Main/D; ³ University Medicine Greifswald/D; ⁴ Frankfurt Institute of Advanced Studies (FIAS) and Goethe
University, Frankfurt am Main/D
11:35 Detecting myocardial scar using electrocardiogram data and deep neural networks
N. Gumpfer¹; D. Grün²; J. Hannig¹; T. Keller²; M. Guckert¹; ¹ Technische Hochschule Mittelhessen (THM) - University of Applied Sciences,
Friedberg/D; ² Justus Liebig Universität Gießen/D
11:55 Meet and discuss with the speakers of the previous session / Break
12:10 Association Plots visualize condition-specific genes from high-dimensional data
E. Gralinska¹; M. Vingron¹; ¹ Max Planck Institute for Molecular Genetics, Berlin/D
12:30 Prediction and Analysis of Redox-Sensitive Cysteines Using Machine Learning and Statistical Methods
M. Keßler¹; I. Wittig¹; J. Ackermann¹; I. Koch¹; ¹ Goethe-Universität Frankfurt am Main/D
12:50 Meet and discuss with the speakers of the previous session / Break
13:05 Lunch break – Meet and discuss with exhibitors and other attendees
RNA / SINGLE CELL ANALYSIS
Chair:
13:50 Determining Sample Size for Detection of Cell Identities in Single-Cell RNA-Sequencing Experiments
M. Treppner¹; H. Binder¹; ¹ Institute of Medical Biometry and Statistics, Faculty of Medicine and Medical Center - University of Freiburg/D
14:10 Gene network reconstruction using single cell transcriptomic data reveals key factors for embryonic stem cell differentiation
J. Kim¹; ¹ University of Copenhagen/DK
14:30 Meet and discuss with the speakers of the previous session / Break
Chair: K. Zarnack, Buchmann Institute for Molecular Life Sciences, Frankfurt/D
14:45 Annotating latent structures in single-cell RNA-Seq data using deep Boltzmann machines
M. Hess¹; S. Lenz¹; H. Binder¹; ¹ Faculty of Medicine and Medical Center - University of Freiburg/D
15:05 GeneTonic: enjoying RNA-seq data analysis, responsibly
F. Marini¹; ¹ University Medical Center of the Johannes Gutenberg University Mainz/D
15:25 Meet and discuss with the speakers of the previous session / Break
Chair: M. Schulz, University of Frankfurt/D
15:40 keynote lecture
High Fidelity Genome Sequencing, K-mer Counting, and Padded Minimizers
G. Myers¹; ¹ Max-Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG), Dresden/D
16:20 FaBi PrizeLecture
Deciphering transcriptional regulation using integrative analysis of epigenomic and transcriptomic data
F. Schmidt¹; ¹ Genome Institute of Singapore (GIS), Singapore/SG
16:40 FaBi General Assembly
16:40 Closing
9Looking for digital and Turning data into insights for the
discovery and evaluation of new
computational talents therapeutic concepts or biomarkers
is our business. As part of Boehringer
Ingelheims Innovation Unit we
As a scientist at Boehringer Ingelheim you will are working in global, cross func-
work on cutting edge bioinformatics approaches, tional teams with Discovery Research,
support ongoing projects, and keep in touch Development and Translational
with our partners at universities and scientific Medicine & Clinical Pharmacology –
institutes, present and publish your data at scien- three major organizations located
tific conferences and in peer reviewed journals. at Biberach (DE), Vienna (A) and
Ridgefield (CT, USA).
Global Computational Biology and Digital Sciences
(gCBDS) is a fast growing is a fast growing depart- Boehringer Ingelheim is within
ment and we are looking for digital & computa- the top 20 leading pharmaceutical
tional talents with a background in bioinformatics, companies worldwide with more
computational biology or data sciences and offer than 50,000 employees. We develop
a wide range of positions as a Postdoc, Scientist, breakthrough therapies and inno-
and Principal Scientist. More job offers for com- vative healthcare solutions in
putational biologists and data scientists will areas of unmet medical need for
be posted on our job page quite soon. both humans and animals. As a
family owned company with focus on
long-term performance we look for
Interested to start your career or want to make
talented and ambitious people who
the next step at Boehringer Ingelheim? are passionate about innovation.
Please contact us via our career website
https://careers.boehringer-ingelheim.com/
or send an e-mail to
holger.klein@boehringer-ingelheim.com
gCBDSg c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
poster
P 01 AccuFusion: A new statistical algorithm for detecting gene fusions in RNA-Seq data
X. Su¹; Y. Yuan¹; ¹ UT MD ANDERSON CANCER CENTER, Houston/USA
P 02 SynWiki – A relational database for the current annotation of the synthetic organism JCVI-syn3.0
T. Pedreira¹; H. Gebauer¹; J. Stülke¹; ¹ Georg-August-Universität, Göttingen/D
P 03 A new visual hierarchy to compare and identify source codes for information storage in molecular media
G. Hattab¹; C. Ezekannagha¹; M. Welzel¹; D. Heider¹; ¹ Phillips-Universität Marburg/D
P 04 Identification of Novel Antimicrobial Resistance Targets using Deep Convolutional Neural Networks
Y. Ren¹; A. Hauschild¹; D. Heider¹; ¹ Philipps University Marburg/D
P 05 POLAR: Prediction Of proLonged mechanical ventilation in patients with myAsthenic cRisis
M. Diehl¹; B. Neumann²; A. Hauschild¹; H. Stetefeld³; D. Heider¹; ¹ Philips University of Marburg/D; ² District Hospital Regensburg/D;
³ University Hospital Cologne/D
P 06 Epigenetic features improve TALE target prediction
A. Erkes¹; S. Mücke²; M. Reschke²; J. Boch²; J. Grau¹; ¹ Martin Luther University Halle-Wittenberg, Halle (Saale)/D; ² Leibniz Universität
Hannover/D
P 07 Qsar models based on fingerprint for prediction of affinity of BCL-2 inhibitors
s. Byadi¹; H. Mouhi Eddine²; K. Sadik²; Č. Podlipnik³; A. Aboulmouhajir¹; ¹ University hassan II Casablanca/MA;
² University Chouaib Doukkali, El-jadida/MA; ³ Faculty of Chemistry and Chemical Technology, University of Ljubljana/SLO
P 08 The Antibiotic Resistant Target Seeker (ARTS) Version 2.0 – Improved Exploration of Antibiotic Gene Clusters in Bacterial Genomes
M. Mungan¹; M. Alanjary²; K. Blin³; T. Weber³; M. Medema²; N. Ziemert¹; ¹ Interfaculty Institute of Microbiology and Infection Medicine,
Tuebingen/D; ² Wageningen University, Wageningen/NL; ³ Technical University of Denmark, Kgs. Lyngby/DK
P 09 Comparative transcriptomics and epigenomics to analyze the role of chromatin modifiers in multicellular development of fungi
R. Lütkenhaus¹; J. Breuer¹; M. Nowrousian¹; ¹ Ruhr-University Bochum/D
P 10 New Biomarkers for Immune Checkpoint Inhibition Therapy in DNA and RNA Data
B. Rotter¹; L. Feist¹; ¹ GenXPro GmbH, Frankfurt am Main/D
P 11 Analyzing coverage in smMIPs data
S. Sandmann¹; A. de Graaf²; J. Jansen²; M. Dugas¹; ¹ Westfälische Wilhelms-Universität Münster, Institut für Medizinische Informatik,
Münster/D; ² Radboud University Medical Center, Nijmegen/NL
P 12 InstantDL - An easy-to-use deep learning pipeline for image segmentation and classification
D. Waibel¹; S. Shetab Boushehri¹; C. Marr¹; ¹ Helmholtz Center Munich/D
P 13 Computational protein engineering approaches to alter the substrate specificity and increase the activity of metabolic enzymes
M. Scherer¹; E. Bencurova¹; I. Yunus²; D. Zabala²; T. Dandekar¹; P. Jones²; ¹ Julius Maximilians University of Würzburg/D;
² Imperial College London/UK
P 14 An ensemble biclustering approach for identification of molecular signatures in omics data.
T. Rose¹; R. Röttger²; J. Pauling¹; ¹ Technical University of Munich, Freising/D; ² University of Southern Denmark, Odensee/DK
P 15 Proposal for cloud-based biobanking while maintaining strong data protection
B. Josephs¹; A. Müller¹; J. Hovanec¹; O. Pfeifer-Bley¹; D. Taeger¹; T. Brüning¹; T. Behrens¹; ¹ Institute for Prevention and Occupational
Medicine of the German Social Accident Insurance, Bochum/D
P 16 InterCellar: an R/Shiny app enabling interactive analysis of cell-cell interactions from single-cell RNA sequencing data
M. Interlandi¹; M. Dugas¹; ¹ University of Münster/D
P 17 Application of bioinformatics methods opens up new perspectives in the study of micro-RNAs
E. Namiot¹; ¹ FMSMU, Moscow/RUS
P 18 Copy Number Detection in DNA methylation
A. Ramakrishnan¹; ¹ Helmholtz Zentrum München - German Research Center for Environmental Health (GmbH), Neuherberg/D
P 19 Cell Fate Clusters in ICM Organoids Arise from Cell Fate Heredity & Division – a Modelling Approach
T. Liebisch¹; A. Drusko¹; B. Mathew²; E. Stelzer²; S. Fischer³; F. Matthäus¹; ¹ Frankfurt Institute of Advanced Studies (FIAS) and Goethe
University, Frankfurt/D; ² Buchmann Institute for Molecular Life Sciences, Goethe University, Frankfurt/D; ³ Julius-Maximilian University
of Würzburg/D
P 20 Graph-theoretical analysis of the topology of large protein complexes based on cryo-EM data
J. Wolf¹; J. Ackermann¹; I. Koch¹; ¹ Goethe-University, Frankfurt am Main/D
11g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
poster
P 21 Bioinformatic analysis of morphological differences in tissue images of Hodgkin lymphoma patients regarding new and recurrent
cases
T. Bergmann¹; P. Wurzel²; J. Ackermann¹; M. Hansmann²; I. Koch¹; ¹ Goethe University Frankfurt am Main/D; ² Frankfurt Institute for
Advanced Studies, Frankfurt am Main/D
P 22 Structural characterization of cell graphs of CD30-positive cells in histological images of Hodgkin lymphoma using bioinformatic
methods
D. Hein¹; P. Wurzel²; J. Ackermann¹; I. Koch¹; M. Hansmann²; ¹ Goethe Universität Frankfurt am Main/D; ² Frankfurt Institute of
Advanced Studies (FIAS), Frankfurt am Main/D
P 23 Dynamic properties of cyclosporines revealed by NMR and MD simulations and their influence on mitochondrial pore
P. Kobchikova¹; S. Efimov¹; V. Klochkov¹; M. Dubinin²; ¹ Kazan Federal University, Kazan/RUS; ² Mari State University, Yoshkar-Ola/RUS
P 24 Bioinformatic tools used in the genome analysis of bovine mastitis etiologic agents: a scientometric profile
B. Metzner¹; A. Trentin¹; G. Sanches¹; N. Gabiatti¹; S. Souza¹; F. Barros¹; D. Leite¹; ¹ Universidade Tecnológica Federal do Paraná, Dois
Vizinhos/BR
P 25 How to draw the line – Raman spectroscopy as a tool for the assessment of biomedicines
B. Becker¹; W. Matheis¹; V. Öppling¹; I. Bekeredjian-Ding¹; C. Kamp¹; ¹ Paul-Ehrlich-Institut, Langen/D
P 26 A deep learning approach to predict myocardial scar tissue based on electrocardiogram data
J. Hannig¹; N. Gumpfer¹; J. Prim¹; D. Grün²; T. Keller²; M. Guckert¹; ¹ Technische Hochschule Mittelhessen (THM) - University of Applied
Sciences, Friedberg/D; ² Justus Liebig University Gießen/D
P 28 The virtual infection model of an epithelial cell by Salmonella Typhimurium: an agent-based simulation
J. Hannig¹; N. Alikhani Chamgordani²; M. Guckert¹; J. Ackermann²; I. Koch²; ¹ Technische Hochschule Mittelhessen (THM) - University of
Applied Sciences, Friedberg/D; ² Johann Wolfgang Goethe-University Frankfurt am Main/D
P 29 Germline variant analysis of family trios in children with cancer
C. Walter¹; R. Wagener²; L. Yasin²; D. Alzoubi²; T. Brozou²; U. Fischer²; A. Borkhardt²; M. Dugas¹; ¹ Westfälische Wilhelms-Universität
Münster, Institut für Medizinische Informatik, Münster/D; ² Heinrich Heine Universität Düsseldorf/D
P 30 Force Inference – Estimating the dynamics of mechanical forces in collectively migrating epithelial tissues from time-lapse images
Z. Lange¹; F. Matthäus¹; ¹ Goethe Universität Frankfurt am Main/D
P 31 Detection of Molecular Mimicry between Microbial and Human Epitopes Associated with Autoimmune Diseases
R. Gilyazev¹; A. Krause¹; ¹ TH Bingen, Bingen am Rhein/D
P 32 miRNeo: a graph-based infrastructure for rapid large-scale computation of epitranscriptional interactions
S. Lobentanzer¹; ¹ Goethe-Universität Frankfurt am Main, Frankfurt/D
P 33 3D image analysis reveals lymphoma-specific structures of tumor-associated macrophages
A. Vladisavljevic¹; P. Wurzel²; S. Scharf¹; H. Schäfer³; J. Ackermann¹; I. Koch¹; M. Hansmann¹; ¹ Johann Wolfgang Goethe-University
Frankfurt am Main/D; ² Frankfurt Institute of Advanced Studies (FIAS) and Goethe University, Darmstadt/D; ³ Hospital of the Goethe
University Frankfurt am Main/D
P 34 Representation of RNA-Protein Complexes in Topology Graphs.
M. Zunker¹; J. Wolf¹; I. Koch¹; ¹ Goethe Universität Frankfurt am Main/D
P 35 Distinct genomics organization in different classes of U1 snDNA in Astyanax mexicanus and Psalidodon paranae.
R. Calegari¹; F. Porto-Foresti¹; R. Utsunomia²; ¹ São Paulo State University - UNESP, Bauru/BR; ² Rural Federal University of Rio de
Janeiro, Seropédica/BR
P 36 Phylogeny and Possible Functions of Bacterial and Protozoal Lipoxygenases
G. Kurakin¹; A. Samoukina¹; N. Potapova²; ¹ Tver State Medical University, Tver/RUS; ² Institute for Information Transmission Problems
of the Russian Academy of Sciences (Kharkevich Institute), Moscow/RUS
P 37 Kinetic Model of AMPK-Mediated Autophagy Initiation
M. Moesser¹; J. Ackermann¹; A. Hamann¹; H. Osiewacz¹; I. Koch¹; ¹ Johann Wolfgang Goethe-University, Frankfurt am Main/D
P 38 Identification of alternative splicing regulators in RNA-Seq using machine learning
S. Lipnitskaya¹; M. Enculescu¹; M. Cortés López¹; S. Braun¹; J. König¹; S. Legewie¹; ¹ Institute of Molecular Biology gGmbH, Mainz/D
P 39 Interactions between human gut microbiome, medication and clinical parameters
I. Kel¹; M. Kuhn¹; P. Bork¹; ¹ European Molecular Biology Laboratory (EMBL), Heidelberg/D
P 40 Analysis of innate immunity and polyunsaturated fatty acid cascades in Parkinson‘s disease based on RNA sequencing data
E. Ptitsyna¹; N. Azbukina¹; D. Chistyakov¹; M. Sergeeva¹; ¹ Lomonosov Moscow State University, Moscow/RUS
12g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
poster
P 41 Prediction of clinically significant prostate cancer based on magnetic resonance images and tissue microarrays applying machine
learning approaches
Y. Zhdanovich¹; J. Ackermann¹; I. Koch¹; S. Bernatz²; P. Mandel²; F. Chun²; J. Köllermann²; N. Rosbach²; T. Vogl²; P. Wild²; ¹ Johann
Wolfgang Goethe-University Frankfurt am Main/D; ² University Hospital Frankfurt am Main/D
P 42 Text Mining-based Word Representations for Biomedical Data Analysis and Machine Learning Tasks
H. Alachram¹; H. Chereda¹; P. Stegmaier²; T. Beißbarth¹; E. Wingender²; ¹ University Medical Center Göttingen/D; ² geneXplain GmbH,
Wolfenbuettel/D
P 43 Multiple-instance learning for label-free bladder cancer cytopathology
J. Butke¹; T. Frick¹; S. El-Mashtoly¹; K. Gerwert¹; A. Mosig¹; ¹ Ruhr University Bochum, Department of Biophysics, Bochum/D
P 44 IndiForest: machine learning on indicators and ranks for cancer diagnosis
M. Guryleva¹; ¹ Moscow Lomonosov State University, Moscow/RUS
P 45 In Silico Models to Understand Cancer Pathways and Molecular Treatment Responses
Ö. Osmanoglu¹; J. Hund¹; M. Fuchs¹; G. Dandekar¹; M. Kunz²; T. Dandekar¹; ¹ Julius-Maximilians-Universität Würzburg/D; ² Friedrich-
Alexander University of Erlangen-Nürnberg, Erlangen/D
P 46 Predicting Modifiability of Redox-Sensitive Cysteines with Supervised Machine Learning Hidden Markov Models
N. Nover¹; M. Keßler¹; J. Ackermann¹; I. Koch¹; ¹ Goethe Universität Frankfurt am Main/D
P 47 Modeling nucleosome binding using random forests based on periodic sequence structure patterns
M. Sahrhage¹; M. Haubrock¹; N. Weinert¹; T. Beißbarth¹; ¹ University Medical Center Göttingen/D
P 48 On Variant Discovery in the Genomes of Fungal Plant Pathogens
L. Potgieter¹; A. Feurtey¹; J. Dutheil¹; E. Stukenbrock¹; ¹ Max-Planck-Institute for Evolutionary Biology, Plön/D
P 49 A Bioinformatics Analysis Pipeline for the Integrative Functional Understanding of Global Transcriptome Data and its Interplay with
the Interactome
M. Fuchs¹; C. Liang²; S. Stojanovic³; J. Fiedler³; L. Kapsner¹; C. Bogdan⁴; J. Distler⁴; H. Prokosch¹; T. Thum³; M. Kunz¹; ¹ Friedrich
Alexander Universität (FAU), Erlangen/D; ² University of Würzburg/D; ³ Hannover Medical School, Hannover/D; ⁴ Friedrich-Alexander
University (FAU) Erlangen-Nürnberg and Universitätsklinikum Erlangen/D
P 50 An Integrated Bioinformatics Pipeline for the Systematic Calculation of Diagnostic and Prognostic Marker Signatures
N. Dickel¹; L. Kapsner¹; C. Motsebo Fenkam¹; O. Roche-Lancaster²; T. Dandekar²; H. Prokosch¹; M. Kunz¹; ¹ Friedrich-Alexander
University of Erlangen-Nürnberg, Erlangen/D; ² University of Würzburg/D
P 51 Steps towards a virtual lymph node
S. Scharf¹; P. Wurzel¹; J. Ackermann²; M. Hansmann³; I. Koch²; ¹ Frankfurt Institute of Advanced Studies (FIAS) and Goethe University,
Frankfurt am Main/D; ² Goethe Universität Frankfurt am Main/D; ³ Frankfurt Institute of Advanced Studies (FIAS), Frankfurt am Main/D
P 52 Using database queries to detect conspicuous R-R-intervals in electrocardiogram records
N. Gumpfer¹; J. Prim¹; J. Hannig¹; D. Grün²; A. Morgen³; M. Körber³; B. Seeger³; T. Keller²; M. Guckert¹; ¹ Technische Hochschule
Mittelhessen (THM) - University of Applied Sciences, Friedberg/D; ² Justus-Liebig-University Gießen/D; ³ Philipps Universität Marburg/D
P 53 FilterFFPE: An Artifact Chimeric Read Filter to Improve SV Detection in FFPE Samples
L. Wei¹; S. Sandmann¹; M. Dugas¹; ¹ Institute of Medical Informatics, University of Münster/D
P 54 EasyFuse: Highly specific detection of fusion transcripts from RNA-seq data
J. Ibn-Salem¹; ¹ TRON Translational Oncology Mainz/D
P 55 NeoFox: A toolbox to annotate neoantigen candidates with immunogenicity features
F. Lang¹; P. Riesgo Ferreiro¹; M. Löwer¹; B. Schrörs¹; U. Sahin²; ¹ TRON Translational Oncology Mainz/D; ² BioNTech SE, Mainz/D
P 56 Fusion Protein Screening in Archaea
A. Padalko¹; ¹ Univirsity of Vienna/A
P 57 DIGGER: a webtool to explore the functional impact of alternative splicing in protein interactions
Z. Louadi¹; T. Kacprowski¹; M. List¹; ¹ Technical University of Munich, Freising/D
P 58 Explaining decisions of Graph Convolutional Neural Networks: patient-specific molecular subnetworks responsible for metastasis
prediction in breast cancer
H. Chereda¹; A. Bleckmann²; K. Menck²; J. Perera-Bel³; P. Stegmaier⁴; F. Auer⁵; F. Kramer⁵; A. Leha¹; T. Beißbarth¹; ¹ University Medical
Center Göttingen/D; ² University Medical Center Münster/D; ³ Hospital del Mar Medical Research Institute (IMIM) Barcelona/E;
⁴ geneXplain GmbH, Wolfenbüttel/D; ⁵ University of Augsburg/D
P 59 Graph-based visualization of structural topologies of MD simulation data
I. Nurhassen¹; J. Wolf¹; J. Ackermann¹; O. Haapanen²; V. Sharma²; I. Koch¹; ¹ Goethe Universität Frankfurt am Main/D; ² University of
Helsinki/FIN
13g c b 2 02 0 | g er m a n co n f er en c e o n b i o i n f o r m at i c s | 14 – 17 s ep t e m b er
poster
P 60 Deconvolution of data from transcriptome analysis of pancreatic cancer samples makes it possible to assess the molecular
biological picture of the tumor.
A. Kakoichankava¹; ¹ VSMU, Vitebsk/BY
P 61 Allelic, haplotypic frequencies, and LD comparisons between Arlequin v. 3.5 and PyPop v. 0.7 from population sample data
L. Barreto Cabral¹; P. de Souza Mendonça-Mattos¹; ¹ Federal University of Pará, Belém/BR
P 62 EpiRegio: Analysis and retrieval of regulatory elements linked to gene
N. Baumgarten¹; D. Hecker¹; S. Karunanithi¹; F. Schmidt²; M. List³; M. Schulz¹; ¹ Goethe Universität Frankfurt am Main/D; ² Genome
Institute of Singapore (GIS), A*Star, Singapore/SGP; ³ Technical University of Munich/D
P 63 Automated pipeline to perform GWAS and PRS analysis with cluster support
R. Reščenko¹; R. Pečulis¹; J. Kloviņš¹; ¹ University of Latvia
14Engineering the Future
19 – 23 September 2021 · City Cube Berlin · Germany
ECCE 13 & ECAB 6
13th European Congress of Chemical Engineering
6th European Congress of Applied Biotechnology
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13th European Congress of 6th European Congress of Exhibition and Sponsoring
Chemical Engineering Applied Biotechnology Barbara»Feisst
Matthias»Neumann Silke»Rumpf +49»69»7564»333
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