C3-Konferenzzeitplan – German Conference on Bioinformatics (GCB) 2021

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German Conference on Bioinformatics (GCB) 2021

Monday – 09-06-2021

08:40

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Opening and Keynote Session

Chair(s) Dr. Jan Grau (Martin Luther University Halle-Wittenberg)

Room: virtual room

Topic: Bioinformatics

Form of presentation: Lecture

Duration: 75 Minutes

08:40

Opening

Prof. Dr. Ivo Grosse (Martin Luther University Halle-Wittenberg)

08:50

Welcome Address

Prof. Dr. Christian Tietje - Rector of Martin Luther University Halle-Wittenberg

09:00

Computational challenges in single cell regulatory genomics

Prof. Dr. Uwe Ohler | Max Delbrück Center for Molecular Medicine | Germany

09:40

Discussion

10:00

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Machine Learning

Chair(s) Prof. Dr. Dominik Heider (Philipps-Universität Marburg)

Room: virtual room

Topic: Bioinformatics

Form of presentation: Lecture

Duration: 55 Minutes

10:00

Tailored Machine Learning Model training for functional RNA detection

Christopher Klapproth | Leipzig University | Germany

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10:25

Prediction of non-covalent protein-ligand interactions using an interpretable machine learning model

Mirko Weber | University of Applied Sciences Mittweida | Germany

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10:40

Discussion

11:00

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Machine Learning

Chair(s) Prof. Dr. Klaus Jung (Tierärztliche Hochschule Hannover)

Room: virtual room

Topic: Bioinformatics

Form of presentation: Lecture

Duration: 55 Minutes

11:00

Deep Learning Improves Pancreatic Cancer Diagnosis Using RNA-Based Variants

Ali Al-Fatlawi | TU Dresden | Germany

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11:25

The impact of negative data sampling on antimicrobial peptide prediction

Dr. Michal Burdukiewicz | Medical University of Białystok | Poland

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11:40

Discussion

13:00

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Poster programme (during the whole conference)

Room: Poster

Topic: Bioinformatics

Form of presentation: Poster

Duration: 90 Minutes

Session 1

P 01: Pathway enrichment, machine learning and causal reasoning analysis to deconvolute potential targets of a small-molecule tau aggregation inhibitor

Layla Hosseini-Gerami | University of Cambridge | United Kingdom

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P 02: Selection of important and related variables utilizing surrogate variables in random forests

Junior professor Stephan Seifert | Hamburg School of Food Science, Universität Hamburg | Germany

P 03: Comparison of change point-detection algorithms for short time series of clustered gene expression data

Miriam Sieg | Charité - Universitätsmedizin Berlin | Germany

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P 04: A global survey of specialized metabolic diversity encoded in bacterial genomes

Athina Gavriilidou | Eberhard Karls University of Tübingen | Germany

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P 05: Automated prediction of modules and assembly of respiratory complex I using graphs of topology of protein structures

Jan Niclas Wolf | Goethe-University | Germany

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P 06: Comparative genomics of proteins involved in the electrical generation of prokaryotes and archaea

Anastasiia Tsareva | ITMO University | Russian Federation

P 07: Investigation of transcription factor co-occurrence reveals protein complexes regulating gene expression

Mette Bentsen | Max Planck Institute for Heart and Lung Research | Germany

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P 08: De novo generation of binding motifs for unknown transcription factors from ATAC-seq data

Hendrik Schultheis | Max-Planck-Institute for Heart and Lung Research | Germany

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P 09: Network Analysis to Improve Tumor Mutational Signature Identification

Dr. Sadegh Sulaimany | University of Kurdistan | Iran, Islamic Republic of

P 10: Virtual lymph node: A Petri net model of the adaptive immune response

Sonja Scharf | Frankfurt Institute of Advanced Studies (FIAS) and Goethe University | Germany

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P 11: Design of an optimal COVID-19 surveillance protocol for child care facilities using an infection spread model

Paul Rudolph | Leibniz Institute for Natural Product Research and Infection Biology - Hans Knöll Institute, Jena, Germany | Germany

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P 13: Whole-genome comparison of Aspergillus fumigatus environmental and clinical isolates reveals triazole resistance-related genes

Tongta Sae-Ong | Hans Knöll Institute (HKI) | Germany

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P 14: From data deposition to visualising variants - how FAIR principles are facilitating flow between plant genomics resources

Bruno Contreras Moreira | European Bioinformatics Institute (EMBL-EBI) | United Kingdom

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P 15: Pathogenic potential prediction of novel fungal DNA based on a newly curated fungi-host database

Ferdous Nasri | Hasso Plattner Institute, Digital Engineering Faculty, University of Potsdam, 14482 Potsdam and Department of Mathematics and Computer Science, Free University of Berlin, 14195 Berlin | Germany

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P 16: DivBrowse - a web application for interactive visualization and analysis of SNP matrices

Patrick König | Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) | Germany

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P 17: Lipoxygenases could facilitate pathogen host jumps between plants and humans

Georgy Kurakin | Tver State Medical University | Russian Federation

P 18: tidysq — tidy and efficient storage and processing of biological sequences

Mateusz Bąkała | Warsaw University of Technology | Poland
Dominik Rafacz | Warsaw University of Technology | Poland

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P 19: DeePSIVal: Decoy-free peptide spectrum match validation using a deep learning approach

Kay Schallert | Otto-von-Guericke University Magdeburg | Germany

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P 20: Local DNA shape is a general principle of transcription factor binding specificity in Arabidopsis thaliana

Janik Sielemann | Bielefeld University | Germany

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P 21: Transcriptomics to characterize the role of chromatin modifiers and transcription factors in multicellular development of fungi

Dr. Minou Nowrousian | Ruhr-University Bochum | Germany

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P 22: Evaluating Tools for Automatic Reconstruction of Clonal Evolution

Sarah Sandmann | Westfälische Wilhelms-Universität Münster, Institut für Medizinische Informatik | Germany

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P 23: Systems biology modelling in Cystic Fibrosis to predict possible drug targets and active compound combinations

Liza Vinhoven | University Medical Center Göttingen | Germany

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P24: PepGM: A probabilistic graphical model for taxonomic profiling of viral proteomes

Tanja Holstein | Bundesanstalt für Materialforschung - und Prüfung | Germany

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P25: Molecular identification and phylogenetic analysis using COI gene of non-penaeid shrimps from Mumbai, India.

Dr. RUPINDER KAUR | MUMBAI UNIVERSITY | India

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P26: InterCellar empowers lab-scientists in the downstream analysis of cell-cell communication from single-cell transcriptomics

Marta Interlandi | University of Münster | Germany

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P27: Explainable modular Neural Network architecture to predict important pathways based on simulated expression dat

Jan Oldenburg | Institute of Bioinformatics, University Medicine Greifswald | Germany

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P28: Bioinformatics analysis of periodicity in proteins with coiled-coil structure

Prof. Dr. Stefan Schuster | University of Jena | Germany

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P29: Statistical analysis of ‘stop-stop’ ORFs in eukaryotes

Valentin Wesp | Friedrich-Schiller Universität Jena | Germany

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14:30

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Structures & Images

Chair(s) Prof. Dr. Axel Mosig (Ruhr-Universität Bochum)

Room: virtual room

Topic: Bioinformatics

Form of presentation: Lecture

Duration: 55 Minutes

14:30

Prediction of quadruplex secondary structure topologies by means of sequence mutual information functions and interpretable machine learning models

Julia Abel | Hochschule Mittweida - University of Applied Sciences | Germany

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14:45

3D investigations of the pathomic profiles of human macrophages in lymph nodes reveal typical diagnostic supersets

Patrick Wurzel | Frankfurt Institute for Advanced Studies (FIAS) and Goethe University | Germany

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15:10

Discussion

15:30

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Image Analysis

Chair(s) Prof. Dr. Knut Reinert (Freie Universität Berlin)

Room: virtual room

Topic: Bioinformatics

Form of presentation: Lecture

Duration: 55 Minutes

15:30

A deep learning-based all-in-one image analysis tool for cell quantification: Proof-of-concept using confocal images of immunostained cells on ECMO membranes

Dr. Zeliha Görmez | Technische Hochschule Bingen | Germany

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15:45

Bioimage analysis with deep learning for everyone: Visual programming in JIPipe

Ruman Gerst | Leibniz Institute for Natural Product Research and Infection Biology – Hans Knöll Institute (HKI) | Germany
Jan-Philipp Praetorius | Leibniz Institute for Natural Product Research and Infection Biology – Hans Knöll Institute (HKI) | Germany

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16:00

INDUSTRY: APEER: A cloud-based digital microscopy platform to create image processing workflows.

Dr. Bernhard Fichtl | Carl Zeiss Microscopy | Germany

16:15

Discussion

16:30