SERVICES

ELIXIR Norway offers services and infrastructure for life science, including software tools and workflows, databases and storage. In addition ELIXIR Norway provides support through its national helpdesk and offers trainings. Moreover, ELIXIR Norway provides services to the international research community.

E-infrastructure

 

 

Tools and data resources

 

 

Data management and data sharing


NeLS

The Norwegian e-infrastructure for life sciences (NeLS), is a unique national portal for sharing, analysis and mid-term storage of non-sensitive molecular life science data. (See also our separate services for sensitive data).

 

TSD

TSD, the Norwegian services for sensitive data, is a platform enabling collection, storage and analysis of sensitive research data in a secure environment. TSD is provided by the University of Oslo Centre for Information Technology (USIT), and has a long-standing collaboration with ELIXIR Norway and serves as a foundation when it comes to managing sensitive data. 

ELIXIR Norway can provide storage quotas on TSD.


Other Sensitive data platforms

ELIXIR Norway also provides access to other secure solutions to share, analyse and store potentially identifiable human data, including HUNT Cloud and SAFE.


Galaxy

Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational research. The usegalaxy.no platform offers DIY bioinformatics analysis with pre-made workflows and almost 2000 tools available.


The GSuite HyperBrowser

The GSuite/Genomic HyperBrowser is an open-ended web-server for analysis of large scale genomic and epigenomic tracks, built on Galaxy. It offers an easy and straightforward way to manage and analyse collections of genomic tracks


BioXSD/GTrack

The BioXSD/GTrack ecosystem is a family of interoperable data formats and supportive tools for biomolecular sequences, features, alignments, references.

 

FAIRtracks

FAIRtracks is an ecosystem for gathering, curating, validating, integrating, and indexing the metadata of genomic track datasets


SalmoBase

SalmoBase is a comprehensive data resource for Atlantic salmon and other salmonid genome information.


Licebase

LiceBase is a model organism database collecting genomic information and annotation of the Atlantic salmon louse, a major fish parasite with an impact on global ecology and aquaculture economy.


The Marine Metagenomics Portal

The Marine Metagenomics Portal provides access to high-quality curated and freely accessible marine microbial genomics and metagenomics resources. It includes the MAR databases, a collection of richly annotated and manually curated contextual and sequence databases, and MetaPipe, a complete workflow for the analysis of marine metagenomic data.

 

CarveME

CarveMe is a software tool for automated generation of genome-scale metabolic models

 

CHOPCHOP

CHOPCHOP is a web tool for identifying CRISPR–Cas single guide RNA (sgRNA) targets

 

immuneML

immuneML is a machine learning framework to predict adaptive immune response and disease.

 

NFEGA

NFEGA, the Norwegian Federated Node of EGA, the European Genome-Phenome Archive, a repository for personally identifiable genetic and phenotypic data from biomedical research projects.

 

Covid-19 Data Portal Norway

Covid-19 Data Portal Norway is a portal to Norwegian research efforts against Covid-19, with guidelines, tools, databases and services to support Norwegian COVID-19 researchers.

 

SARS-CoV2 DB

SARS-CoV2 DB is a database with high-quality curated and freely accessible SARS-CoV-2 genomics- and contextual resources.

 

JASPAR

JASPAR is an open access database of manually curated, non-redundant transcription factor (TF) binding profiles

 

MirGeneDB

MirGeneDB is a manually curated database of animal small non-coding RNAs

 

UniBind

UniBind is a portal to access a database storing collections of direct interactions between transcription factors and DNA (a.k.a. transcription factor binding sites) in nine species.

 

WEBnma

WEBnma is a tool to predict flexibility in protein structures.

 

BioMedData

BioMedData is a research infrastructure to promote FAIR data management with the life sciences. The project was established in 2020 as a collaboration between 11 Norwegian life-science infrastructures. BioMedData is funded by the Research Council of Norway and will run until 2024.

 

 

Data Stewardship Wizard

The Data Stewardship Wizard is an international project to help serious researchers and data stewards with building smart Data Management Plans (DMPs) for FAIR Open Science. We offer a dedicated instance for life scientists in Norway with tailored guidance.


Data sharing

In NeLS researchers can safely store and share scientific data, also with collaborators residing outside of Norway. In addition, data analysis performed in usegalaxy.no together with the results from the analysis can easily be shared with collaborators.


Data storage

ELIXIR Norway offers an infrastructure for storage of scientific data, intended for scientific research projects with larger sets of data (minimum 1TB) for mid-term storage. We currently offer free storage of data up to 10TB. For larger projects, please contact us at contact@bioinfo.no.

All research projects with a Norwegian partner with funding from national funding bodies (NFR, Universities, Helseforetak, etc) and EU grants are entitled to store life science data in NeLS. This also includes private companies and governmental research institutions.

Research projects (with a Norwegian partner) that do not fall into the definition above can still apply for a storage quota, but these projects will be treated according to the user contribution model for granting storage to projects by Sigma2.

If you data is generated at one of the Norwegian sequencing core facilities organized in NorSeq, your core facility can help you with the application and directly upload the data to NeLS for you.

The storage quota provided are available in the NeLS infrastructure for non-sensitive data and in TSD for sensitive data. This service is operated in collaboration with Sigma2, through the national storage infrastructure NIRD.

 

EDAM

EDAM, provided in tight collaboration with ELIXIR France is a comprehensive ontology of well-established, familiar concepts that are prevalent within bioinformatics and computational biology, including types of data and data identifiers, data formats, operations and topics. EDAM provides a set of concepts with preferred terms and synonyms, definitions, and some additional information - organised into a simple and intuitive hierarchy for convenient use.

 

Interoperability

Interoperability is one of the four FAIR principles and means the ability of systems and tools to exchange and make use of information and thereby work together. ELIXIR Norway staff is strongly involved in the activities of the ELIXIR Interoperability Platform, which develops and encourages the adoption of standards to describe life science data.