The current NBIS staff is listed below, with locations and expertise. For more information about individual staff members, follow the links in the table.
Please note that many of the NBIS experts are active in several sub disciplines of bioinformatics.
| Management | ||
|---|---|---|
| Bengt Persson (UU/KI) | SciLifeLab | NBIS director |
| Johan Viklund (UU) | SciLifeLab | NBIS Chief Technical Officer |
| Pär Engström (SU) | SciLifeLab | transcriptomics, functional and comparative genomics, genetic variation |
| Jonas Hagberg (SU/UU) | SciLifeLab | manager, devops, Joint Head of Facility Support and Infrastructure |
| Anna Hagwall (UU) | Uppsala University | project management, agile |
| Henrik Lantz (UU) | SciLifeLab | assembly, annotation, manager, Joint Head of Facility Support and Infrastructure |
| Jessica Lindberg (UU) | SciLifeLab | administration, economy |
| Jessica Lindvall (SU) | SciLifeLab | manager, Joint Head of Facility Support and Infrastructure, Training coordinator, high throughput analyses, omics integration analyses |
| Marcus Lundberg (UU) | Uppsala University | uppmax, compute, storage, high-performance computing |
| Björn Nystedt (UU) | SciLifeLab | de novo genome assembly, evolution |
| Thomas Svensson (CTH) | SciLifeLab | functional genomics, metabolism, fysiology, systems biology, sequence analysis, Head of Facility |
| Joel Hedlund (LiU) | Linköping University | Head of AIDA Data Hub, Sensitive data, AI, GDPR, Open Science, FAIR |
Genomics
| Adnan Niazi (SLU) | SciLifeLab | RNAseq, Genome assembly Agata Smialowska (SU) |
SciLifeLab | experimental design, transcriptomics, epigenomics, chromatin, RNA biology, RNA-seq, sRNA-seq, ChIP-seq Allison Churcher (UmU) |
SciLifeLab | genomics Anna Johansson (UU) |
SciLifeLab | NGS variant analysis Åsa Björklund (UU) |
SciLifeLab | RNAseq, scRNAseq Ashfaq Ali (LU) |
Lund University | Metabolomic, Transcriptomics, Proteomics, Systems Biology, Genomics, Genetics, Gene Environment Interactions Bengt Sennblad (UU) |
SciLifeLab | omics integration, reproducible research, probabilistic modeling, algorithmics, genetic interactions, genetic associations studies, genome evolution Dag Ahrén (LU) |
Lund University | Genomics, Transcriptomics, Genomic Ecology, Microbial Genomics, Reduced representation sequencing, RADSeq, NGS coordinator Diana Ekman (SU) |
SciLifeLab | NGS variant analysis Erik Fasterius (SU) |
SciLifeLab | High-throughput sequencing, RNA-seq, scRNA-seq, variant analysis, data visualisation, machine learning, pipeline development, software development Estelle Proux-Wera (SU) |
SciLifeLab | RNA-seq, de novo RNA-seq assembly Jakub Orzechowski Westholm (SU) |
SciLifeLab | RNA-seq, non-coding RNA, ChIP-seq, gene regulation Jeanette Tångrot (UmU) |
Umeå University | genomics, RNAseq, amplicon sequencing analysis Johan Reimegård (UU) |
SciLifeLab | de novo RNA assembly, RNAseq, RNA structure analysis, Allele specific expression, non-coding RNA, miRNA, sRNA, education John Sundh (SU) |
SciLifeLab | metagenomics, bacterial genomics, cyanobacteria Juliana Assis (LU) |
Lund University | genomics, transcriptomics, system biology, metabolomics, data integration Julie Lorent (SU) |
SciLifeLab | RNA-seq, biostatistics Lokeshwaran Manoharan (LU) |
Lund University | Genomics and metagenomics, Transcriptomics and metatranscriptomics, phylogenomics, Microbial Genomics, Amplicon sequencing analysis Louella Vasquez (LU) |
Lund University | Genomics, Epigenetics, Integrative omics, Genetic association studies, Statistical analysis Magnus Alm Rosenblad (GU) |
University of Gothenburg | sequence analysis, transcriptomics, NGS coordinator Malin Larsson (LiU) |
Linköping University | genomics, cancer genomics Marcel Martin (SU) |
SciLifeLab | high-throughput sequencing Marcin Kierczak (UU) |
Uppsala University | genomics, population genomics, R, GWAS, machine learning, AI, eDNA Markus Mayrhofer (UU) |
SciLifeLab | cancer genomics, copy number analysis, mutational profiling Markus Ringnér (LU) |
SciLifeLab | Cancer genomics Nikolay Oskolkov (LU) |
SciLifeLab | genomics, transcriptomics, statistical analysis Nima Rafati (UU) |
SciLifeLab | NGS, genomics, comparative genomics, transcriptomics, small and large variant analyses, comparative genomics, gwas Nina Norgren (UmU) |
Umeå University | genomics Olga Dethlefsen (SU) |
SciLifeLab | transcriptomics, genomics, epigenomics, clinical bioinformatics, biostatistics, machine learning, teaching Paul Theodor Pyl (LU) |
Lund University | Genomics and metagenomics, Transcriptomics, Mass-spec Proteomics using DDA and DIA, Proteogenomics and Proteotranscriptomics, Cancer Paulo Czarnewski (SU) |
SciLifeLab | RNA-seq, scRNAseq, transcriptomics, Proximity Extension Assay (PEA), microbiome profiling, Flow cytometry (FACS) Per Unneberg (UU) |
SciLifeLab | evolution, reproducible research, statistics, RNAseq, scRNAseq, genomics, variation analysis, population genetics Roy Francis (UU) |
SciLifeLab | experimental design, RNA-seq, scRNA-seq, Infinium methylation arrays, GATK variant-calling, R programming, data visualisation Sebastian DiLorenzo (UU) |
SciLifeLab | Cancer data analysis, NGS, epigenetics, Pipelines, Community, Teaching, R Tom van der Valk (UU) |
Uppsala University | population genomics, convervation genomics, python Tomas Larsson (UU) |
Chalmers | assembly, annotation, comparative genomics Verena Kutschera (SU) |
SciLifeLab | population genomics, comparative genomics, molecular evolution, non-model organisms, phylogenetics Vincent van Hoef (UU) |
Uppsala University | genomics, transcriptomics, cancer, R, single-cell rna-seq, rna-seq Genome Assembly and Annotation |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| André E. R. Soares (UU) | SciLifeLab | genomics, genome assembly, genome annotation, ancient DNA, phylogenetics, shell scripting | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Lucile Soler (UU) | SciLifeLab | genome annotation, whole genome alignment, comparative genomic | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Mahesh Binzer-Panchal (UU) | SciLifeLab | genome assembly, transcriptome assembly, metagenomic assembly, variant calling, amplicon analysis, Nextflow, shell scripting, perl, groovy, java, R |
Proteomics
| Claudio Mirabello (LiU) | Linköping University | proteomics, machine learning, structural bioinformatics Fredrik Levander (LU) |
University of Lund | proteomics, coordinator, mass spectrometry, data standards Mun-Gwan Hong (SU) |
Science for Life Laboratory | pqtl, affinity proteomics, genomics, gwas, epidemiology Payam Emami (SU) |
SciLifeLab | omics integration, reproducible research, mass spectrometry, proteomics, peptidomics, metabolomics, workflow, Galaxy, microservices, Kubernetes Sebastian Kapell (SU) |
SciLifeLab | Proteomics, Proteogenomics, Biological Network Analysis, Systems Biology, Immunology, Virology Systems Biology |
|---|---|---|---|---|---|---|---|---|---|---|
| Mihail Anton (Chalmers) | Chalmers | system development | ||||||||
| Rui Benfeitas (SU) | SciLifeLab | Omics Integration, Systems Biology, Biological Network Analysis, Precision Medicine, RNAseq, Metabolism, Cancer, Metabolic Modeling | ||||||||
| Sergiu Netotea (Chalmers) | Chalmers | systems biology, network analysis, machine learning, cloud computing | ||||||||
| Susanne Reinsbach (Chalmers) | Chalmers | Cancer Genomics, Metagenomics, RNA-seq, Data Integration |
Metabolomics
| Daniel Malmodin (GU) | University of Gothenburg | metabolomics Sequence Analysis |
|---|---|---|
| Johan Nylander (NRM) | Swedish Museum of Natural History / SciLifeLab | evolutionary sequence analysis, phylogenetics, phylogenomics |
| Sara Light (SU) | SciLifeLab | bioinformatics |
Development
| Airen Zaldivar (SU) | SciLifeLab | systems development, python, java Alex Aperis (UU) |
SciLifeLab | python, cloud computing, scientific computing Anders Larsson (UU) |
SciLifeLab | Systems development, Java, Ferns, Cloud computing Andreas Kähäri (UU) |
SciLifeLab | UNIX, C, Perl, MySQL, shell scripting, systems development Dimitrios Bampalikis (UU) |
SciLifeLab | Systems development, Web servers, Cloud computing Henrike Wiemker (UU) |
Uppsala University | system development, frontend, javascript Ingrid Hyltander (SU) |
SciLifeLab | systems development, computer security, cloud computing Joakim Bygdell (UmU) |
Umeå University | systems development, cloud computing Jon Ander Novella (UU) |
SciLifeLab | Systems development, Cloud Computing, Reproducibility Konstantinos Koumpouras (UU) |
SciLifeLab | Systems development, Cloud computing, Python, Golang Malin Klang (UU) |
SciLifeLab | systems development, python Martin Norling (UU) |
SciLifeLab | System development, web development, python Nanjiang Shu (SU) |
SciLifeLab | Protein bioinformatics, Protein structure prediction, Machine learning, Web-server development, Cloud computing Shreyas Shivakumara (LiU) |
Linköping University | Sensitive data, AI, Systems development, Cloud Computing, Python Software and Systems |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Anders Sjölander (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||||||||||||||||||||||||||
| Björn Viklund (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||||||||||||||||||||||||||
| Jonas Söderberg (UU) | SciLifeLab | UPPMAX, SciLifeLab | ||||||||||||||||||||||||||
| Lars Eklund (UU) | Uppsala University | uppmax, compute, storage, high-performance computing, chemistry, databases | ||||||||||||||||||||||||||
| Martin Dahlö (UU) | SciLifeLab | systems development, uppmax |
Statistics
| Eva Freyhult (UU) | Uppsala University | statistics, multivariate analysis, network analysis Data Management |
|---|---|---|
| Elin Kronander (UU) | SciLifeLab | data management, Open Science, FAIR |
| Markus Englund (UU) | SciLifeLab | data management, FAIR data, Open Science, reproducibility in science |
| Mattias Strömberg (UU) | Uppsala University | data management, data management plans, Open Science, FAIR, repositories |
| Niclas Jareborg (SU) | SciLifeLab | data management, agile project management, lean, informatics, programming |
| Stephan Nylinder (UU) | Uppsala University | Data management, DMP, Open Science, FAIR, GDPR, Sensitive data |
| Wolmar Nyberg Åkerström (UU) | Uppsala University | data management, service design, integrations, repositories, CodeRefinery, software carpetry |
| Yvonne Kallberg (SU) | SciLifeLab | data management, data management plans, FAIR |
The NBIS staff is distributed over all major Swedish universities. They all have a national responsibility, which means that they will provide their expertise to all Swedish scientists, regardless of affiliation.
Stockholm (Stockholm University, KI, KTH)
| Agata Smialowska (SU) | SciLifeLab | experimental design, transcriptomics, epigenomics, chromatin, RNA biology, RNA-seq, sRNA-seq, ChIP-seq Airen Zaldivar (SU) |
SciLifeLab | systems development, python, java Bengt Persson (UU/KI) |
SciLifeLab | NBIS director Diana Ekman (SU) |
SciLifeLab | NGS variant analysis Erik Fasterius (SU) |
SciLifeLab | High-throughput sequencing, RNA-seq, scRNA-seq, variant analysis, data visualisation, machine learning, pipeline development, software development Estelle Proux-Wera (SU) |
SciLifeLab | RNA-seq, de novo RNA-seq assembly Ingrid Hyltander (SU) |
SciLifeLab | systems development, computer security, cloud computing Jakub Orzechowski Westholm (SU) |
SciLifeLab | RNA-seq, non-coding RNA, ChIP-seq, gene regulation Jessica Lindvall (SU) |
SciLifeLab | manager, Joint Head of Facility Support and Infrastructure, Training coordinator, high throughput analyses, omics integration analyses Johan Nylander (NRM) |
Swedish Museum of Natural History / SciLifeLab | evolutionary sequence analysis, phylogenetics, phylogenomics John Sundh (SU) |
SciLifeLab | metagenomics, bacterial genomics, cyanobacteria Jonas Hagberg (SU/UU) |
SciLifeLab | manager, devops, Joint Head of Facility Support and Infrastructure Julie Lorent (SU) |
SciLifeLab | RNA-seq, biostatistics Marcel Martin (SU) |
SciLifeLab | high-throughput sequencing Mun-Gwan Hong (SU) |
Science for Life Laboratory | pqtl, affinity proteomics, genomics, gwas, epidemiology Nanjiang Shu (SU) |
SciLifeLab | Protein bioinformatics, Protein structure prediction, Machine learning, Web-server development, Cloud computing Niclas Jareborg (SU) |
SciLifeLab | data management, agile project management, lean, informatics, programming Olga Dethlefsen (SU) |
SciLifeLab | transcriptomics, genomics, epigenomics, clinical bioinformatics, biostatistics, machine learning, teaching Pär Engström (SU) |
SciLifeLab | transcriptomics, functional and comparative genomics, genetic variation Paulo Czarnewski (SU) |
SciLifeLab | RNA-seq, scRNAseq, transcriptomics, Proximity Extension Assay (PEA), microbiome profiling, Flow cytometry (FACS) Payam Emami (SU) |
SciLifeLab | omics integration, reproducible research, mass spectrometry, proteomics, peptidomics, metabolomics, workflow, Galaxy, microservices, Kubernetes Rui Benfeitas (SU) |
SciLifeLab | Omics Integration, Systems Biology, Biological Network Analysis, Precision Medicine, RNAseq, Metabolism, Cancer, Metabolic Modeling Sara Light (SU) |
SciLifeLab | bioinformatics Sebastian Kapell (SU) |
SciLifeLab | Proteomics, Proteogenomics, Biological Network Analysis, Systems Biology, Immunology, Virology Verena Kutschera (SU) |
SciLifeLab | population genomics, comparative genomics, molecular evolution, non-model organisms, phylogenetics Yvonne Kallberg (SU) |
SciLifeLab | data management, data management plans, FAIR Uppsala (Uppsala University, SLU) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Adnan Niazi (SLU) | SciLifeLab | RNAseq, Genome assembly | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Alex Aperis (UU) | SciLifeLab | python, cloud computing, scientific computing | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Anders Larsson (UU) | SciLifeLab | Systems development, Java, Ferns, Cloud computing | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Anders Sjölander (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||||||||||||||||||||||||||||||||||||||||||||||||||
| André E. R. Soares (UU) | SciLifeLab | genomics, genome assembly, genome annotation, ancient DNA, phylogenetics, shell scripting | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Andreas Kähäri (UU) | SciLifeLab | UNIX, C, Perl, MySQL, shell scripting, systems development | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Anna Hagwall (UU) | Uppsala University | project management, agile | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Anna Johansson (UU) | SciLifeLab | NGS variant analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Åsa Björklund (UU) | SciLifeLab | RNAseq, scRNAseq | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Bengt Sennblad (UU) | SciLifeLab | omics integration, reproducible research, probabilistic modeling, algorithmics, genetic interactions, genetic associations studies, genome evolution | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Björn Nystedt (UU) | SciLifeLab | de novo genome assembly, evolution | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Björn Viklund (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Dimitrios Bampalikis (UU) | SciLifeLab | Systems development, Web servers, Cloud computing | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Elin Kronander (UU) | SciLifeLab | data management, Open Science, FAIR | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Eva Freyhult (UU) | Uppsala University | statistics, multivariate analysis, network analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Henrik Lantz (UU) | SciLifeLab | assembly, annotation, manager, Joint Head of Facility Support and Infrastructure | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Henrike Wiemker (UU) | Uppsala University | system development, frontend, javascript | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Jessica Lindberg (UU) | SciLifeLab | administration, economy | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Johan Reimegård (UU) | SciLifeLab | de novo RNA assembly, RNAseq, RNA structure analysis, Allele specific expression, non-coding RNA, miRNA, sRNA, education | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Johan Viklund (UU) | SciLifeLab | NBIS Chief Technical Officer | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Jon Ander Novella (UU) | SciLifeLab | Systems development, Cloud Computing, Reproducibility | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Jonas Hagberg (SU/UU) | SciLifeLab | manager, devops, Joint Head of Facility Support and Infrastructure | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Jonas Söderberg (UU) | SciLifeLab | UPPMAX, SciLifeLab | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Konstantinos Koumpouras (UU) | SciLifeLab | Systems development, Cloud computing, Python, Golang | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Lars Eklund (UU) | Uppsala University | uppmax, compute, storage, high-performance computing, chemistry, databases | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Lucile Soler (UU) | SciLifeLab | genome annotation, whole genome alignment, comparative genomic | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Mahesh Binzer-Panchal (UU) | SciLifeLab | genome assembly, transcriptome assembly, metagenomic assembly, variant calling, amplicon analysis, Nextflow, shell scripting, perl, groovy, java, R | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Malin Klang (UU) | SciLifeLab | systems development, python | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Marcin Kierczak (UU) | Uppsala University | genomics, population genomics, R, GWAS, machine learning, AI, eDNA | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Marcus Lundberg (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Markus Englund (UU) | SciLifeLab | data management, FAIR data, Open Science, reproducibility in science | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Markus Mayrhofer (UU) | SciLifeLab | cancer genomics, copy number analysis, mutational profiling | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Martin Dahlö (UU) | SciLifeLab | systems development, uppmax | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Martin Norling (UU) | SciLifeLab | System development, web development, python | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Mattias Strömberg (UU) | Uppsala University | data management, data management plans, Open Science, FAIR, repositories | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Nima Rafati (UU) | SciLifeLab | NGS, genomics, comparative genomics, transcriptomics, small and large variant analyses, comparative genomics, gwas | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Per Unneberg (UU) | SciLifeLab | evolution, reproducible research, statistics, RNAseq, scRNAseq, genomics, variation analysis, population genetics | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Roy Francis (UU) | SciLifeLab | experimental design, RNA-seq, scRNA-seq, Infinium methylation arrays, GATK variant-calling, R programming, data visualisation | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Sebastian DiLorenzo (UU) | SciLifeLab | Cancer data analysis, NGS, epigenetics, Pipelines, Community, Teaching, R | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Tom van der Valk (UU) | Uppsala University | population genomics, convervation genomics, python | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Vincent van Hoef (UU) | Uppsala University | genomics, transcriptomics, cancer, R, single-cell rna-seq, rna-seq | ||||||||||||||||||||||||||||||||||||||||||||||||||
| Wolmar Nyberg Åkerström (UU) | Uppsala University | data management, service design, integrations, repositories, CodeRefinery, software carpetry |
Umeå (Umeå University)
| Allison Churcher (UmU) | SciLifeLab | genomics Jeanette Tångrot (UmU) |
Umeå University | genomics, RNAseq, amplicon sequencing analysis Joakim Bygdell (UmU) |
Umeå University | systems development, cloud computing Nina Norgren (UmU) |
Umeå University | genomics Göteborg (University of Gothenburg, Chalmers) |
|---|---|---|---|---|---|---|---|---|
| Daniel Malmodin (GU) | University of Gothenburg | metabolomics | ||||||
| Magnus Alm Rosenblad (GU) | University of Gothenburg | sequence analysis, transcriptomics, NGS coordinator | ||||||
| Mihail Anton (Chalmers) | Chalmers | system development | ||||||
| Sergiu Netotea (Chalmers) | Chalmers | systems biology, network analysis, machine learning, cloud computing | ||||||
| Stephan Nylinder (UU) | Uppsala University | Data management, DMP, Open Science, FAIR, GDPR, Sensitive data | ||||||
| Susanne Reinsbach (Chalmers) | Chalmers | Cancer Genomics, Metagenomics, RNA-seq, Data Integration | ||||||
| Thomas Svensson (CTH) | SciLifeLab | functional genomics, metabolism, fysiology, systems biology, sequence analysis, Head of Facility | ||||||
| Tomas Larsson (UU) | Chalmers | assembly, annotation, comparative genomics |
Lund (Lund University, SLU)
| Ashfaq Ali (LU) | Lund University | Metabolomic, Transcriptomics, Proteomics, Systems Biology, Genomics, Genetics, Gene Environment Interactions Dag Ahrén (LU) |
Lund University | Genomics, Transcriptomics, Genomic Ecology, Microbial Genomics, Reduced representation sequencing, RADSeq, NGS coordinator Fredrik Levander (LU) |
University of Lund | proteomics, coordinator, mass spectrometry, data standards Juliana Assis (LU) |
Lund University | genomics, transcriptomics, system biology, metabolomics, data integration Lokeshwaran Manoharan (LU) |
Lund University | Genomics and metagenomics, Transcriptomics and metatranscriptomics, phylogenomics, Microbial Genomics, Amplicon sequencing analysis Louella Vasquez (LU) |
Lund University | Genomics, Epigenetics, Integrative omics, Genetic association studies, Statistical analysis Markus Ringnér (LU) |
SciLifeLab | Cancer genomics Nikolay Oskolkov (LU) |
SciLifeLab | genomics, transcriptomics, statistical analysis Paul Theodor Pyl (LU) |
Lund University | Genomics and metagenomics, Transcriptomics, Mass-spec Proteomics using DDA and DIA, Proteogenomics and Proteotranscriptomics, Cancer Linköping (Linköping University) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Claudio Mirabello (LiU) | Linköping University | proteomics, machine learning, structural bioinformatics | ||||||||||||||||
| Joel Hedlund (LiU) | Linköping University | Head of AIDA Data Hub, Sensitive data, AI, GDPR, Open Science, FAIR | ||||||||||||||||
| Malin Larsson (LiU) | Linköping University | genomics, cancer genomics | ||||||||||||||||
| Shreyas Shivakumara (LiU) | Linköping University | Sensitive data, AI, Systems development, Cloud Computing, Python |
NBIS staff organized by Scilifelab facility.
Support and Infrastructure
| Adnan Niazi (SLU) | SciLifeLab | RNAseq, Genome assembly Agata Smialowska (SU) |
SciLifeLab | experimental design, transcriptomics, epigenomics, chromatin, RNA biology, RNA-seq, sRNA-seq, ChIP-seq Airen Zaldivar (SU) |
SciLifeLab | systems development, python, java Alex Aperis (UU) |
SciLifeLab | python, cloud computing, scientific computing André E. R. Soares (UU) |
SciLifeLab | genomics, genome assembly, genome annotation, ancient DNA, phylogenetics, shell scripting Andreas Kähäri (UU) |
SciLifeLab | UNIX, C, Perl, MySQL, shell scripting, systems development Anna Hagwall (UU) |
Uppsala University | project management, agile Ashfaq Ali (LU) |
Lund University | Metabolomic, Transcriptomics, Proteomics, Systems Biology, Genomics, Genetics, Gene Environment Interactions Bengt Persson (UU/KI) |
SciLifeLab | NBIS director Dag Ahrén (LU) |
Lund University | Genomics, Transcriptomics, Genomic Ecology, Microbial Genomics, Reduced representation sequencing, RADSeq, NGS coordinator Daniel Malmodin (GU) |
University of Gothenburg | metabolomics Dimitrios Bampalikis (UU) |
SciLifeLab | Systems development, Web servers, Cloud computing Elin Kronander (UU) |
SciLifeLab | data management, Open Science, FAIR Erik Fasterius (SU) |
SciLifeLab | High-throughput sequencing, RNA-seq, scRNA-seq, variant analysis, data visualisation, machine learning, pipeline development, software development Eva Freyhult (UU) |
Uppsala University | statistics, multivariate analysis, network analysis Fredrik Levander (LU) |
University of Lund | proteomics, coordinator, mass spectrometry, data standards Henrik Lantz (UU) |
SciLifeLab | assembly, annotation, manager, Joint Head of Facility Support and Infrastructure Henrike Wiemker (UU) |
Uppsala University | system development, frontend, javascript Ingrid Hyltander (SU) |
SciLifeLab | systems development, computer security, cloud computing Jeanette Tångrot (UmU) |
Umeå University | genomics, RNAseq, amplicon sequencing analysis Jessica Lindvall (SU) |
SciLifeLab | manager, Joint Head of Facility Support and Infrastructure, Training coordinator, high throughput analyses, omics integration analyses Joakim Bygdell (UmU) |
Umeå University | systems development, cloud computing Johan Nylander (NRM) |
Swedish Museum of Natural History / SciLifeLab | evolutionary sequence analysis, phylogenetics, phylogenomics Johan Viklund (UU) |
SciLifeLab | NBIS Chief Technical Officer Jon Ander Novella (UU) |
SciLifeLab | Systems development, Cloud Computing, Reproducibility Jonas Hagberg (SU/UU) |
SciLifeLab | manager, devops, Joint Head of Facility Support and Infrastructure Juliana Assis (LU) |
Lund University | genomics, transcriptomics, system biology, metabolomics, data integration Julie Lorent (SU) |
SciLifeLab | RNA-seq, biostatistics Konstantinos Koumpouras (UU) |
SciLifeLab | Systems development, Cloud computing, Python, Golang Lokeshwaran Manoharan (LU) |
Lund University | Genomics and metagenomics, Transcriptomics and metatranscriptomics, phylogenomics, Microbial Genomics, Amplicon sequencing analysis Lucile Soler (UU) |
SciLifeLab | genome annotation, whole genome alignment, comparative genomic Magnus Alm Rosenblad (GU) |
University of Gothenburg | sequence analysis, transcriptomics, NGS coordinator Mahesh Binzer-Panchal (UU) |
SciLifeLab | genome assembly, transcriptome assembly, metagenomic assembly, variant calling, amplicon analysis, Nextflow, shell scripting, perl, groovy, java, R Malin Klang (UU) |
SciLifeLab | systems development, python Markus Englund (UU) |
SciLifeLab | data management, FAIR data, Open Science, reproducibility in science Martin Norling (UU) |
SciLifeLab | System development, web development, python Mattias Strömberg (UU) |
Uppsala University | data management, data management plans, Open Science, FAIR, repositories Mun-Gwan Hong (SU) |
Science for Life Laboratory | pqtl, affinity proteomics, genomics, gwas, epidemiology Nanjiang Shu (SU) |
SciLifeLab | Protein bioinformatics, Protein structure prediction, Machine learning, Web-server development, Cloud computing Niclas Jareborg (SU) |
SciLifeLab | data management, agile project management, lean, informatics, programming Nima Rafati (UU) |
SciLifeLab | NGS, genomics, comparative genomics, transcriptomics, small and large variant analyses, comparative genomics, gwas Olga Dethlefsen (SU) |
SciLifeLab | transcriptomics, genomics, epigenomics, clinical bioinformatics, biostatistics, machine learning, teaching Roy Francis (UU) |
SciLifeLab | experimental design, RNA-seq, scRNA-seq, Infinium methylation arrays, GATK variant-calling, R programming, data visualisation Rui Benfeitas (SU) |
SciLifeLab | Omics Integration, Systems Biology, Biological Network Analysis, Precision Medicine, RNAseq, Metabolism, Cancer, Metabolic Modeling Sara Light (SU) |
SciLifeLab | bioinformatics Sebastian DiLorenzo (UU) |
SciLifeLab | Cancer data analysis, NGS, epigenetics, Pipelines, Community, Teaching, R Sebastian Kapell (SU) |
SciLifeLab | Proteomics, Proteogenomics, Biological Network Analysis, Systems Biology, Immunology, Virology Stephan Nylinder (UU) |
Uppsala University | Data management, DMP, Open Science, FAIR, GDPR, Sensitive data Vincent van Hoef (UU) |
Uppsala University | genomics, transcriptomics, cancer, R, single-cell rna-seq, rna-seq Wolmar Nyberg Åkerström (UU) |
Uppsala University | data management, service design, integrations, repositories, CodeRefinery, software carpetry Yvonne Kallberg (SU) |
SciLifeLab | data management, data management plans, FAIR Long-term Support |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Allison Churcher (UmU) | SciLifeLab | genomics | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Anna Johansson (UU) | SciLifeLab | NGS variant analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Åsa Björklund (UU) | SciLifeLab | RNAseq, scRNAseq | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Bengt Sennblad (UU) | SciLifeLab | omics integration, reproducible research, probabilistic modeling, algorithmics, genetic interactions, genetic associations studies, genome evolution | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Björn Nystedt (UU) | SciLifeLab | de novo genome assembly, evolution | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Claudio Mirabello (LiU) | Linköping University | proteomics, machine learning, structural bioinformatics | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Diana Ekman (SU) | SciLifeLab | NGS variant analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Estelle Proux-Wera (SU) | SciLifeLab | RNA-seq, de novo RNA-seq assembly | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Jakub Orzechowski Westholm (SU) | SciLifeLab | RNA-seq, non-coding RNA, ChIP-seq, gene regulation | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Johan Reimegård (UU) | SciLifeLab | de novo RNA assembly, RNAseq, RNA structure analysis, Allele specific expression, non-coding RNA, miRNA, sRNA, education | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| John Sundh (SU) | SciLifeLab | metagenomics, bacterial genomics, cyanobacteria | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Jonas Söderberg (UU) | SciLifeLab | UPPMAX, SciLifeLab | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Louella Vasquez (LU) | Lund University | Genomics, Epigenetics, Integrative omics, Genetic association studies, Statistical analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Malin Larsson (LiU) | Linköping University | genomics, cancer genomics | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Marcel Martin (SU) | SciLifeLab | high-throughput sequencing | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Marcin Kierczak (UU) | Uppsala University | genomics, population genomics, R, GWAS, machine learning, AI, eDNA | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Markus Mayrhofer (UU) | SciLifeLab | cancer genomics, copy number analysis, mutational profiling | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Markus Ringnér (LU) | SciLifeLab | Cancer genomics | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Nikolay Oskolkov (LU) | SciLifeLab | genomics, transcriptomics, statistical analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Nina Norgren (UmU) | Umeå University | genomics | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Pär Engström (SU) | SciLifeLab | transcriptomics, functional and comparative genomics, genetic variation | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Paul Theodor Pyl (LU) | Lund University | Genomics and metagenomics, Transcriptomics, Mass-spec Proteomics using DDA and DIA, Proteogenomics and Proteotranscriptomics, Cancer | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Paulo Czarnewski (SU) | SciLifeLab | RNA-seq, scRNAseq, transcriptomics, Proximity Extension Assay (PEA), microbiome profiling, Flow cytometry (FACS) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Payam Emami (SU) | SciLifeLab | omics integration, reproducible research, mass spectrometry, proteomics, peptidomics, metabolomics, workflow, Galaxy, microservices, Kubernetes | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Per Unneberg (UU) | SciLifeLab | evolution, reproducible research, statistics, RNAseq, scRNAseq, genomics, variation analysis, population genetics | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Sergiu Netotea (Chalmers) | Chalmers | systems biology, network analysis, machine learning, cloud computing | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Susanne Reinsbach (Chalmers) | Chalmers | Cancer Genomics, Metagenomics, RNA-seq, Data Integration | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Tom van der Valk (UU) | Uppsala University | population genomics, convervation genomics, python | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Tomas Larsson (UU) | Chalmers | assembly, annotation, comparative genomics | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Verena Kutschera (SU) | SciLifeLab | population genomics, comparative genomics, molecular evolution, non-model organisms, phylogenetics |
Systems Biology
| Mihail Anton (Chalmers) | Chalmers | system development Thomas Svensson (CTH) |
SciLifeLab | functional genomics, metabolism, fysiology, systems biology, sequence analysis, Head of Facility Compute and Storage |
|---|---|---|---|---|
| Anders Sjölander (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||
| Björn Viklund (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||
| Lars Eklund (UU) | Uppsala University | uppmax, compute, storage, high-performance computing, chemistry, databases | ||
| Marcus Lundberg (UU) | Uppsala University | uppmax, compute, storage, high-performance computing | ||
| Martin Dahlö (UU) | SciLifeLab | systems development, uppmax |
Bioimage Informatics
Joel Hedlund (LiU)| Linköping University| Head of AIDA Data Hub, Sensitive data, AI, GDPR, Open Science, FAIR
Shreyas Shivakumara (LiU)| Linköping University| Sensitive data, AI, Systems development, Cloud Computing, Python
NBIS affiliates are bioinformaticians who collaborate with NBIS.
| Daniel Lundin (KTH) | SciLifeLab | metagenomics |
|---|---|---|
| Henric Zazzi (KTH) | PDC/SciLifeLab | bioinformatics software development |
| Petter Ranefall (UU) | Centre for Image Analysis | image analysis |