Latest project: 4D Controls-based denoising
Project: Institution: Nuclear Medicine and Molecular Imaging, Tuebingen, Research Topics: Medical imaging, MRI, Applied mathematics
This is the latest project for which the PI has agreed to publish the data on this page. The project shown here is therefore not necessarily the most recent project for which the project application has been approved.
All projects
Computational Psychiatry
Project: Principal Investigator: Tobias Kaufmann, Institution: Department of Psychiatry and Psychotherapy, University of Tübingen, Research Topics: Computational biology, Medical imaging, Genetics, Neurobiology, Psychiatry
HTS of Xcc mutant strains using CellProfiler
Project: Research Topics: Imaging, Microbiology
Extending cross-linking mass spectrometry with cleavable cross-linkers
Project: Research Topics: Protein interactions, Proteomics, Protein structure analysis
Bioimage.io Model Zoo
Project: Principal Investigator: Florian Jug, Institution: CSBD/MPI-CBG Dresden, Workgroup: Jug Lab, Lifetime: 12 months, Research Topics: Cell biology, Bioinformatics, Bioimaging, Machine learning
Resources: Project type: Openstack, Number of possible VMs: 2, Total number of cores: 64, Total amount of RAM: 256 GB, Amount of Object Storage: 50 GB
Machine Learning for Protein Identification
Project: Research Topics: Proteomics, Machine learning
Determination of the conformational loop flexibility of strongly neutralizing COV-2 antibody fragments.
Project: Research Topics: Protein interactions, Protein structure analysis, Structure prediction, Molecular dynamics
Machine Learning for Antibiiotic Resistance 2
Project: Research Topics: Bioinformatics, Machine learning
RNA-RNA interaction prediction evaluation
Project: Research Topics: Nucleic acid structure analysis
Identification of causative variants in patients with genetically unclassified severe congenital neutropenia
Project: Principal Investigator: Maksim Klimiankou, Institution: University Hospital Tuebingen, Workgroup: Internal Medicine II, Division of Translational Oncology, Lifetime: 12 months, Research Topics: Sequencing, Molecular genetics
Resources: Project type: Openstack, Number of possible VMs: 1, Total number of cores: 32, Total amount of RAM: 256 GB, Amount of Object Storage: 0 GB
WebDECIMER
Project: Principal Investigator: Christoph Steinbeck, Institution: Friedrich-Schiller University Jena, Workgroup: Steinbeck group, Lifetime: 12 months, Research Topics: Small molecules, Literature analysis, Literature data resources
Resources: Project type: Openstack, Number of possible VMs: 1, Total number of cores: 16, Total amount of RAM: 64 GB, Amount of Object Storage: 10 GB
Automated Analysis of Microscopy Images Using Deep Learning
Project: Principal Investigator: Rohr Karl, Institution: BioQuant Center and IPMB, Heidelberg University, Workgroup: Biomedical Computer Vision Group, Research Topics: Cell biology, Biomedical science, Bioimaging, Light microscopy, Machine learning
de.NBI Training Event: "The Linux Command Line: From Basic Commands to Shell Scripting"
Project: Institution: University Medical Center Hamburg-Eppendorf, Workgroup: Bioinformatics Core, Research Topics: Computational biology, Bioinformatics, Computer science
Diatom Virtual Slide Storage
Project: Research Topics: Ecology, Taxonomy, Bioimaging, Light microscopy, Machine learning, Freshwater biology
Bellman's GAP for deep learning
Project: Principal Investigator: Stefan Janssen, Institution: Justus-Liebig-University Gießen, Germany, Workgroup: Algorithmic Bioinformatics, Lifetime: 12 months, Research Topics: Computer science
Resources: Project type: Simple Vm, Number of possible VMs: 2, Total number of cores: 24, Total amount of RAM: 80 GB, Amount of Object Storage: 0 GB
RNAProNet - Infer regulatory behavior from RNA protein binding events
Project: Principal Investigator: Rolf Backofen, Institution: Freiburg University, Workgroup: Chair for Bioinformatics, Lifetime: 12 months, Research Topics: Protein interactions, High-throughput sequencing, Machine learning
Resources: Project type: Simple Vm, Number of possible VMs: 1, Total number of cores: 16, Total amount of RAM: 64 GB, Amount of Object Storage: 0 GB
ECF Hub - An interactive database for ECF sigma factors
Project: Principal Investigator: Alexander Goesmann, Institution: Professur für Systembiologie, Workgroup: Professur für Systembiologie, Lifetime: 12 months, Research Topics: Biological databases, Protein databases, Synthetic biology
Resources: Project type: Openstack, Number of possible VMs: 3, Total number of cores: 24, Total amount of RAM: 48 GB, Amount of Object Storage: 750 GB
EMIC sequencing pipeline
Project: Research Topics: Sequence analysis, Microbial ecology, Environmental science
Evaluation of genome assembly tools for Triticeae
Project: Principal Investigator: HARMEET SINGH CHAWLA, Institution: Helmholtz Centre Munich, Workgroup: Plant Genome and System Biology, Lifetime: 6 months, Research Topics: Plant biology, Whole genome sequencing
Resources: Project type: Openstack, Number of possible VMs: 1, Total number of cores: 64, Total amount of RAM: 3000 GB, Amount of Object Storage: 0 GB
Cis-regulatory atlas of Brassica napus
Project: Research Topics: Gene expression, Genetic variation, Genomics, Bioinformatics, Gene regulation, Plant biology, DNA structural variation
SIMBA Metagenome Training Course
Project: Principal Investigator: Alexander Sczyrba, Institution: Center for Biotechnology, Bielefeld University, Workgroup: Computational Metagenomics, Lifetime: 3 months, Research Topics: Sequence analysis, Metagenomics
Resources: Project type: Simple Vm, Number of possible VMs: 30, Total number of cores: 480, Total amount of RAM: 960 GB, Amount of Object Storage: 0 GB
SFB1324 - Data Exchange and Collaborative Analysis
Project: Research Topics: Sequence analysis, Protein structure analysis, Cell biology, Imaging, Functional genomics, Signaling pathways
VascuShare: a vascular imaging data repository
Project: Principal Investigator: Kyle Harrington, Institution: Max Delbrueck Center for Molecular Medicine, Berlin, Research Topics: Imaging, Bioinformatics, Bioimaging
Applying - Helixer, Gene Structural Prediction with Deep Learning
Project: Principal Investigator: Andreas Weber, Institution: Heinrich Heine University, Workgroup: Institute of Plant Biochemistry, Lifetime: 10 months, Research Topics: Sequence analysis, Gene structure, Machine learning
Resources: Project type: Openstack, Number of possible VMs: 3, Total number of cores: 60, Total amount of RAM: 384 GB, Amount of Object Storage: 1000 GB
Covalent and kinetic trapping repair machinery for structural and functional studies
Project: Research Topics: Protein interactions, Protein structure analysis, Enzymes, Nucleic acids
ChIP-seq / ATAC-seq workshop
Project: Principal Investigator: Herrmann Carl, Institution: Medical Faculty Heidelberg, Workgroup: HDSU, Lifetime: 15 months, Research Topics: Computational biology
Resources: Project type: Simple Vm, Number of possible VMs: 2, Total number of cores: 64, Total amount of RAM: 512 GB, Amount of Object Storage: 0 GB
Decoding Context-Dependent Genetic Networks in vivo
Project: Principal Investigator: Stegle Oliver, Institution: University of Heidelberg / EMBL / DKFZ, Workgroup: ERC Decode Project, Research Topics: Computational biology
Resources: Project type: Openstack
de.NBI - CeBiTec Nanopore Workshop - Best Practice and SARS-CoV-2 applications
Project: Principal Investigator: Alexander Sczyrba, Institution: Center for Biotechnology - Bielefeld University, Workgroup: BiGi, Lifetime: 3 months, Research Topics: Sequence analysis, Sequencing, Sequence assembly, Virology
Resources: Project type: Simple Vm, Number of possible VMs: 22, Total number of cores: 352, Total amount of RAM: 704 GB, Amount of Object Storage: 0 GB
Using machine learning approaches to predict antimicrobial resistance from bacterial genome sequences
Project: Principal Investigator: Oliver Kohlbacher, Institution: Bioinformatics, Tubingen, Lifetime: 9 months, Research Topics: Pathogens, Machine learning
Resources: Project type: Simple Vm
Alignment- and reference-free Phylogenomics
Project: Principal Investigator: Jens Stoye, Institution: Center for Biotechnology / Faculty of Technology, Bielefeld University, Workgroup: Genome Informatics, Lifetime: 12 months, Research Topics: Sequence analysis, Phylogeny
Resources: Project type: Simple Vm, Number of possible VMs: 1, Total number of cores: 32, Total amount of RAM: 1024 GB, Amount of Object Storage: 0 GB
Integrative analysis of common and rare high-impact variants for a more comprehensive genetic risk assessment.
HuMAGs - exploring how microbes co-exist in human microbiomes
Project: Principal Investigator: Ulisses Nunes da Rocha, Institution: Helmholtz Centre for Environmental Research, Workgroup: Microbia Data Science, Lifetime: 10 months, Research Topics: Sequence analysis, Computational biology, Function analysis, Biological databases, Phylogenomics, Metagenomics, Microbiology, Human disease, Microbial ecology
Resources: Project type: Openstack, Number of possible VMs: 13, Total number of cores: 320, Total amount of RAM: 3072 GB, Amount of Object Storage: 0 GB
Cloud User Meeting 2020
Project: Principal Investigator: Alexander Sczyrba, Institution: Center for Biotechnology (CeBiTec), Bielefeld, Research Topics: Bioinformatics
Resources: Project type: Openstack, Number of possible VMs: 100, Total number of cores: 650, Total amount of RAM: 1300 GB, Amount of Object Storage: 100 GB
Using NLP-Networks (Transformers) for human genome data
Project: Institution: University of Bielefeld, Research Topics: Computational biology, Bioinformatics, Biomedical science, Sequence classification
Meet-U 4EU+ Teaching project
Project: Principal Investigator: Herrmann Carl, Research Topics: Computational biology
SIRIUS back end
Project: Institution: Friedrich-Schiller-University Jena, Workgroup: Chair of Bioinformatics, Research Topics: Metabolites, Computer science, Mass spectrometry, Metabolomics, Computational chemistry
Resources: Project type: Openstack
Sequence-based prediction of Translational Efficiency
Project: Principal Investigator: Pascal Falter-Braun, Institution: Institute of Network Biology, Workgroup: Network Biology, Research Topics: Sequence analysis, Protein interactions, Computational biology
SDC BioDATEN
Project: Research Topics: Ontology and terminology, Computational biology, Database management
Generation of Mass Spectrometry Decoy Spectra with Adversarial Autoencoders
Project: Research Topics: Proteomics, Mass spectrometry
CovRadar: a web application for SARS-CoV-2 molecular surveillance
Project: Principal Investigator: Stephan Fuchs, Institution: Robert Koch Institut, Workgroup: Methodology and Research Infrastructure - MF1: Bioinformatics, Lifetime: 12 months, Research Topics: Sequence analysis, Data visualisation, Bioinformatics, Virology, Protein variants, Public health and epidemiology
Resources: Project type: Openstack, Number of possible VMs: 7, Total number of cores: 180, Total amount of RAM: 360 GB, Amount of Object Storage: 0 GB
Innovative benchmarking approaches to improve Computational Methods for big data analysis in Health.
Project: Principal Investigator: Herrmann Carl, Institution: Heidelberg University, Workgroup: Health Data Science Unit, Medical Faculty, Research Topics: Computational biology, Genomics, Gene regulation, Oncology
Proteomics of the Springtail Folsomia Candida
Project: Principal Investigator: Oliver Kohlbacher, Institution: Dept. of Computer Science, University of Tübingen, Workgroup: Applied Bioinformatics, Research Topics: Proteomics, Protein expression
Modeling and simulation of multicellular processes during tissue morphogenesis
Project: Principal Investigator: Lutz Brusch, Institution: Technische Universität Dresden, Workgroup: Center for Information Services and High Performance Computing, Research Topics: Computational biology, Personalised medicine
Ganon in the 2 nd round of the CAMI II challenge
Project: Research Topics: Sequence analysis, Metagenomics
Myzel - Medical Cloud Platform
Project: Principal Investigator: Maier-Hein Klaus, Institution: Deutsches Krebsforschungszentrum, Workgroup: Medical Image Computing, Lifetime: 12 months, Research Topics: Medical imaging, Natural language processing
Resources: Project type: Openstack, Number of possible VMs: 2, Total number of cores: 60, Total amount of RAM: 384 GB, Amount of Object Storage: 0 GB
Wheat Structural Variant Calling
Project: Research Topics: Structure analysis, Genetic variation
A R Shiny based web server for performing BLAST queries on novel SARS-CoV2 sequences
Project: Principal Investigator: Herrmann Carl, Institution: Heidelberg University, Workgroup: Health Data Science Unit, Research Topics: Sequence analysis, Infectious disease
kmer based spa typing
Project: Principal Investigator: Gunnar W. Klau, Institution: Heinrich-Heine-Universität Düsseldorf, Workgroup: Algorithmische Bioinformatik, Lifetime: 3 months
Resources: Project type: Simple Vm, Number of possible VMs: 1, Total number of cores: 32, Total amount of RAM: 256 GB, Amount of Object Storage: 0 GB
Biohackathon Coivd19
Project: Principal Investigator: Alexander Sczyrba, Institution: Center for Biotechnology, Bielefeld University, Germany, Workgroup: Computational Metagenomics, Lifetime: 6 months
Resources: Project type: Openstack, Number of possible VMs: 3, Total number of cores: 96, Total amount of RAM: 192 GB, Amount of Object Storage: 0 GB
denbivsvirus Bielefeld
Project: Principal Investigator: Alexander Sczyrba, Institution: Center for Biotechnology, Bielefeld University, Workgroup: Computational Metagenomics, Lifetime: 15 months
Resources: Project type: Openstack, Number of possible VMs: 15, Total number of cores: 190, Total amount of RAM: 700 GB, Amount of Object Storage: 500 GB
WirVsVirus Hackathon der Bundesregierung
Project: Principal Investigator: Alexander Sczyrba, Institution: Center for Biotechnology, Bielefeld University, Workgroup: Computational Metagenomics
Resources: Project type: Openstack
Benchmarking proteomics nextflow workflows on PRIDE data
Project: Principal Investigator: Oliver Kohlbacher, Institution: University of Tübingen, Workgroup: Applied Bioinformatics
Performance improvements of DNA methylome deconvolution software MeDeCom
visualization webtool for deep learning features
de.NBI Training
Project: Principal Investigator: Malik Alawi, Institution: University Medical Center Hamburg-Eppendorf, Workgroup: Bioinformatics Core
Petasearch Database Creation
Gene Structural Prediction with Deep Learning
Project: Principal Investigator: Andreas Weber, Institution: Heinrich Heine University, Workgroup: Plant Biochemistry
Resources: Project type: Openstack
Understanding gluten related disorders at the molecular level
Project: Principal Investigator: Veronica Dodero
Rheuma.Vor.Transcriptomics
Project: Principal Investigator: Schwarting Andreas, Institution: Universitätsmedizin der Johannes Gutenberg Universität Mainz, Workgroup: Ambulanz für Rheumatologie,
Resources: Project type: Simple Vm
metagenomic analysis of human infant fecal sample
Project: Principal Investigator: Daniel Huson, Institution: University of tuebingen, Workgroup: algorithm in bioinformatics, Lifetime: 24 months
Resources: Project type: Openstack, Number of possible VMs: 4, Total number of cores: 128, Total amount of RAM: 1024 GB, Amount of Object Storage: 150 GB
Elucidating the origin of planktonic foraminifera
Project: Principal Investigator: Michal Kucera, Institution: MARUM & Fachbereich Geowissenschaften, Workgroup: Micropaleontology, Lifetime: 18 months
Resources: Number of possible VMs: 10, Total number of cores: 320, Total amount of RAM: 2560 GB, Amount of Object Storage: 0 GB
Type Strain Genome Server (TYGS)
Project: Principal Investigator: Markus Göker, Institution: Leibniz Institute DSMZ, Braunschweig, Workgroup: Phylogenomics (Department of Bioinformatics)
Resources: Project type: Openstack
Bioschemas knowledge graph - BH2019Europe
GCB 2019 Cloud Tutorial
Project: Principal Investigator: Alexander Sczyrba, Institution: Center for Biotechnology, Bielefeld University, Workgroup: de.NBI Cloud Team, Lifetime: 1 months
Resources: Project type: Openstack, Number of possible VMs: 60, Total number of cores: 1680, Total amount of RAM: 3840 GB, Amount of Object Storage: 1000 GB
Sustainable Innovation of Microbiome Applications in the Food System
Project: Principal Investigator: Alexander Sczyrba, Institution: Bielefeld University, Center for Biotechnology, Workgroup: Computational Metagenomics
Resources: Project type: Openstack
