Open search

Squidr

Store your study data

then share them with others

A platform for researchers to store, share, explore and download study datasets in nutrition and related fields.

Build by community for community.

key benefits

A strong support for data management

and research collaboration

Powerful features designed to make data hubs, sharing and discovering data sets easier than ever

Central & local repositories connected

Store all your datasets in a local repository with full institutional control or add them in a central, secure, accessible location.

Community Driven

Collaborate with researchers worldwide. Share insights, review studies, and build knowledge together.

Open & Transparent

Full transparency, open-source code. Your data, your control, your way.

Fast Search

Powerful search capabilities to find relevant studies instantly with advanced filters.

Version Control

Track changes, manage versions, and maintain a complete history of your research.

Multiple Formats

Support for various file formats including questionnaires, ’omics datasets, and more.

How it works

In Squidr the steps to sharing and discovering research, is easy.

01 Upload your study

Create your own protected organization or login to Common. Upload your dataset as a csv-file, add additional datasets and metadata to create a study. Add publication, protocol or other materials in any format.

02 Discover and explore

Browse through the available collection of studies, filter by topic, author, or methodology, and find exactly what you need.

03 Collaborate and share

Add collaborators to share your data set, study or data hub. Connect with others to work on existing datasets in Squidr. Science is better as a community.

core features

Open science, insights & guides

A flexible repository for sharing, structuring, and collaborating on research data.

Squidr is a structured database designed to work at the same time as a data hub, for storage of study data, and as a FAIR data sharing system. Squidr is highly versatile allowing any type of data, i.e. measurements, questionnaires, ‘omics datasets, and study designs to be stored in a logical way.

It allows searching for specific kinds of variables, e.g. for mass spectrometric features, microbials, or resilience-related biomarkers or for specific study objects, e.g. those with a certain characteristic at baseline. It allows for detailed control of permissions, e.g. for data upload or download.

Squidr can also hold data-related documents, e.g. legal documents related to a study or publication output. You can link to repositories with the corresponding raw data files but not store them directly within Squidr.

Squidr is a

Data hub

For collaborative projects, you need a data hub to share curated output data openly across the project group.

SQUIDR can easily help you in sharing structured data within your project group:

Create a project organization and add access for all members of the collaboration.
Enter a data set. The more complete, the better.
Study to allow queries and data extraction across the whole study.
Download extracted data, then make data analyses and reports using your usual tools for these purposes (e.g. R).

STUDIES CAN BE DEFINED BY A SET OF

7 DESIGN VARIABLES

Both experimental and observational data usually have identifiers (a subject_ID), which represent unique IDs for the objects being studied. This is the primary design variable, and SQUIDR also generates one for internal use. You may have created your own identifiers for your study or you may use a globally unique identifier by applying a UUID generator, e.g. by registering samples in BioSamples (https://www.ebi.ac.uk/biosamples/) or similar registries.
The study objects may all belong to a single cohort or group, here termed a startgroup, or you may have an experimental design with 2 or more groups, thereby having several startgroups. In cross-over designs the objects may experience several treatments (a, b, c..) in the course of the experiment, and each sequence of treatments (abc, acb, cba,…) is then a unique startgroup.

In the course of a study, you may interact your object only on one occasion, e.g. at baseline, or you may do it repeatedly, so the occasion number (event) is a unique identifier.
On any such occasion you may interact with the object for instance by challenging it, thereby creating one or more subevents and/or you may take a sample from your study object, creating a sampling event.
If the sampling is repeated within a specific sampling event it is necessary to add a specific sampling ordinal time (e.g. 1,2,4, 8, 16… min).
The Subject_ID, Startgroup, Center, Event, Subevent, Sampling event, and Sampling ordinal time, comprise the design variables that must accompany any measurements during upload.
Study objects may be recruited at several geographical places, each using a similar numbering system and grouping, and the Center is therefore also a design variable.

UPLOADING AND SEARCHING

METABOLOMICS DATA

After uploading the file you must add the variable info, which is the information identifying the features in the dataset; all features have a retention time (rt) and a mass (m/z), and the simplest variable info is to add this information as e.g. “rt3.54mz234.0543”, which is a format that can be parsed by squidr. The variable info allows several layers, such as feature id (chemical name), molecular formula, feature group, etc.

A decade of progress

Open science has experienced remarkable growth over the past decade, transforming the way research is shared and accessed worldwide.

100000 K

Indexed Repositories

The use of indexed data repositories went from 10K in 2015 to more than 20K in 2025.

100000 K

Gold Open Access

Publishers in the STEM field experienced a growth of 27% in the last decade.

100000 M

Registred Users

An increased growth in registered users by 2M from 2020 to 2025.

Team Squidr

The dedicated team that made it happen.

Jan Stanstrup

Tester

Lars Ove Dragsted

System Outline & Vision

Finn Sandø

Programmer

Susanne Riber

UI/UX Designer

Thank you

For your

generous support

NuGO, FAIR, Phenotype Database,

University of Copenhagen, Carlsberg Fondet,

JPI - A Healthy Diet for a Healthy Life.

FAQ

Things you might like to know

How do I upload my research?

WIP

Is Squidr really free?

The answer is yes, Squidr is free forever!

How is my data protected?

WIP

Can I collaborate with others?

WIP

How do I cite studies from Squidr?

WIP

How can I contribute to Squidr?

WIP