Projects: Group Data Science, Group Microbial Interface Biology, Core Facility Fluorescence Cytometry, Targeting the immunoproteasome: Analyzing the biological effects of specific versus pan inhibition, Macrophage and neutrophil redox proteome in infection with Mycobacterium tuberculosis, Methylation differences during respiratory infection, Lipid droplet formation and dynamics in murine macrophages, Implementation of Nanopore Sequencing for Detection of Treatment Induced Transcriptomic and Epitranscriptomic Changes in Leukaemic Tumour Models, Revisiting mutational resistance to ampicillin and cefotaxime in Haemophilus influenzae
Institutions: Forschungszentrum Borstel
https://orcid.org/0000-0003-4004-0464Expertise: Bioinformatics, Genomics, Transcriptomics
Expertise: Bioinformatics, Computational Systems Biology, Data Management, Databases, Python, R, Transcriptomics, Image analysis, Genomics, Molecular Biology, Microbiology, Data analysis, Genetics
Tools: qPCR, Isolation purification and separation, Genomics, Data Science, RNA / DNA Techniques, Transcriptomics, Microbiology, Molecular Biology, Databases
I am a biochemist & bio-informatician working in phytobacteriology at the Plant Sciences Unit of ILVO, the Flanders Research Institute for Agricultural, Fisheries and Food Research. The focus is on genomics-based research and diagnostics for Plant Health.
My expertise is 'wet-lab' work (microbiology, sequencing, molecular biology, design & validation of diagnostics assays using qPCR/LAMP, automatisation) and 'dry-lab' work such as bio-informatics/data analysis (e.g. scripting analysis ...
Institutions: University of Freiburg
https://orcid.org/0000-0002-5340-3423Expertise: Bioinformatics, Databases, Genetics, Genomics, Systems Biology, Transcriptomics, Microbiology, Microarray analysis
Tools: Bioinformatics, Data analysis, Genetics, Genomics, Microarray analysis, Microbiology, Molecular Biology, Molecular biology techniques (RNA/DNA/Protein), Transcriptomics
Projects: COVID-19 Disease Map
Institutions: University College London (UCL)
https://orcid.org/0000-0003-3171-6098Projects: COVID-19 Disease Map
Institutions: University of Cape Town
https://orcid.org/0000-0002-5374-0657Expertise: Genomics, Data analysis
Assistant Professor, Department of Biochemistry, All India Institute of Medical Sciences Kalyani
Projects: COVID-19 Disease Map
Institutions: National Institute for Infectious Diseases "L.Spallanzani"
https://orcid.org/0000-0001-8076-7217Expertise: Network Analysis, Modelling
Tools: R, RNAseq, network theory, Genomics
Projects: COVID-19 Disease Map
Institutions: University of Western Australia
Expertise: Genomics, Curation, Data Integration
Projects: COVID-19 Disease Map
Institutions: Estonian Genome Centre, Institute of Genomics, University of Tartu
Expertise: Genomics, Curation, Data Integration
Expertise: Bioinformatics, Molecular Biology, Genomics, gene regulation
Tools: Genomics, Transcriptomics, Genetic modification
I am a Researcher at the National Laboratory of Scientific Computing (LNCC). I am a bioinformatician and my research interests are in data integration and analyses. I use scientific workflows technologies to integrate and analyse data in systems biology, phylogenomics, and functional genomics.
Post Doc (2010 – 2015) of the Department of Computer Science at the COPPE Institute of the Federal University of Rio de Janeiro (Brazil) and was supported by a FAPERJ’s grant “Post-Doc Note 10” (2013 – ...
Projects: Rhodolive
Institutions: ENEA - The Agenzia nazionale per le nuove tecnologie, l'energia e lo sviluppo economico sostenibile
Expertise: Molecular Biology, Genomics, Bioinformatics
Projects: Stress granules, MESI-STRAT
Institutions: University of Bergen
Expertise: RNA, alternative splicing, Bioinformatics, Genomics
More detailed profile here https://www.uib.no/en/persons/Sushma.Grellscheid
Projects: SAFE-Aqua, Biomics Projects
Institutions: Institut Pasteur
https://orcid.org/0000-0001-6286-1138Projects: DigiSal, GenoSysFat, SAFE-Aqua, Unlock
Institutions: Wageningen University & Research
https://orcid.org/0000-0001-8172-8981Expertise: semantics, Software Engineering, R, Python, Java, Data Management, Databases, Genetics, Genomics, Microbiology
Projects: BioZEment 2.0, BESTER, Auromega, C1Pro, AquaHealth (ERA-BlueBio)
Institutions: SINTEF
Projects: EmPowerPutida
Institutions: LifeGlimmer GmbH
Expertise: Bioinformatics, Systems Biology, Transcriptomics, R, Genomics, Proteomics, Databases, Data Integration
Tools: Bioinformatics, Molecular Biology, Computational Systems Biology
Computational Biologist and App Designer @LifeGlimmer
Expertise: Bioinformatics, Molecular Biology, Next Generation Sequencing, metagenomics, Proteomics, Programming
Tools: bash, Perl, R, Genomics, Proteomics, Biochemistry and protein analysis
Research scientist in multi-Omics, molecular (cell)biology and bioinformatics.
Projects: HUMET Startup, COVID-19 Disease Map
Institutions: Centro de Investigación Príncipe Felipe, Fundación Progreso y Salud
https://orcid.org/0000-0003-3318-120XExpertise: Bioinformatics, Data Management, Mathematical modelling, Genomics, Genetics, Transcriptomics, Systems Biology, Microarray analysis, Data Integration
Tools: Bioinformatics, Computational and theoretical biology, Computational Systems Biology, Data Management, Databases, Dynamic modelling, Genetics, Genomics, R, Systems Biology, Transcriptomics, Java
My scientific interests revolve around functional genomics, systems biology and the development of algorithms and software for the analysis of high-throughput data (mainly, but not restricted to, Next Generation Sequencing) and its application to the relationship between genotype and phenotype, mainly oriented to personalized and precision medicine. I am especially interested in the study of disease mechanisms and drug action mechanisms, drug repositioning and the definition of mechanism-based ...
Projects: FAIRDOM user meeting
Institutions: Peter MacCallum Cancer Centre
Expertise: Systems Biology, Transcriptomics, Genomics
Tools: Systems Biology, Transcriptomics, Computational Systems Biology, Bioinformatics, R
Projects: GenoSysFat, DigiSal
Institutions: Norwegian University of Life Sciences
https://orcid.org/0000-0003-4989-5311Projects: FAIRDOM
Institutions: University of Manchester - Department of Computer Science
https://orcid.org/0000-0003-1604-1512Expertise: Molecular Biology, Bioinformatics, Genomics, metagenomics, standards, Ontology
Tools: Bioinformatics, Data Management
FAIRDOM Project Wrangler
Projects: SysMetEx
Institutions: Universitity Duisburg-Essen
My research is intended to contribute to the elucidation of the physiological and molecular processes involved in the biofilm formation of acidophilic leaching bacteria with emphasis in their cell-cell communication mechanisms. In SysMetEx, our role is to understand biofilm formation at a microscopical and OMICS levels, in order to optimize it.
Projects: MetApp, INBioPharm, SYSTERACT, Auromega
Institutions: SINTEF
https://orcid.org/0000-0002-1221-8598Research scientist
Projects: ICYSB 2015 - International Practical Course in Systems Biology
Institutions: University of Tokyo
Expertise: Genetics, Genomics, Cell biology, Image analysis, Phenome, Genetic interaction
Tools: Fluorescence microscopy, CalMorph, R, Java, GLM, Model selection
I am a postdoc in The University of Tokyo. My research interest is to know structure of biological systems by functional relationships between genes working in response to endogenous and/or exogenous disruptions. I'm trying to find functional relationships between genes by similarity of phenotype defined with high-dimensional morphological features in yeast gene deletion collection. I'm happy if you will talk with me in any topics.
Projects: FAIRDOM, ICYSB 2015 - International Practical Course in Systems Biology, FAIRDOM user meeting
Institutions: University of Zürich, ETH Zurich, Manchester Centre for Integrative Systems Biology, University of Manchester
Expertise: Bioinformatics, Proteomics, Genomics
Tools: Matlab, Microarray analysis, Data Management, Computational Systems Biology, Perl, Python
I hold a Medical Doctor Diploma (Lviv, Ukraine) with the specialization in General Medicine. After the graduation from the Post Graduate Program in Bioinformatics at the Seneca College/York University (Toronto, Canada), I successfully participated in the number of scientific projects conducted at the University of Toronto (Canada) and the Toronto East General Hospital (Canada).
I obtained the PhD in Bioinformatics at the Swiss Institute of Bioinformatics (Geneva, Switzerland). As a PhD student, ...
Projects: SulfoSys
Institutions: eGene Biotechnologie GmbH
Projects: MOSES
Institutions: VU University Amsterdam
Projects: BaCell-SysMO
Institutions: University of Newcastle
Expertise: Microbiology, Molecular Biology, Gram positive bacteria (Bacillus, Systems Biology, Genetics)
Tools: Microbiology, Molecular Biology, Biochemistry and protein analysis, Cell biology, Genetic analysis, Genomics, Transcriptomics, Proteomics, Model organisms, Proteomics (2D-PAGE), gene regulation, DNA technology RNA technology Protein analysis Fermentation Mutagenesis, molecular biological techniques (RNA/DNA techniques), protein interaction studies
Optimisation of Bacillus subtilis for the secretion of heterologous proteins Therapeutic proteins (including those required for experimental purposes and clinical trials) are major products of biomanufacturing processes and considerable time and expense are expended to maximise the yield and quality of proteins produced in heterologous hosts. The production host of choice is the Gram-negative bacterium Escherichia coli for which many strains and expression systems have been developed. However, ...
Projects: KOSMOBAC
Institutions: University of Aberdeen
Expertise: Chip-chip, Recombineering
Tools: Genetics, Molecular Biology, Genomics, Chip-chip, Enzyme assay
I am final year PhD student in Prof Ian Booth's lab and a microbiologist by trade. I am interested in how enteric bacteria cope with stress and what systems they employ to increase their chances of survival, in particular upon methylglyoxal stress.
Projects: BaCell-SysMO
Institutions: University of Groningen
Expertise: Gram positive bacteria (Bacillus, Lactococcus, Streptococcus), competence, sporulation, germination, antimicrobial peptides, phenotypic heterogeneity, bistability, C- and N- metabolism, gene regulation, stress responses, pathogens, virulence factors, metal ion homeostasis, protein secretion
Tools: Biochemistry, Genetics, Molecular Biology, Bioinformatics, Genomics, Transcriptomics, time lapse microscopy, FACS, genomic array footprinting
Group leader Molecular Genetics
Projects: COSMIC
Institutions: Wageningen University & Research
Expertise: Microbiology, Molecular Biology
Tools: Biochemistry and protein analysis, Genomics, Transcriptomics, Metabolomics, Fermentation
I am assistant professor at the Laboratory of Microbiology and my interest is in the area of molecular microbiology. Research focuses on the analysis of the metabolism of anaerobic fermentative bacteria and archaea, especially with respect to biofuel production (hydrogen, butanol). Within SysMo our tasks concern the effect of butanol stress, using metabolomics and transcriptomics.
Assay: _A_05_BUSCO Short Name: 05_BUSCO Assay Class: DRY Assay Type: BUSCO Title: BUSCO post filtering and reassignment Description: BUSCO post filtering and reassignment pISA Assay creation date: 2019-10-22 pISA Assay creator: Maja Zagorscak Phenodata: None Featuredata: None Data: see ./input/path_to_files.txt
Submitter: Maja Zagorscak
Biological problem addressed: Validation
Investigation: _I_STRT
Study: _S_03_stCuSTr
Organisms: Solanum tuberosum
Models: No Models
SOPs: No SOPs
Data files: /input/input.tar, /output/output.tar, /scripts/scripts.tar, /transfer/transfer.zip
Snapshots: Snapshot 1
Assay: _A_02.1_BUSCO Short Name: 02.1_BUSCO Assay Class: DRY Assay Type: BUSCO Title: BUSCO on assemblies and tr2aacds output Description: BUSCO on assemblies and tr2aacds output pISA Assay creation date: 2019-10-22 pISA Assay creator: Maja Zagorscak Phenodata: None Featuredata: None Data: see ./input/path_to_files.txt
Submitter: Maja Zagorscak
Biological problem addressed: Validation
Investigation: _I_STRT
Study: _S_03_stCuSTr
Organisms: Solanum tuberosum
Models: No Models
SOPs: No SOPs
Data files: /input/input.tar, /output/output.tar, /scripts/scripts.tar
Snapshots: Snapshot 1
Creator: Rainer Malik
Submitter: Rainer Malik
Abstract (Expand)
Authors: Marko Petek, Maja Zagorščak, Živa Ramšak, Sheri Sanders, Elizabeth Tseng, Mohamed Zouine, Anna Coll, Kristina Gruden
Date Published: No date defined
Publication Type: Not specified
DOI: 10.1101/845818
Citation: Cultivar-specific transcriptome and pan-transcriptome reconstruction of tetraploid potato