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 | economy, administration |
| 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 |
| Carolina Wählby (UU) | Uppsala University | bioimage analysis |
| Anna Klemm (UU) | Uppsala University | bioimage analysis, microscopy, open source software, Fiji, CellProfiler, QuPath, Python |
| Bioimage Informatics | ||
| Christophe Avenel (UU) | Uppsala University | bioimage, machine learning, image analysis, deep learning, spatial omics, python |
| Fredrik Nysjö (UU) | Uppsala University | image analysis, visualization, c++, python |
| Gisele Miranda (KTH) | Science for Life Laboratory | bioimage analysis, machine learning |
| Robert Welch (KTH) | SciLifeLab | image analysis, python |
| Data Management | ||
| Elin Kronander (UU) | SciLifeLab | data management, Open Science, FAIR |
| Maja Pelve (UU) | Uppsala University | data management, FAIR data |
| 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 |
| Development | ||
| Alex Aperis (UU) | SciLifeLab | python, cloud computing, scientific computing |
| Andreas Kähäri (UU) | SciLifeLab | UNIX, C, Perl, MySQL, shell scripting, systems development |
| Betül Eren Keskin (LiU) | Linköping University | Sensitive data, AI, Data sharing, Python |
| Dimitrios Bampalikis (UU) | SciLifeLab | Systems development, Web servers, Cloud computing |
| Emre Balsever (LiU) | Linköping University | Python & Backend developer, System development, Sensitive data, AI | ML | DL |
| Henrike Wiemker (UU) | Uppsala University | system development, frontend, javascript |
| Ingrid Hyltander (SU) | SciLifeLab | systems development, computer security, cloud computing |
| Jessica Sandler (UU) | SciLifeLab | System development, Frontend development, JavaScript |
| Joakim Bygdell (UmU) | Umeå University | systems development, cloud computing |
| Jon Ander Novella (UU) | SciLifeLab | Systems development, Cloud Computing, Reproducibility |
| Katarina Lejonlid (UU) | Uppsala University | system development, front end, full stack, git |
| 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 |
| Mattias Nyberg (UU) | Uppsala University | system development, front-end, react, scss, python, typescript, playcanvas/webgl, linux |
| Nanjiang Shu (SU) | SciLifeLab | Protein bioinformatics, Protein structure prediction, Machine learning, Web-server development, Cloud computing |
| Per Johnsson (UU) | SciLifeLab | systems development, agile coaching |
| Pontus Freyhult (LiU) | Linköping University | unix, infrastructure, hpc, systems development, architecture, support |
| Shreyas Shivakumara (LiU) | Linköping University | Sensitive data, AI, Systems development, Cloud Computing, Python |
| Varshith konda (LiU) | Linköping University | Sensitive data, AI, Systems development, Cloud Computing, Python, Web development |
| 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 |
| 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 |
| 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 |
| Jason Anthony Hill (UU) | SciLifeLab | evolution, genomics, variation analysis, population genetics, structural biology |
| 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, Genome/Transcriptome assembly, Genome annotation, Transcriptomics, Small and large variant analyses, Comparative genomics, GWAS, scRNASeq, Methylation |
| 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 |
| Prasoon Agarwal (LU) | Lund University | Metabolomic, Transcriptomics, Proteomics, Genomics, Data integration |
| 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 |
| Metabolomics | ||
| Daniel Malmodin (GU) | University of Gothenburg | metabolomics |
| 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 |
| Sequence Analysis | ||
| Johan Nylander (NRM) | Swedish Museum of Natural History / SciLifeLab | evolutionary sequence analysis, phylogenetics, phylogenomics |
| 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 |
| Systems Biology | ||
| Mihail Anton (Chalmers) | Chalmers | system development |
| Rasool Saghaleyni (Chalmers) | Chalmers | computational biology |
| Sergiu Netotea (Chalmers) | Chalmers | systems biology, network analysis, machine learning, cloud computing |
| Susanne Reinsbach (Chalmers) | Chalmers | Cancer Genomics, Metagenomics, RNA-seq, Data Integration |
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 |
| 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 |
| Gisele Miranda (KTH) | Science for Life Laboratory | bioimage analysis, machine learning |
| 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 |
| Robert Welch (KTH) | SciLifeLab | image analysis, python |
| 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 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 |
| Anna Klemm (UU) | Uppsala University | bioimage analysis, microscopy, open source software, Fiji, CellProfiler, QuPath, Python |
| 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 |
| Carolina Wählby (UU) | Uppsala University | bioimage analysis |
| Christophe Avenel (UU) | Uppsala University | bioimage, machine learning, image analysis, deep learning, spatial omics, python |
| 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 |
| Fredrik Nysjö (UU) | Uppsala University | image analysis, visualization, c++, python |
| Henrik Lantz (UU) | SciLifeLab | assembly, annotation, manager, Joint Head of Facility Support and Infrastructure |
| Henrike Wiemker (UU) | Uppsala University | system development, frontend, javascript |
| Jason Anthony Hill (UU) | SciLifeLab | evolution, genomics, variation analysis, population genetics, structural biology |
| Jessica Lindberg (UU) | SciLifeLab | economy, administration |
| Jessica Sandler (UU) | SciLifeLab | System development, Frontend development, JavaScript |
| 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 |
| Katarina Lejonlid (UU) | Uppsala University | system development, front end, full stack, git |
| 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 |
| Maja Pelve (UU) | Uppsala University | data management, FAIR data |
| 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 Nyberg (UU) | Uppsala University | system development, front-end, react, scss, python, typescript, playcanvas/webgl, linux |
| Mattias Strömberg (UU) | Uppsala University | data management, data management plans, Open Science, FAIR, repositories |
| Nima Rafati (UU) | SciLifeLab | NGS, Genomics, Genome/Transcriptome assembly, Genome annotation, Transcriptomics, Small and large variant analyses, Comparative genomics, GWAS, scRNASeq, Methylation |
| Per Johnsson (UU) | SciLifeLab | systems development, agile coaching |
| Per Unneberg (UU) | SciLifeLab | evolution, reproducible research, statistics, RNAseq, scRNAseq, genomics, variation analysis, population genetics |
| Pontus Freyhult (LiU) | Linköping University | unix, infrastructure, hpc, systems development, architecture, support |
| 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 |
| Rasool Saghaleyni (Chalmers) | Chalmers | computational biology |
| 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 |
| 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 |
| Prasoon Agarwal (LU) | Lund University | Metabolomic, Transcriptomics, Proteomics, Genomics, Data integration |
| Linköping (Linköping University) | ||
| Betül Eren Keskin (LiU) | Linköping University | Sensitive data, AI, Data sharing, Python |
| Claudio Mirabello (LiU) | Linköping University | proteomics, machine learning, structural bioinformatics |
| Emre Balsever (LiU) | Linköping University | Python & Backend developer, System development, Sensitive data, AI | ML | DL |
| 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 |
| Varshith konda (LiU) | Linköping University | Sensitive data, AI, Systems development, Cloud Computing, Python, Web development |
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 |
| 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 |
| 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 |
| Jessica Sandler (UU) | SciLifeLab | System development, Frontend development, JavaScript |
| 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 |
| Katarina Lejonlid (UU) | Uppsala University | system development, front end, full stack, git |
| 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 |
| Maja Pelve (UU) | Uppsala University | data management, FAIR data |
| 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 Nyberg (UU) | Uppsala University | system development, front-end, react, scss, python, typescript, playcanvas/webgl, linux |
| 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, Genome/Transcriptome assembly, Genome annotation, Transcriptomics, Small and large variant analyses, Comparative genomics, GWAS, scRNASeq, Methylation |
| Olga Dethlefsen (SU) | SciLifeLab | transcriptomics, genomics, epigenomics, clinical bioinformatics, biostatistics, machine learning, teaching |
| Per Johnsson (UU) | SciLifeLab | systems development, agile coaching |
| Prasoon Agarwal (LU) | Lund University | Metabolomic, Transcriptomics, Proteomics, Genomics, Data integration |
| 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 |
| 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 |
| Rasool Saghaleyni (Chalmers) | Chalmers | computational biology |
| 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 | ||
| Anna Klemm (UU) | Uppsala University | bioimage analysis, microscopy, open source software, Fiji, CellProfiler, QuPath, Python |
| Carolina Wählby (UU) | Uppsala University | bioimage analysis |
| Christophe Avenel (UU) | Uppsala University | bioimage, machine learning, image analysis, deep learning, spatial omics, python |
| Fredrik Nysjö (UU) | Uppsala University | image analysis, visualization, c++, python |
| Gisele Miranda (KTH) | Science for Life Laboratory | bioimage analysis, machine learning |
| Robert Welch (KTH) | SciLifeLab | image analysis, python |
| AIDA Data Hub | ||
| Betül Eren Keskin (LiU) | Linköping University | Sensitive data, AI, Data sharing, Python |
| Emre Balsever (LiU) | Linköping University | Python & Backend developer, System development, Sensitive data, AI | ML | DL |
| Joel Hedlund (LiU) | Linköping University | Head of AIDA Data Hub, Sensitive data, AI, GDPR, Open Science, FAIR |
| Pontus Freyhult (LiU) | Linköping University | unix, infrastructure, hpc, systems development, architecture, support |
| Shreyas Shivakumara (LiU) | Linköping University | Sensitive data, AI, Systems development, Cloud Computing, Python |
| Varshith konda (LiU) | Linköping University | Sensitive data, AI, Systems development, Cloud Computing, Python, Web development |
NBIS affiliates are bioinformaticians who collaborate with NBIS.
| NBIS affiliates | ||
|---|---|---|
| Daniel Lundin (KTH) | SciLifeLab | metagenomics |
| Henric Zazzi (KTH) | PDC/SciLifeLab | bioinformatics software development |