Projects

Functional Microbiome Research Practical 2025

• Project Information
• Principal Investigator: Daniel Thomas
• Workgroup: Chair of Ecological Microbiology
• Project Type: Simple Vm
• Project Lifetime: 4
• Research Topics: Metagenomics

• Resources
• Available virtual machines: 1
• Total RAM: 120 GB
• Total VCPU Cores: 14 GB
• Number of Volumes: 1
• Amount of volume storage: 1000 GB

Course on computational analysis of differentially expressed genes

• Project Information
• Principal Investigator: Nadia Kamal
• Workgroup: Computational Plant Biology
• Project Type: Openstack
• Project Lifetime: 5

• Resources
• Available virtual machines: 4
• Total RAM: 2048 GB
• Total VCPU Cores: 128 GB
• Number of Volumes: 4
• Amount of volume storage: 65 GB
• Amount of Object Storage: 15

Jupyter4NFDI

• Project Information
• Research Topics: Data visualisation Data submission, annotation and curation

Continual Multiple Instance Learning for Hematologic Disease Diagnosis

Comparative microbial genomics of a human and environmental bacterium

• Project Information
• Principal Investigator: Melanie Schirmer
• Workgroup: Translational Microbiome Data Integration
• Project Type: Simple Vm
• Project Lifetime: 4

• Resources
• Available virtual machines: 15
• Total RAM: 1920 GB
• Total VCPU Cores: 210 GB
• Number of Volumes: 15
• Amount of volume storage: 30000 GB

Data Carpentry Workshop for Genomics - Prototyp

scaling downstream single cell analysis

• Project Information
• Principal Investigator: Nicolas Casadei
• Workgroup: Core facility of Genomics
• Project Type: Simple Vm
• Research Topics: RNA-Seq

• Resources
• Available virtual machines: 3
• Total RAM: 96 GB
• Total VCPU Cores: 48 GB
• Number of Volumes: 2
• Amount of volume storage: 1000 GB

SKILL - Semantic Knowledge Inference in Life Sciences with Language models

Computational Methods for Antimicrobial Peptide Design and Optimization

GSCN workshop 2024

Metabolite profiling of medicinal plant extracts from Cameroon

• Project Information
• Principal Investigator: Norbert Sewald
• Workgroup: Organic and Bioorganic Chemistry - OC3
• Project Type: Simple Vm
• Project Lifetime: 6

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 32 GB
• Number of Volumes: 1
• Amount of volume storage: 2024 GB

RNA sequencing analysis of cardiac hypertrophy using Galaxy

Assessing the capabilities of gene network foundation models

PATH2XNAT

• Project Information
• Research Topics: Computational biology

ONTbasecalling

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 6
• Research Topics: Sequence analysis Genomics

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 14 GB
• Number of Volumes: 1
• Amount of volume storage: 5000 GB

Designing Binders for plant proteins

• Project Information
• Principal Investigator: Steffen Neumann
• Project Type: Simple Vm
• Project Lifetime: 4
• Research Topics: Plant biology

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 14 GB
• Number of Volumes: 1
• Amount of volume storage: 100 GB

crossNN: an explainable framework for cross-platform DNA methylation-based classification of cancer

Computing skills for reproducible research - Software Carpentry 2025

• Project Information
• Research Topics: Bioinformatics Data visualisation Software engineering Workflows

LinuxIntro

• Project Information
• Research Topics: Bioinformatics

Synthesizability assessment of AI-generated molecules

• Project Information
• Principal Investigator: Alexander Schönhuth
• Workgroup: Genome Data Science

PlantGeneDuplications

• Project Information
• Research Topics: Sequence analysis Phylogenetics Gene expression

Phylogenetic analysis of Chaang fermentation microbes

Genotyping on whole genome sequencing data of Plasmodium falciparum

• Project Information
• Workgroup: Clinical parsitology

scRNA seq analysis pipeline for mesenchymal stem cell data

• Project Information
• Research Topics: RNA-Seq

Geogenomic Archaeology Campus Tuebingen Explorer

WisPerMed Search Engine for Biomedical literature retrieval

Bounding causal effects with respect to graph misspecification

• Project Information
• Principal Investigator: Niki Kilbertus
• Research Topics: Computational biology

CRC1371 - Microbiome Signatures

Benchmarking single cell library preparation

• Project Information
• Research Topics: Cell biology

Web Applications for Bioinformatics Pipelines in Protein-Protein Interactions

• Project Information
• Principal Investigator: Oliver Kohlbacher
• Workgroup: Protein Evolution Department and Applied Bioinformatics Group

InteractOA - Showcasing the representation of knowledge from scientific literature in Wikidata

• Project Information
• Principal Investigator: Konrad U. Förstner
• Project Type: Openstack

Mutation rate Assembly and curation in Brassica species

• Project Information
• Research Topics: Sequence analysis Mapping Structural genomics Comparative genomics Whole genome sequencing

Knowledge Graph Infrastructure for the German National Research Data Infrastructure

• Project Information
• Principal Investigator: Konrad U. Förstner
• Project Type: Openstack
• Research Topics: Data integration and warehousing

Human pathogenic fungi metagenome assembled genomes from compost

VRE-Auto-Deploy

• Project Information
• Principal Investigator: Petra Ritter
• Workgroup: Brain Simulation Section / AG Ritter
• Affiliations: Horizon 2020

An open database on thermodynamics of enzyme-catalyzed reactions v1

• Project Information
• Project Type: Openstack
• Research Topics: Computational biology Database management Biochemistry Biophysics Data submission, annotation and curation

• Resources
• Available virtual machines: 5
• Total RAM: 20 GB
• Total VCPU Cores: 10 GB
• Number of Volumes: 6
• Amount of volume storage: 100 GB

Big Data Analytics in Life Sciences

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 7
• Research Topics: Whole genome sequencing Genome annotation RNA-Seq Gene expression Phylogenomics Phylogenetics Protein variants

• Resources
• Available virtual machines: 4
• Total RAM: 960 GB
• Total VCPU Cores: 112 GB
• Number of Volumes: 4
• Amount of volume storage: 4000 GB

arunabi-prod

• Project Information
• Principal Investigator: Frank Förster
• Project Type: Openstack
• Project Lifetime: 12
• Research Topics: Data acquisition

• Resources
• Available virtual machines: 10
• Total RAM: 292 GB
• Total VCPU Cores: 134 GB
• Number of Volumes: 30
• Amount of volume storage: 10240 GB
• Amount of Object Storage: 204800

Plant_Annotation_TEs

SPAAM Summer School: Introduction to Ancient Metagenomics

• Project Information
• Workgroup: Microbiome Sciences
• Project Type: Simple Vm
• Project Lifetime: 6

• Resources
• Available virtual machines: 45
• Total RAM: 1440 GB
• Total VCPU Cores: 630 GB
• Number of Volumes: 45
• Amount of volume storage: 4000 GB

Development of viral vector vaccine

• Project Information
• Research Topics: Immunology

Assessing the impact of architectural biases on genetic perturbation modelling

• Project Information
• Research Topics: Gene expression

Deep learning applications in life sciences

• Project Information
• Research Topics: Computational biology

Soil Microbes of the Fichtelgebirge Mountains

• Project Information
• Research Topics: Microbiology

Drug-drug interaction prediction based on the PharMeBINet database

• Project Information
• Research Topics: Computational biology

Feasibility study Integration of bio-acoustic methods for the quantification of biological diversity into forest monitoring

• Project Information
• Principal Investigator: Zoë Hester
• Workgroup: Ecology and forest dynamics
• Research Topics: Biodiversity Software engineering Environmental science Machine learning

Biomarker detection in DNA Methylation assays using graph neural network

• Project Information
• Research Topics: Biomarkers

Vicia faba copy number variant calling

• Project Information
• Research Topics: Genetic variation Structural genomics

Betty

• Project Information
• Research Topics: Simulation experiment

PBBtools

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Openstack
• Project Lifetime: 12
• Research Topics: Sequence analysis

• Resources
• Available virtual machines: 1
• Total RAM: 32 GB
• Total VCPU Cores: 16 GB
• Number of Volumes: 1
• Amount of volume storage: 1000 GB

Multi-Objective Network Generator Of Optimized Single-cell Experiments

• Project Information
• Principal Investigator: Naveed Ishaque
• Workgroup: Computational Oncology
• Project Type: Openstack
• Project Lifetime: 12
• Affiliations: Elixir Project
• Research Topics: Computational biology

• Resources
• Available virtual machines: 1
• Total RAM: 128 GB
• Total VCPU Cores: 32 GB

Bioimage ANalysis Desktop

• Project Information
• Principal Investigator: Jean-Karim Hériché
• Workgroup: Cell Biology and Biophysics Unit and Centre for BioImage Analysis
• Project Type: Openstack
• Research Topics: Imaging Informatics Computational biology Cell biology Developmental biology

• Resources
• Available virtual machines: 33
• Total RAM: 3870 GB
• Total VCPU Cores: 879 GB
• Number of Volumes: 5
• Amount of volume storage: 12000 GB

Bacterial DNA Methylation Motif and Signature Analysis in Human Pathogens

• Project Information
• Principal Investigator: Melanie Schirmer
• Workgroup: Translational Microbiome Data Integration
• Project Type: Simple Vm
• Project Lifetime: 6
• Research Topics: DNA methylation Epigenetics

• Resources
• Available virtual machines: 5
• Total RAM: 320 GB
• Total VCPU Cores: 96 GB
• Number of Volumes: 7
• Amount of volume storage: 8000 GB

MGSE3

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology & Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 15
• Research Topics: Sequence analysis Whole genome sequencing

• Resources
• Available virtual machines: 1
• Total RAM: 480 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 1
• Amount of volume storage: 10000 GB

HORORBAC

• Project Information
• Principal Investigator: Stephan Göttig
• Research Topics: Metagenomics Microbiology Bioinformatics Sequence motifs Metagenomic sequencing

HAAM Summer School 2024

Sequence to Pangenome Graph Alignment Benchmark

• Project Information
• Research Topics: Sequence analysis

STELLA II (Infrastructures for Living Labs)

• Project Information
• Research Topics: Literature and language Ontology and terminology Data visualisation Simulation experiment Machine learning

Cassava Transcriptomics

• Project Information
• Research Topics: Gene transcription Gene expression

Annotation of large plant genomes using different annotation tools

• Project Information
• Research Topics: Phylogeny

Funktionelle Mikrobiomfoschung Praktikum 2023/24

• Project Information
• Principal Investigator: Daniel Thomas
• Workgroup: Chair for Ecological Microbiology (Ömik)
• Project Type: Simple Vm
• Research Topics: Metagenomics

KIRGenotyping

• Project Information
• Research Topics: Sequence analysis

Computational Methods for Single-cell Biology

• Project Information
• Workgroup: Institute of Computational Biology
• Project Type: Openstack

• Resources
• Available virtual machines: 10
• Total RAM: 640 GB
• Total VCPU Cores: 160 GB
• Number of Volumes: 10
• Amount of volume storage: 3000 GB
• Amount of Object Storage: 200

GeneROsity - A web platform for gene regulation information of Gammaproteobacteria

• Project Information
• Principal Investigator: Konrad U. Förstner
• Workgroup: Data Science and Services
• Project Type: Openstack
• Research Topics: Functional, regulatory and non-coding RNA Gene expression Biological databases Sequence analysis

CoryneCoExp

• Project Information
• Research Topics: Gene expression

Post-operative tissue puzzling

• Project Information
• Project Type: Openstack
• Research Topics: Pathology Medical imaging

BreedFides ETL pipeline for data trustee implementation test as OpenStack

• Project Information
• Principal Investigator: Florian Hoedt
• Workgroup: Centre of Information Management
• Research Topics: Data acquisition Bioinformatics

Data Curation of the Porpoise Alert Projekt

Integrative Multimodal Models for Advancing Cancer Pathology and Drug Development

• Project Information
• Research Topics: Computational biology

ELIXIR BioHackathon Project 6 BioModelsML 2023

• Project Information
• Research Topics: Proteomics Molecular interactions, pathways and networks Mass spectrometry Machine learning Natural language processing Bioimaging

• Resources
• Available virtual machines: 7
• Total RAM: 528 GB
• Total VCPU Cores: 108 GB
• Number of Volumes: 3
• Amount of volume storage: 10000 GB

Bioschemas resource index for chem and plants

• Project Information
• Research Topics: Ontology and terminology Plant biology Biochemistry

FUNKI

• Project Information
• Workgroup: Saez-Rodriguez Group
• Research Topics: Computational biology

FAIRification of mass spectral library creation

• Project Information
• Research Topics: Mass spectrometry Metabolomics Lipids

Incorporating RNA 3D motifs into RNA secondary structure prediction

• Project Information
• Principal Investigator: Björn Voß
• Workgroup: RNA Biology & Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 9
• Research Topics: Nucleic acid structure prediction RNA

• Resources
• Available virtual machines: 1
• Total RAM: 256 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 1
• Amount of volume storage: 30 GB

AI-based Methods for Remote Neonatal Monitoring

• Project Information
• Research Topics: Medical imaging

tutorial single cell RNA sequencing analysis

• Project Information
• Principal Investigator: Nicolas Casadei
• Workgroup: genomics core facility
• Project Type: Openstack
• Project Lifetime: 3
• Research Topics: Gene expression

• Resources
• Available virtual machines: 2
• Total RAM: 32 GB
• Total VCPU Cores: 16 GB
• Number of Volumes: 1
• Amount of volume storage: 500 GB

Decoding the individualized excitability of motor cortex for closed-loop TMS-EEG with Deep learning

• Project Information
• Principal Investigator: Ulf Ziemann
• Workgroup: The department of Neurology & Stroke
• Research Topics: Neurology Machine learning

nf-core/taxprofiler: highly parallelised and flexible pipeline for metagenomic taxonomic classification and profiling

• Project Information
• Research Topics: Metagenomics

Modeling cell-fate decisions in Olfactory Sensory Neurons

• Project Information
• Principal Investigator: Antonio Scialdone
• Workgroup: Physics and Data-Based Modelling of Cellular Identity Changes
• Project Type: Simple Vm
• Project Lifetime: 12
• Research Topics: Computational biology

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 14 GB

de.NBI & NFDI4Microbiota Linux Introduction

sORFDB - A database for sORFs, small proteins, and small protein groups in bacteria

• Project Information
• Research Topics: Gene and protein families Biological databases Sequence database search Protein databases Sequence databases

HERMIQS - Heart Emergency Rescue Management IQ System

• Project Information
• Principal Investigator: Michael Guckert
• Workgroup: Cognitive Information Systems
• Project Type: Openstack
• Project Lifetime: 18
• Research Topics: Cardiology Machine learning

• Resources
• Available virtual machines: 2
• Total RAM: 320 GB
• Total VCPU Cores: 60 GB
• Number of Volumes: 6
• Amount of volume storage: 3000 GB

spverse hackathon #1

VictoriaGenomics

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 18
• Research Topics: Whole genome sequencing Genome annotation Gene transcripts Evolutionary biology

• Resources
• Available virtual machines: 1
• Total RAM: 480 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 1
• Amount of volume storage: 30000 GB

Continuous data integrity testing of the SpatialData framework

• Project Information
• Research Topics: Computational biology

Multiscale immunoimaging

• Project Information
• Principal Investigator: Bettina Weigelin
• Workgroup: Multiscale Immunoimaging
• Project Type: Openstack
• Project Lifetime: 24
• Research Topics: Imaging

• Resources
• Available virtual machines: 1
• Total RAM: 16 GB
• Total VCPU Cores: 8 GB
• Number of Volumes: 1
• Amount of volume storage: 122880 GB

RNASeq Analysis of Murine Intestinal Mucosal Cells (IMCs)

• Project Information
• Principal Investigator: Michael Patrick Menden
• Affiliations: Horizon 2020
• Research Topics: Gene expression Molecular interactions, pathways and networks Gene regulation Signaling pathways Immunology Immunoinformatics Bioinformatics

Scaling Scanpy and scverse projects

• Project Information
• Research Topics: Gene expression Computational biology Software engineering

GRK 2843: Accelerating Crop Genetic Gain

• Project Information
• Research Topics: Sequence analysis Computational biology Plant biology

SPAAM Summer School: Introduction to Ancient Metagenomics

• Project Information
• Research Topics: Metagenomics Bioinformatics

RapeseedColor

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: TU Braunschweig
• Project Type: Simple Vm
• Project Lifetime: 3
• Research Topics: Sequence analysis Phylogeny Sequence sites, features and motifs Gene expression Genetic variation

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 1
• Amount of volume storage: 1000 GB

PBBtools

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Openstack
• Project Lifetime: 12
• Research Topics: Sequence sites, features and motifs Phylogeny Sequence analysis Gene expression

• Resources
• Available virtual machines: 1
• Total RAM: 32 GB
• Total VCPU Cores: 16 GB
• Number of Volumes: 1
• Amount of volume storage: 1000 GB

Service Monitoring KPI Dashboard for NFDI4Biodiversity

• Project Information
• Research Topics: Database management Data visualisation Data acquisition

Prevalence and variability of genetic features from environmental and host-associated microbiomes

• Project Information
• Research Topics: Microbiology Functional genomics Population genetics Environmental science

KIPEs4

• Project Information
• Research Topics: Sequence sites, features and motifs Sequence analysis Phylogeny Gene expression Computational biology Function analysis

Modeling Cell Migration in the Early Mouse Embryo by Integrating scRNA-sequencing and Imaging Data

• Project Information
• Research Topics: Computational biology

Deep learning-based classification of pancreatobiliary differentiated carcinomas in the liver

• Project Information
• Principal Investigator: Cleo-Aron Thias Weis
• Workgroup: Computational Pathology Heidelberg (AG Weis)
• Research Topics: Pathology Light microscopy

THE DARK INTERACTOME

• Project Information
• Research Topics: Protein-nucleic acid interactions

Arabidopsis thaliana transcriptome-phenotype association for gene identification

• Project Information
• Research Topics: Sequence analysis Gene expression Machine learning

Integrated Crop-Livestock-Systems (GreenDairy)

• Project Information
• Research Topics: Environmental science

Protologger: Automating the description and naming of novel prokaryotes

• Project Information
• Research Topics: Metagenomics Taxonomy

SynMYB

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 3
• Research Topics: Sequence sites, features and motifs Sequence analysis Phylogeny Genomics

• Resources
• Available virtual machines: 1
• Total RAM: 16 GB
• Total VCPU Cores: 8 GB
• Number of Volumes: 1
• Amount of volume storage: 200 GB

Autoencoder for DNA data storage

• Project Information
• Principal Investigator: Dominik Heider
• Workgroup: Data Science in der Biomedizin
• Project Lifetime: 9
• Research Topics: Computational biology Sequencing Bioinformatics Computer science Machine learning

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 3
• Amount of volume storage: 30 GB

CassavaGenomics

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 25
• Research Topics: Genomics Sequence assembly Gene expression Mapping

• Resources
• Available virtual machines: 1
• Total RAM: 240 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 1
• Amount of volume storage: 5000 GB

Methylation calling for sugar beet

• Project Information
• Research Topics: Computational biology Mapping Genomics Plant biology DNA methylation Epigenomics

de.NBI / ELIXIR / NFDI SpringSchool 2023

• Project Information
• Research Topics: Data acquisition Cheminformatics

Pathobiome of edible insects

• Project Information
• Principal Investigator: Jörg Wennmann
• Research Topics: Metagenomics Sequence assembly Genomics

Mutations in kinases

• Project Information
• Principal Investigator: Rob Russell
• Workgroup: AG-Russell
• Project Type: Simple Vm
• Project Lifetime: 6
• Research Topics: Computational biology

• Resources
• Available virtual machines: 2
• Total RAM: 128 GB
• Total VCPU Cores: 48 GB
• Number of Volumes: 2
• Amount of volume storage: 2048 GB

The GHGA workflow test environment

• Project Information
• Research Topics: Genomics Bioinformatics Workflows High-throughput sequencing

Genome sequence assembly of Urtica dioica

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 24
• Research Topics: Sequence analysis Whole genome sequencing Sequence assembly Genome annotation Sequence annotation

• Resources
• Available virtual machines: 1
• Total RAM: 256 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 1
• Amount of volume storage: 3000 GB

Functional Microbiome Research Practicum UniBayreuth Oemik

• Project Information
• Workgroup: Chair of Ecological Microbiology (Ömik)
• Research Topics: Microbiology Genomics

improving autoencoders for denoising single-cell RNA-Seq data

• Project Information
• Principal Investigator: Simon Anders
• Workgroup: Statistical tools for omics data (AG Anders)
• Research Topics: Omics

EASI-Genomics Cloud

• Project Information
• Research Topics: Omics

ProteinFunction2Vec

• Project Information
• Principal Investigator: Leyla Jael Garcia Castro
• Workgroup: Semantic Technologies team
• Project Type: Openstack
• Project Lifetime: 6
• Research Topics: Ontology and terminology Literature and language Biological databases Natural language processing Protein properties Alignment

• Resources
• Available virtual machines: 1
• Total RAM: 480 GB
• Total VCPU Cores: 28 GB
• Number of Volumes: 3
• Amount of volume storage: 2000 GB

Genomic surveillance of infectious pathogens in Rhineland-Palatinate

• Project Information
• Research Topics: Sequence analysis Phylogeny Microbiology

Reconstruction of strain-specific metabolic models of Staphylococcus haemolyticus

• Project Information
• Principal Investigator: Andreas Dräger
• Workgroup: Systems Biology
• Research Topics: Systems biology Bioinformatics Genome annotation

OncoLabe

• Project Information
• Principal Investigator: Lutsik Pavlo
• Research Topics: Computational biology

de.NBI Biohackathon - Spatial Transcriptomics

• Project Information
• Principal Investigator: Naveed Ishaque
• Research Topics: Transcription Imaging

TaxonOmics Galaxy server for RADseq and Phylogenomics

• Project Information
• Principal Investigator: Miguel Vences
• Workgroup: Evolutionary Biology
• Project Type: Openstack
• Project Lifetime: 27
• Research Topics: Sequence analysis Phylogeny Phylogenomics Sequence sites, features and motifs

• Resources
• Available virtual machines: 1
• Total RAM: 512 GB
• Total VCPU Cores: 32 GB
• Number of Volumes: 2
• Amount of volume storage: 1000 GB

Models of immunogenic gluten peptides

• Project Information
• Workgroup: Organic and Bioorganic Chemistry, OC III
• Research Topics: Protein interactions Computational biology Protein structure analysis Molecular modelling Structure prediction Molecular dynamics Biochemistry Biophysics Protein disordered structure

6th Differential analysis of quantitative proteomics data using R

• Project Information
• Research Topics: Proteomics Data visualisation Mass spectrometry Statistics and probability

Investigation of the flavonoid biosynthesis in Urtica dioica

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 4
• Research Topics: Gene expression Phylogenomics

• Resources
• Available virtual machines: 1
• Total RAM: 16 GB
• Total VCPU Cores: 8 GB
• Number of Volumes: 1
• Amount of volume storage: 200 GB

GenSurv - NUM Genomic Pathogen Surveillance and Translational Research

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Project Type: Openstack
• Research Topics: Virology Sequence analysis Biological databases

omnideconv benchmarking

• Project Information
• Research Topics: Computational biology Immunology Bioinformatics

Computational Methods for Single-Cell Biology

• Project Information
• Research Topics: Gene expression Small molecules Medical imaging Genomics Statistics and probability Epigenomics Machine learning

MPXRadar: Genomic surveillance of monkeypox

• Project Information
• Principal Investigator: Stephan Fuchs
• Workgroup: MF1 - Bioinformatics Unit
• Project Type: Openstack
• Project Lifetime: 32
• Research Topics: Sequence analysis Database management Genetic variation Data visualisation Bioinformatics

• Resources
• Available virtual machines: 5
• Total RAM: 144 GB
• Total VCPU Cores: 66 GB
• Number of Volumes: 5
• Amount of volume storage: 500 GB
• Amount of Object Storage: 100

Omik Nanopore Basecaller

• Project Information
• Principal Investigator: Tillmann Lueders
• Workgroup: Bayreuth Center of Ecology and Environmental Research, Chair of Ecological Microbiology
• Project Type: Simple Vm
• Project Lifetime: 2
• Research Topics: Sequencing

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 14 GB
• Number of Volumes: 1
• Amount of volume storage: 1000 GB

Kidney Memory

• Project Information
• Research Topics: Computational biology

NFDI4Microbiota Virus Database (VirJen)

• Project Information
• Research Topics: Database management Virology

Kuberntes Cluster for Research Data Commons Applications

• Project Information
• Research Topics: Workflows Data integration and warehousing

Luxembourg-German-Indian Alliance on Neurodegenerative diseases and Therapeutics

• Project Information
• Principal Investigator: Manu Sharma
• Research Topics: Sequence analysis Genomics Genotype and phenotype

LipidCompass - a comprehensive database for quantative lipidomics

• Project Information
• Principal Investigator: Nils Hoffmann
• Project Type: Openstack
• Research Topics: Lipids Molecular interactions, pathways and networks Biological databases Data visualisation Bioinformatics Analytical chemistry

QSM4SENIOR: Ultra-high Field MRI Quantitative Susceptibility Mapping reconstruction of the healthy Brain-aging cohort

• Project Information
• Affiliations: Horizon 2020
• Research Topics: Medical imaging Computer science Biomedical science Neurology

DNAqua.Net - Metabarcoding pipeline

• Project Information
• Research Topics: Ecology Molecular biology

Multi-cloud enabled metagenome workflows (Giessen)

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Research Topics: Metagenomics

Pangenomics Benchmark & Workbench (Server)

• Project Information
• Workgroup: Genome Informatics
• Affiliations: Horizon 2020
• Research Topics: Comparative genomics

Multi-cloud enabled metagenome workflows (Bielefeld)

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Research Topics: Metagenomics

Flavonoid biosynthesis of Urtica dioica

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 9
• Research Topics: Sequence analysis Phylogeny Gene expression

• Resources
• Available virtual machines: 1
• Total RAM: 4 GB
• Total VCPU Cores: 2 GB
• Number of Volumes: 1
• Amount of volume storage: 20 GB

Expression Atlas of Ectocarpus and other brown algae

• Project Information
• Principal Investigator: Susana Coelho
• Research Topics: Gene expression

WGS - pipeline

• Project Information
• Principal Investigator: Andreas Jung
• Workgroup: Jung Lab
• Project Type: Openstack
• Project Lifetime: 18
• Research Topics: Sequence sites, features and motifs

• Resources
• Available virtual machines: 1
• Total RAM: 256 GB
• Total VCPU Cores: 32 GB
• Number of Volumes: 2
• Amount of volume storage: 200 GB
• Amount of Object Storage: 4500

Differential regulation of gene expression through DNA methylation: investigating the molecular link between early life adversit

• Project Information
• Workgroup: Molecular Psychiatry
• Research Topics: Gene expression Molecular interactions, pathways and networks Gene transcription Human biology RNA-Seq DNA methylation Epigenomics Transcriptomics Psychiatry

Database development for PrecisionTox project

• Project Information
• Principal Investigator: Robert Russell
• Workgroup: Russell Group
• Project Type: Openstack
• Project Lifetime: 6
• Affiliations: Horizon 2020
• Research Topics: Toxicology

• Resources
• Available virtual machines: 2
• Total RAM: 16 GB
• Total VCPU Cores: 8 GB
• Number of Volumes: 2
• Amount of volume storage: 1000 GB

SPAAM Summer School: Introduction to Ancient Metagenomics

• Project Information
• Project Type: Simple Vm
• Project Lifetime: 6
• Research Topics: Metagenomics

• Resources
• Available virtual machines: 32
• Total RAM: 1024 GB
• Total VCPU Cores: 448 GB
• Number of Volumes: 34
• Amount of volume storage: 3000 GB

Deploying and exploring omics data sets via web apps from an offline repository via the MAMPOK tool

• Project Information
• Principal Investigator: Mario Looso
• Workgroup: Bioinformatics Core
• Research Topics: Sequence analysis Gene expression Protein expression Computational biology

• Resources
• Available virtual machines: 4
• Total RAM: 1024 GB
• Total VCPU Cores: 112 GB
• Number of Volumes: 3
• Amount of volume storage: 20 GB

OTCgenomics

• Project Information
• Principal Investigator: Matthias Labrenz
• Affiliations: BMBF
• Research Topics: Sequence analysis Microbial ecology

Flower Pigmentation Analysis

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Lifetime: 7
• Research Topics: Sequence analysis Phylogeny Gene expression Genetic variation

• Resources
• Available virtual machines: 1
• Total RAM: 16 GB
• Total VCPU Cores: 8 GB
• Number of Volumes: 1
• Amount of volume storage: 50 GB

DNA-Aeon

• Project Information
• Research Topics: Bioinformatics DNA mutation Machine learning

Large-scale recovery of metagenome-assemble genomes from marine samples

• Project Information
• Principal Investigator: Ulisses Nunes da Rocha
• Project Type: Openstack
• Research Topics: Phylogenomics

• Resources
• Available virtual machines: 18
• Total RAM: 5440 GB
• Total VCPU Cores: 528 GB
• Number of Volumes: 3
• Amount of volume storage: 100 GB

Genomic and Epigenomic Variation in different Riesling Grapevine clones

• Project Information
• Principal Investigator: Kai Peter Voss-Fels
• Workgroup: Rebengenomik
• Project Type: Openstack
• Project Lifetime: 39
• Research Topics: Sequence analysis Phylogeny Mapping Genetic variation Sequence composition, complexity and repeats

• Resources
• Available virtual machines: 10
• Total RAM: 1024 GB
• Total VCPU Cores: 188 GB
• Number of Volumes: 4
• Amount of volume storage: 8000 GB

Risikostratifizierung in der Kardiologie mittels Kuenstlicher Intelligenz

• Project Information
• Principal Investigator: Till Keller
• Workgroup: CardioIQ
• Project Type: Openstack
• Project Lifetime: 36
• Research Topics: Bioinformatics Cardiology Machine learning

RhizoTraits - RhizoMicro

• Project Information
• Principal Investigator: Tillmann Lueders
• Workgroup: Ecological Microbiology
• Affiliations: BMBF
• Research Topics: Sequence analysis Microbial ecology Agricultural science

Volumetries in Moyamoya patients

• Project Information
• Research Topics: Medical imaging

Benchmark of membrane segmentation for Cryo-ET

• Project Information
• Principal Investigator: Tingying Peng
• Workgroup: Helmholtz AI
• Research Topics: Computational biology

• Resources
• Available virtual machines: 3
• Total RAM: 320 GB
• Total VCPU Cores: 76 GB
• Number of Volumes: 3
• Amount of volume storage: 3000 GB

Finding transcription factors in plant genomes

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Lifetime: 14
• Research Topics: Sequence analysis Sequence sites, features and motifs Phylogeny Gene expression Protein folds and structural domains Protein properties

• Resources
• Available virtual machines: 1
• Total RAM: 8 GB
• Total VCPU Cores: 4 GB
• Number of Volumes: 1
• Amount of volume storage: 100 GB

Organellar DNA Detection

• Project Information
• Research Topics: Genomics Genome annotation

Illumination correction for light-sheet microscopy

• Project Information
• Principal Investigator: Tingying Peng
• Workgroup: Helmholtz AI
• Project Type: Openstack
• Project Lifetime: 12
• Research Topics: Bioimaging

• Resources
• Available virtual machines: 2
• Total RAM: 128 GB
• Total VCPU Cores: 32 GB
• Number of Volumes: 2
• Amount of volume storage: 1000 GB

Methylation-based classification of brain tumors using nanopore sequencing (nanoDx): a prospective, multicentric evaluation

• Project Information
• Principal Investigator: Philipp Euskirchen
• Workgroup: Molecular Neuro-Oncology
• Research Topics: Oncology Epigenetics Machine learning

Gluten related disorder under the microscope

• Project Information
• Research Topics: Cell biology Light microscopy Molecular medicine Disease pathways

Theodoxus fluviatilis genomes 2021

• Project Information
• Principal Investigator: Jan-Peter Hildebrandt
• Workgroup: Animal physiology and biochemistry
• Research Topics: Whole genome sequencing

Basecalling for Crop Plant ONT data

• Project Information
• Research Topics: Computational biology Plant biology Comparative genomics Whole genome sequencing Sequence analysis Sequence assembly Epigenetics

Oemik Functional Microbiome Analysis

• Project Information
• Research Topics: Metagenomics Sequence analysis

Omics in Huntington disease

• Project Information
• Workgroup: Experimental Neurology
• Project Lifetime: 12
• Research Topics: Human disease Neurobiology RNA splicing Repeat sequences

• Resources
• Available virtual machines: 2
• Total RAM: 256 GB
• Total VCPU Cores: 64 GB
• Number of Volumes: 3
• Amount of volume storage: 2000 GB

Investigate the mechanism of Pemphigus Vulgaris by omics data analysis and integration

• Project Information
• Principal Investigator: Hauke Busch
• Workgroup: Computational biology
• Project Type: Openstack
• Project Lifetime: 18
• Research Topics: Bioinformatics

• Resources
• Available virtual machines: 1
• Total RAM: 128 GB
• Total VCPU Cores: 16 GB
• Number of Volumes: 2
• Amount of volume storage: 200 GB
• Amount of Object Storage: 200

Genomics assemblies and massive resequencing of birds of prey

• Project Information
• Research Topics: Genomics Phylogenomics Parasitology Vertebrates Microbiology Biodiversity Function analysis Infectious disease

Jupyter Hub

• Project Information
• Principal Investigator: Matthias Schlesner
• Workgroup: Biomedizinische Informatik, Data Mining und Data Analytics
• Project Type: Simple Vm
• Project Lifetime: 43
• Research Topics: Sequence analysis

• Resources
• Available virtual machines: 5
• Total RAM: 320 GB
• Total VCPU Cores: 140 GB
• Number of Volumes: 5
• Amount of volume storage: 2200 GB

cBioPortal server

• Project Information
• Principal Investigator: Matthias Schlesner
• Workgroup: Biomedical Informatics, Data Mining and Data Analytics
• Project Type: Openstack
• Project Lifetime: 12
• Research Topics: Genomics Oncology Transcriptomics

• Resources
• Available virtual machines: 4
• Total RAM: 128 GB
• Total VCPU Cores: 64 GB
• Number of Volumes: 4
• Amount of volume storage: 3500 GB

Dedicated Protein and RNA Structure Prediction Capabilities for the Wagner Lab

• Project Information
• Principal Investigator: Samuel Wagner
• Research Topics: Small molecules Microbiology Pathogens Transmembrane protein prediction

SSAM-lite-server

• Project Information
• Research Topics: Transcriptomics Imaging High-throughput sequencing

Metagenomics Summerschool 2021

• Project Information
• Research Topics: Sequence analysis Metagenomics

FlowSoFine

• Project Information
• Principal Investigator: Stefan Janssen
• Workgroup: Algorithmic Bioinformatics
• Research Topics: Microbial ecology

SILVA release

• Project Information
• Research Topics: Biological databases rRNA

Analysis of flavonoid biosynthesis pathway across plant species

• Project Information
• Principal Investigator: Boas Pucker
• Workgroup: Plant Biotechnology and Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 9
• Research Topics: Phylogeny Genomics Splice sites

• Resources
• Available virtual machines: 1
• Total RAM: 32 GB
• Total VCPU Cores: 14 GB
• Number of Volumes: 1
• Amount of volume storage: 100 GB

Generative models to disentangle spatial components of cellular variation

• Project Information
• Research Topics: Computational biology Machine learning

Genetic analysis of Cercospora leaf spot resistance in wild and cultivated beets

• Project Information
• Research Topics: Agricultural science

LIFS Portal

• Project Information
• Research Topics: Lipids Bioinformatics Mass spectrometry

GPU_BASE

• Project Information
• Research Topics: Genomics Plant biology

BaktaWeb

• Project Information
• Research Topics: Sequence annotation Genome annotation

4D Controls-based denoising

• Project Information
• Research Topics: Medical imaging MRI Applied mathematics

Computational Psychiatry

• Project Information
• Principal Investigator: Tobias Kaufmann
• Research Topics: Medical imaging Genetics Psychiatry Computational biology Neurobiology

Machine Learning for Protein Identification

• Project Information
• Research Topics: Proteomics Machine learning

Bioimage.io Model Zoo

• Project Information
• Principal Investigator: Florian Jug
• Workgroup: Jug Lab
• Project Type: Openstack
• Project Lifetime: 46
• Affiliations: BMBF
• Research Topics: Machine learning Bioimaging Bioinformatics Cell biology

• Resources
• Available virtual machines: 7
• Total RAM: 800 GB
• Total VCPU Cores: 172 GB
• Number of Volumes: 100
• Amount of volume storage: 1024 GB
• Amount of Object Storage: 100

Extending cross-linking mass spectrometry with cleavable cross-linkers

• Project Information
• Research Topics: Protein interactions Proteomics Protein structure analysis

HTS of Xcc mutant strains using CellProfiler

• Project Information
• Research Topics: Imaging Microbiology

Determination of the conformational loop flexibility of strongly neutralizing COV-2 antibody fragments.

• Project Information
• Research Topics: Protein interactions Protein structure analysis Structure prediction Molecular dynamics

Machine Learning for Antibiiotic Resistance 2

• Project Information
• Research Topics: Bioinformatics Machine learning

RNA-RNA interaction prediction evaluation

• Project Information
• Research Topics: Nucleic acid structure analysis

Identification of causative variants in patients with genetically unclassified severe congenital neutropenia

• Project Information
• Principal Investigator: Maksim Klimiankou
• Workgroup: Internal Medicine II, Division of Translational Oncology
• Project Type: Openstack
• Project Lifetime: 48
• Research Topics: Molecular genetics Sequencing

• Resources
• Available virtual machines: 1
• Total RAM: 256 GB
• Total VCPU Cores: 32 GB
• Number of Volumes: 1
• Amount of volume storage: 6000 GB

WebDECIMER

• Project Information
• Principal Investigator: Christoph Steinbeck
• Workgroup: Steinbeck group
• Project Type: Openstack
• Project Lifetime: 12
• Research Topics: Small molecules Literature analysis Literature data resources

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 16 GB
• Number of Volumes: 1
• Amount of volume storage: 80 GB
• Amount of Object Storage: 10

Automated Analysis of Microscopy Images Using Deep Learning

• Project Information
• Principal Investigator: Rohr Karl
• Workgroup: Biomedical Computer Vision Group
• Affiliations: BMBF Elixir Project
• 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 Information
• Workgroup: Bioinformatics Core
• Research Topics: Computational biology Computer science Bioinformatics

Diatom Virtual Slide Storage

• Project Information
• Research Topics: Ecology Taxonomy Bioimaging Light microscopy Machine learning Freshwater biology

Bellman's GAP for deep learning

• Project Information
• Principal Investigator: Stefan Janssen
• Workgroup: Algorithmic Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 48
• Research Topics: Computer science

• Resources
• Available virtual machines: 2
• Total RAM: 48 GB
• Total VCPU Cores: 20 GB
• Number of Volumes: 3
• Amount of volume storage: 150 GB

RNAProNet - Infer regulatory behavior from RNA protein binding events

• Project Information
• Principal Investigator: Rolf Backofen
• Workgroup: Chair for Bioinformatics
• Project Type: Simple Vm
• Project Lifetime: 48
• Affiliations: BMBF
• Research Topics: Protein interactions High-throughput sequencing Machine learning

• Resources
• Available virtual machines: 1
• Total RAM: 64 GB
• Total VCPU Cores: 16 GB
• Number of Volumes: 3
• Amount of volume storage: 1000 GB

ECF Hub - An interactive database for ECF sigma factors

• Project Information
• Principal Investigator: Alexander Goesmann
• Workgroup: Professur für Systembiologie
• Project Type: Openstack
• Project Lifetime: 12
• Affiliations: BMBF
• Research Topics: Biological databases Protein databases Synthetic biology

• Resources
• Available virtual machines: 3
• Total RAM: 48 GB
• Total VCPU Cores: 24 GB
• Number of Volumes: 20
• Amount of volume storage: 750 GB
• Amount of Object Storage: 750

EMIC sequencing pipeline

• Project Information
• Research Topics: Microbial ecology Sequence analysis Environmental science

Evaluation of genome assembly tools for Triticeae

• Project Information
• Principal Investigator: HARMEET SINGH CHAWLA
• Workgroup: Plant Genome and System Biology
• Project Type: Openstack
• Project Lifetime: 6
• Research Topics: Plant biology Whole genome sequencing

• Resources
• Available virtual machines: 1
• Total RAM: 3000 GB
• Total VCPU Cores: 64 GB
• Number of Volumes: 3
• Amount of volume storage: 50000 GB

Cis-regulatory atlas of Brassica napus

• Project Information
• Research Topics: Genomics Bioinformatics DNA structural variation Gene expression Gene regulation Genetic variation Plant biology

SIMBA Metagenome Training Course

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Project Type: Simple Vm
• Project Lifetime: 3
• Affiliations: Horizon 2020
• Research Topics: Sequence analysis Metagenomics

• Resources
• Available virtual machines: 2
• Total RAM: 96 GB
• Total VCPU Cores: 42 GB
• Number of Volumes: 2
• Amount of volume storage: 500 GB

SFB1324 - Data Exchange and Collaborative Analysis

• Project Information
• Research Topics: Sequence analysis Protein structure analysis Cell biology Imaging Functional genomics Signaling pathways

VascuShare: a vascular imaging data repository

• Project Information
• Principal Investigator: Kyle Harrington
• Research Topics: Imaging Bioinformatics Bioimaging

Applying - Helixer, Gene Structural Prediction with Deep Learning

• Project Information
• Principal Investigator: Andreas Weber
• Workgroup: Institute of Plant Biochemistry
• Project Type: Openstack
• Project Lifetime: 10
• Research Topics: Sequence analysis Gene structure Machine learning

• Resources
• Available virtual machines: 3
• Total RAM: 384 GB
• Total VCPU Cores: 60 GB
• Number of Volumes: 6
• Amount of volume storage: 3000 GB
• Amount of Object Storage: 1000

Covalent and kinetic trapping repair machinery for structural and functional studies

• Project Information
• Research Topics: Nucleic acids Protein interactions Protein structure analysis Enzymes

ChIP-seq / ATAC-seq workshop

• Project Information
• Principal Investigator: Herrmann Carl
• Workgroup: HDSU
• Project Type: Simple Vm
• Project Lifetime: 15
• Research Topics: Computational biology

• Resources
• Available virtual machines: 2
• Total RAM: 512 GB
• Total VCPU Cores: 64 GB
• Number of Volumes: 2
• Amount of volume storage: 500 GB

Decoding Context-Dependent Genetic Networks in vivo

• Project Information
• Principal Investigator: Stegle Oliver
• Workgroup: ERC Decode Project
• Project Type: Openstack
• Affiliations: Horizon 2020
• Research Topics: Computational biology

de.NBI - CeBiTec Nanopore Workshop - Best Practice and SARS-CoV-2 applications

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: BiGi
• Project Type: Simple Vm
• Project Lifetime: 3
• Affiliations: BMBF
• Research Topics: Sequence analysis Virology Sequencing Sequence assembly

• Resources
• Available virtual machines: 22
• Total RAM: 704 GB
• Total VCPU Cores: 352 GB
• Number of Volumes: 30
• Amount of volume storage: 1500 GB

Using machine learning approaches to predict antimicrobial resistance from bacterial genome sequences

• Project Information
• Principal Investigator: Oliver Kohlbacher
• Project Type: Simple Vm
• Project Lifetime: 9
• Research Topics: Pathogens Machine learning

Alignment- and reference-free Phylogenomics

• Project Information
• Principal Investigator: Jens Stoye
• Workgroup: Genome Informatics
• Project Type: Simple Vm
• Project Lifetime: 54
• Research Topics: Sequence analysis Phylogeny

• Resources
• Available virtual machines: 1
• Total RAM: 1024 GB
• Total VCPU Cores: 32 GB
• Number of Volumes: 2
• Amount of volume storage: 3000 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 Information
• Principal Investigator: Ulisses Nunes da Rocha
• Workgroup: Microbia Data Science
• Project Type: Openstack
• Project Lifetime: 53
• Research Topics: Sequence analysis Computational biology Function analysis Biological databases Microbiology Metagenomics Human disease Microbial ecology Phylogenomics

• Resources
• Available virtual machines: 29
• Total RAM: 4352 GB
• Total VCPU Cores: 768 GB
• Number of Volumes: 3
• Amount of volume storage: 100000 GB

Using NLP-Networks (Transformers) for human genome data

• Project Information
• Research Topics: Computational biology Bioinformatics Biomedical science Sequence classification

Cloud User Meeting 2020

• Project Information
• Principal Investigator: Alexander Sczyrba
• Project Type: Openstack
• Research Topics: Bioinformatics

• Resources
• Available virtual machines: 100
• Total RAM: 1300 GB
• Total VCPU Cores: 650 GB
• Number of Volumes: 50
• Amount of volume storage: 275 GB
• Amount of Object Storage: 100

Meet-U 4EU+ Teaching project

• Project Information
• Principal Investigator: Herrmann Carl
• Research Topics: Computational biology

SIRIUS back end

• Project Information
• Workgroup: Chair of Bioinformatics
• Project Type: Openstack
• Research Topics: Metabolites Computer science Mass spectrometry Metabolomics Computational chemistry

Sequence-based prediction of Translational Efficiency

• Project Information
• Principal Investigator: Pascal Falter-Braun
• Workgroup: Network Biology
• Research Topics: Sequence analysis Protein interactions Computational biology

SDC BioDATEN

• Project Information
• Research Topics: Database management Ontology and terminology Computational biology

Generation of Mass Spectrometry Decoy Spectra with Adversarial Autoencoders

• Project Information
• Research Topics: Proteomics Mass spectrometry

CovRadar: a web application for SARS-CoV-2 molecular surveillance

• Project Information
• Principal Investigator: Stephan Fuchs
• Workgroup: Methodology and Research Infrastructure - MF1: Bioinformatics
• Project Type: Openstack
• Project Lifetime: 55
• Research Topics: Sequence analysis Data visualisation Bioinformatics Virology Public health and epidemiology Protein variants

• Resources
• Available virtual machines: 3
• Total RAM: 1061 GB
• Total VCPU Cores: 112 GB
• Number of Volumes: 5
• Amount of volume storage: 5120 GB
• Amount of Object Storage: 1024

Innovative benchmarking approaches to improve Computational Methods for big data analysis in Health.

• Project Information
• Principal Investigator: Herrmann Carl
• Workgroup: Health Data Science Unit, Medical Faculty
• Research Topics: Computational biology Genomics Gene regulation Oncology

Proteomics of the Springtail Folsomia Candida

• Project Information
• Principal Investigator: Oliver Kohlbacher
• Workgroup: Applied Bioinformatics
• Research Topics: Proteomics Protein expression

Modeling and simulation of multicellular processes during tissue morphogenesis

• Project Information
• Principal Investigator: Lutz Brusch
• Workgroup: Center for Information Services and High Performance Computing
• Research Topics: Personalised medicine Computational biology

Myzel - Medical Cloud Platform

• Project Information
• Principal Investigator: Maier-Hein Klaus
• Workgroup: Medical Image Computing
• Project Type: Openstack
• Project Lifetime: 12
• Research Topics: Medical imaging Natural language processing

• Resources
• Available virtual machines: 2
• Total RAM: 384 GB
• Total VCPU Cores: 60 GB
• Number of Volumes: 2
• Amount of volume storage: 2000 GB

Ganon in the 2 nd round of the CAMI II challenge

• Project Information
• Research Topics: Sequence analysis Metagenomics

Wheat Structural Variant Calling

• Project Information
• Research Topics: Structure analysis Genetic variation

A R Shiny based web server for performing BLAST queries on novel SARS-CoV2 sequences

• Project Information
• Principal Investigator: Herrmann Carl
• Workgroup: Health Data Science Unit
• Research Topics: Sequence analysis Infectious disease

kmer based spa typing

• Project Information
• Principal Investigator: Gunnar W. Klau
• Workgroup: Algorithmische Bioinformatik
• Project Type: Simple Vm
• Project Lifetime: 3

• Resources
• Available virtual machines: 1
• Total RAM: 256 GB
• Total VCPU Cores: 32 GB
• Number of Volumes: 1
• Amount of volume storage: 500 GB

Biohackathon Coivd19

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Project Type: Openstack
• Project Lifetime: 6

• Resources
• Available virtual machines: 3
• Total RAM: 192 GB
• Total VCPU Cores: 96 GB
• Number of Volumes: 3
• Amount of volume storage: 20 GB

denbivsvirus Bielefeld

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Project Type: Openstack
• Project Lifetime: 30

• Resources
• Available virtual machines: 5
• Total RAM: 636 GB
• Total VCPU Cores: 88 GB
• Number of Volumes: 5
• Amount of volume storage: 2000 GB
• Amount of Object Storage: 500

WirVsVirus Hackathon der Bundesregierung

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Project Type: Openstack

Benchmarking proteomics nextflow workflows on PRIDE data

• Project Information
• Principal Investigator: Oliver Kohlbacher
• Workgroup: Applied Bioinformatics

Performance improvements of DNA methylome deconvolution software MeDeCom

visualization webtool for deep learning features

de.NBI Training

• Project Information
• Principal Investigator: Malik Alawi
• Workgroup: Bioinformatics Core

Petasearch Database Creation

Gene Structural Prediction with Deep Learning

• Project Information
• Principal Investigator: Andreas Weber
• Workgroup: Plant Biochemistry
• Project Type: Openstack

Understanding gluten related disorders at the molecular level

• Project Information
• Principal Investigator: Veronica Dodero

Rheuma.Vor.Transcriptomics

• Project Information
• Principal Investigator: Schwarting Andreas
• Workgroup: Ambulanz für Rheumatologie,
• Project Type: Simple Vm

metagenomic analysis of human infant fecal sample

• Project Information
• Principal Investigator: Daniel Huson
• Workgroup: algorithm in bioinformatics
• Project Type: Openstack
• Project Lifetime: 66

• Resources
• Available virtual machines: 4
• Total RAM: 1024 GB
• Total VCPU Cores: 128 GB
• Number of Volumes: 4
• Amount of volume storage: 20000 GB
• Amount of Object Storage: 150

Elucidating the origin of planktonic foraminifera

• Project Information
• Principal Investigator: Michal Kucera
• Workgroup: Micropaleontology
• Project Lifetime: 60

• Resources
• Available virtual machines: 10
• Total RAM: 2560 GB
• Total VCPU Cores: 320 GB
• Number of Volumes: 10
• Amount of volume storage: 10000 GB

Type Strain Genome Server (TYGS)

• Project Information
• Principal Investigator: Markus Göker
• Workgroup: Phylogenomics (Department of Bioinformatics)
• Project Type: Openstack

Bioschemas knowledge graph - BH2019Europe

GCB 2019 Cloud Tutorial

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: de.NBI Cloud Team
• Project Type: Openstack
• Project Lifetime: 1
• Affiliations: BMBF

• Resources
• Available virtual machines: 60
• Total RAM: 3840 GB
• Total VCPU Cores: 1680 GB
• Number of Volumes: 25
• Amount of volume storage: 200 GB
• Amount of Object Storage: 1000

Sustainable Innovation of Microbiome Applications in the Food System

• Project Information
• Principal Investigator: Alexander Sczyrba
• Workgroup: Computational Metagenomics
• Project Type: Openstack