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 |
| Mikael Borg (SU) | SciLifeLab | coordination, infrastructure |
| Björn Nystedt (UU) | SciLifeLab | de novo genome assembly, evolution |
| Pär Engström (SU) | SciLifeLab | transcriptomics, functional and comparative genomics, genetic variation |
| Thomas Svensson (CTH) | SciLifeLab | functional genomics, metabolism, fysiology, systems biology, sequence analysis, Head of Facility |
| Marcus Holm (UU) | Uppsala University | uppmax, compute, storage, high-performance computing |
| Jessica Lindberg (UU) | Scilifelab | administration, economy |
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 |
| 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 |
| Jessica Lindvall (SU) | ScilifeLab | high throughput analyses |
| 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 |
| Katarina Truvé (GU) | University of Gothenburg | clinical NGS data |
| Magnus Alm Rosenblad (GU) | University of Gothenburg | sequence analysis, transcriptomics, NGS coordinator |
| Malin Larsson (LiU) | Linköping University | genetic variation, somatic variation |
| Marcel Martin (SU) | Scilifelab | high-throughput sequencing |
| Marcin Kierczak (UU) | SciLifeLab | genmics, GWAS, GxG and GxE interactions, machine learning, linear mixed models, R programming, data visualisation, population genomics, eDNA |
| Markus Mayrhofer (UU) | Scilifelab | cancer genomics, copy number analysis, mutational profiling |
| Markus Ringnér (LU) | SciLifeLab | Cancer genomics |
| Mihaela Martis (LiU) | Linköping University | transcriptomics, comparative genomics |
| Nikolay Oskolkov (LU) | Scilifelab | genomics, transcriptomics, statistical analysis |
| Nina Norgren (UmU) | Umeå University | genomics |
| Olga Dethlefsen (SU) | SciLifeLab | RNA-seq, scRNA-seq, experimental design, biostatistics, genomics, transcriptomics, metabolomics |
| 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, transcriptomics, RNA-seq, sRNA-seq, scRNA-seq, SNPs, GATK variant-calling, R programming, data visualisation |
| Sebastian DiLorenzo (UU) | SciLifeLab | Cancer data analysis, NGS, epigenetics, Pipelines |
| Verena Kutschera (SU) | SciLifeLab | population genetics, phylogenetics, comparative genomics, molecular evolution |
Genome Assembly and Annotation | ||
| Henrik Lantz (UU) | SciLifeLab | genomics, transcriptomics, NGS coordinator |
| Jacques Dainat (UU) | SciLifeLab | genome annotation, transcriptome annotation, transcriptome assembly, phylogenetics, phylogenomics, comparative genomics, evolutionary sequence analysis |
| Lucile Soler (UU) | SciLifeLab | genome annotation, whole genome alignment, comparative genomic |
| Mahesh Binzer-Panchal (UU) | SciLifeLab | genomic assembly |
Proteomics | ||
| Bo Ek (UU) | BMC | proteomics |
| Fredrik Levander (LU) | University of Lund | proteomics, coordinator, mass spectrometry, data standards |
| Payam Emami (SU) | SciLifeLab | omics integration, reproducible research, mass spectrometry, proteomics, peptidomics, metabolomics, workflow, Galaxy, microservices, Kubernetes |
Systems biology | ||
| Andrey Alexeyenko (KI) | SciLifeLab | systems biology |
| Leif Väremo (Chalmers) | Chalmers | RNAseq, scRNAseq, metabolic modeling, systems biology |
| Rasmus Ågren (Chalmers) | Chalmers | omics integration, reproducible research, metabolism, systems biology |
| Sergiu Netotea (Chalmers) | Chalmers | systems biology, network analysis, machine learning, cloud computing |
| Viktor Jonsson (Chalmers) | Chalmers | metageonmics, biostatistics, statistical modelling, RNAseq, scRNAseq |
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, training coordinator |
| Yvonne Kallberg (SU) | SciLifeLab | protein bioinformatics |
Development | ||
| 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 |
| Joakim Bygdell (UmU) | Umeå University | systems development, cloud computing |
| Johan Viklund (UU) | SciLifeLab | System development, perl, python, groovy, git, R, containers |
| Jon Ander Novella (UU) | SciLifeLab | Systems development, Cloud Computing, Software Design, Scientific Workflows, Reproducibility, Distributed Computing |
| Jonas Hagberg (SU) | SciLifeLab/telecommuting | Development Team Manager, systems development |
| Malin Ahlberg (UU) | SciLifeLab | systems development, python |
| Martin Norling (UU) | SciLifeLab | genome assembly |
| Nanjiang Shu (SU) | SciLifeLab | Protein bioinformatics, Protein structure prediction, Machine learning, Web-server development, Cloud computing |
Software and Systems | ||
| Jonas Söderberg (UU) | SciLifeLab | UPPMAX, SciLifeLab |
| Martin Dahlö (UU) | SciLifeLab | systems development, uppmax |
| Pontus Freyhult (UU) | UPPMAX | data management, software development |
| Stefan Fleischmann (SU) | SciLifeLab | system administration, GNU/Linux, virtualization, LXC/LXD, MAAS, Ansible, Salt |
| Valentin Georgiev (UU) | SciLifeLab | scientific computing, uppmax, bioinformatics support |
Statistics | ||
| Eva Freyhult (UU) | Uppsala University | statistics, multivariate analysis, network analysis |
Data services | ||
| Niclas Jareborg (SU) | SciLifeLab | data management, agile project management, lean, informatics, programming |
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 |
| Andrey Alexeyenko (KI) | SciLifeLab | systems biology |
| Bengt Persson (UU/KI) | SciLifeLab | NBIS director |
| 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 |
| Jessica Lindvall (SU) | ScilifeLab | high throughput 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) | SciLifeLab/telecommuting | Development Team Manager, systems development |
| Marcel Martin (SU) | Scilifelab | high-throughput sequencing |
| Mikael Borg (SU) | SciLifeLab | coordination, infrastructure |
| 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 | RNA-seq, scRNA-seq, experimental design, biostatistics, genomics, transcriptomics, metabolomics |
| 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 |
| Sara Light (SU) | SciLifeLab | bioinformatics, training coordinator |
| Stefan Fleischmann (SU) | SciLifeLab | system administration, GNU/Linux, virtualization, LXC/LXD, MAAS, Ansible, Salt |
| Verena Kutschera (SU) | SciLifeLab | population genetics, phylogenetics, comparative genomics, molecular evolution |
| Yvonne Kallberg (SU) | SciLifeLab | protein bioinformatics |
Uppsala (Uppsala University, SLU) | ||
| Adnan Niazi (SLU) | Scilifelab | RNAseq, Genome assembly |
| Anders Larsson (UU) | SciLifeLab | Systems development, Java, Ferns, Cloud computing |
| Andreas Kähäri (UU) | SciLifeLab | UNIX, C, Perl, MySQL, shell scripting, systems development |
| 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 |
| Bo Ek (UU) | BMC | proteomics |
| Dimitrios Bampalikis (UU) | SciLifeLab | Systems development, Web servers, Cloud computing |
| Eva Freyhult (UU) | Uppsala University | statistics, multivariate analysis, network analysis |
| Henrik Lantz (UU) | SciLifeLab | genomics, transcriptomics, NGS coordinator |
| Jacques Dainat (UU) | SciLifeLab | genome annotation, transcriptome annotation, transcriptome assembly, phylogenetics, phylogenomics, comparative genomics, evolutionary sequence analysis |
| 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 | System development, perl, python, groovy, git, R, containers |
| Jon Ander Novella (UU) | SciLifeLab | Systems development, Cloud Computing, Software Design, Scientific Workflows, Reproducibility, Distributed Computing |
| Jonas Söderberg (UU) | SciLifeLab | UPPMAX, SciLifeLab |
| Lucile Soler (UU) | SciLifeLab | genome annotation, whole genome alignment, comparative genomic |
| Mahesh Binzer-Panchal (UU) | SciLifeLab | genomic assembly |
| Malin Ahlberg (UU) | SciLifeLab | systems development, python |
| Marcin Kierczak (UU) | SciLifeLab | genmics, GWAS, GxG and GxE interactions, machine learning, linear mixed models, R programming, data visualisation, population genomics, eDNA |
| Marcus Holm (UU) | Uppsala University | uppmax, compute, storage, high-performance computing |
| Markus Mayrhofer (UU) | Scilifelab | cancer genomics, copy number analysis, mutational profiling |
| Martin Dahlö (UU) | SciLifeLab | systems development, uppmax |
| Martin Norling (UU) | SciLifeLab | genome assembly |
| Per Unneberg (UU) | SciLifeLab | evolution, reproducible research, statistics, RNAseq, scRNAseq, genomics, variation analysis, population genetics |
| Pontus Freyhult (UU) | UPPMAX | data management, software development |
| Roy Francis (UU) | Scilifelab | experimental design, transcriptomics, RNA-seq, sRNA-seq, scRNA-seq, SNPs, GATK variant-calling, R programming, data visualisation |
| Sebastian DiLorenzo (UU) | SciLifeLab | Cancer data analysis, NGS, epigenetics, Pipelines |
| Valentin Georgiev (UU) | SciLifeLab | scientific computing, uppmax, bioinformatics support |
Umeå (Umeå University) | ||
| Allison Churcher (UmU) | Scilifelab | genomics |
| Jeanette Tångrot (UmU) | Umeå University | genomics |
| 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 |
| Katarina Truvé (GU) | University of Gothenburg | clinical NGS data |
| Leif Väremo (Chalmers) | Chalmers | RNAseq, scRNAseq, metabolic modeling, systems biology |
| Magnus Alm Rosenblad (GU) | University of Gothenburg | sequence analysis, transcriptomics, NGS coordinator |
| Rasmus Ågren (Chalmers) | Chalmers | omics integration, reproducible research, metabolism, systems biology |
| Sergiu Netotea (Chalmers) | Chalmers | systems biology, network analysis, machine learning, cloud computing |
| Thomas Svensson (CTH) | SciLifeLab | functional genomics, metabolism, fysiology, systems biology, sequence analysis, Head of Facility |
| Viktor Jonsson (Chalmers) | Chalmers | metageonmics, biostatistics, statistical modelling, RNAseq, scRNAseq |
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 |
| Markus Ringnér (LU) | SciLifeLab | Cancer genomics |
| Nikolay Oskolkov (LU) | Scilifelab | genomics, transcriptomics, statistical analysis |
Linköping (Linköping University) | ||
| Malin Larsson (LiU) | Linköping University | genetic variation, somatic variation |
| Mihaela Martis (LiU) | Linköping University | transcriptomics, comparative genomics |
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 |
| Andreas Kähäri (UU) | SciLifeLab | UNIX, C, Perl, MySQL, shell scripting, systems development |
| Andrey Alexeyenko (KI) | SciLifeLab | systems biology |
| Ashfaq Ali (LU) | Lund University | Metabolomic, Transcriptomics, Proteomics, Systems Biology, Genomics, Genetics, Gene Environment Interactions |
| Bengt Persson (UU/KI) | SciLifeLab | NBIS director |
| Bo Ek (UU) | BMC | proteomics |
| 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 |
| 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 | genomics, transcriptomics, NGS coordinator |
| Jacques Dainat (UU) | SciLifeLab | genome annotation, transcriptome annotation, transcriptome assembly, phylogenetics, phylogenomics, comparative genomics, evolutionary sequence analysis |
| Jeanette Tångrot (UmU) | Umeå University | genomics |
| Jessica Lindvall (SU) | ScilifeLab | high throughput 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 | System development, perl, python, groovy, git, R, containers |
| Jon Ander Novella (UU) | SciLifeLab | Systems development, Cloud Computing, Software Design, Scientific Workflows, Reproducibility, Distributed Computing |
| Jonas Hagberg (SU) | SciLifeLab/telecommuting | Development Team Manager, systems development |
| Katarina Truvé (GU) | University of Gothenburg | clinical NGS data |
| 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 | genomic assembly |
| Malin Ahlberg (UU) | SciLifeLab | systems development, python |
| Martin Norling (UU) | SciLifeLab | genome assembly |
| Mihaela Martis (LiU) | Linköping University | transcriptomics, comparative genomics |
| Mikael Borg (SU) | SciLifeLab | coordination, infrastructure |
| 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 | RNA-seq, scRNA-seq, experimental design, biostatistics, genomics, transcriptomics, metabolomics |
| Pontus Freyhult (UU) | UPPMAX | data management, software development |
| Roy Francis (UU) | Scilifelab | experimental design, transcriptomics, RNA-seq, sRNA-seq, scRNA-seq, SNPs, GATK variant-calling, R programming, data visualisation |
| Sara Light (SU) | SciLifeLab | bioinformatics, training coordinator |
| Sebastian DiLorenzo (UU) | SciLifeLab | Cancer data analysis, NGS, epigenetics, Pipelines |
| Stefan Fleischmann (SU) | SciLifeLab | system administration, GNU/Linux, virtualization, LXC/LXD, MAAS, Ansible, Salt |
| Yvonne Kallberg (SU) | SciLifeLab | protein bioinformatics |
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 |
| 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 |
| Leif Väremo (Chalmers) | Chalmers | RNAseq, scRNAseq, metabolic modeling, systems biology |
| Malin Larsson (LiU) | Linköping University | genetic variation, somatic variation |
| Marcel Martin (SU) | Scilifelab | high-throughput sequencing |
| Marcin Kierczak (UU) | SciLifeLab | genmics, GWAS, GxG and GxE interactions, machine learning, linear mixed models, R programming, data visualisation, population genomics, 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 |
| 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 |
| Verena Kutschera (SU) | SciLifeLab | population genetics, phylogenetics, comparative genomics, molecular evolution |
| Viktor Jonsson (Chalmers) | Chalmers | metageonmics, biostatistics, statistical modelling, RNAseq, scRNAseq |
Systems Biology | ||
| Rasmus Ågren (Chalmers) | Chalmers | omics integration, reproducible research, metabolism, systems biology |
| Thomas Svensson (CTH) | SciLifeLab | functional genomics, metabolism, fysiology, systems biology, sequence analysis, Head of Facility |
Compute and Storage | ||
| Marcus Holm (UU) | Uppsala University | uppmax, compute, storage, high-performance computing |
| Martin Dahlö (UU) | SciLifeLab | systems development, uppmax |
| Valentin Georgiev (UU) | SciLifeLab | scientific computing, uppmax, bioinformatics support |
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 |