Welcome to OpenSILEX

An Open Source information system.

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About OpenSILEX

OpenSILEX is a set of interoperable software modules (structuring, visualization, analysis, reproducibility, etc.) which allows the creation of scientific information systems dedicated to the exploitation of large-scale data in agronomy.
OpenSILEX instances are used on a daily basis by around ten research units around the world, technical institutes and partnerships (e.g., Terre-Inovia, IFV, FUI Pilotype, Moët-et-Chandon, Lallemand), for example :

  • PHIS (high throughput plant phenotyping),
  • Alfis,
  • Silex-VitiOeno (wine and viticulture),
  • Silex-LBE (depollution).

Thanks to concrete features for sharing and reusing data, OpenSILEX greatly promotes the development of open science and the creation of value around data.
The PHIS instance, for example, has established itself as an international benchmark for the structuring and exploitation of large-scale data produced by high-throughput phenotyping with the Phenome or EMPHASIS platforms.
The work around OpenSilex is based on strong collaborations (INRIA, University of Montpellier, I3S CNRS, WUR (NL), CNR (It), Univ Tokyo).


OpenSILEX keywords

OpenSILEX is an ontology-driven Information System designed for life science data.

  • Ontology-driven architecture
  • Fair data
  • Modular architecture
  • BrAPI compatibility
  • Adaptability

How does it works ?

OpenSILEX main features

Web Service API

The Service API allows integration of data from external databases and resources, export to computing and modelling platforms and integration of phenomic data into other systems.

Web user Interface

A Web user interface allows exploration of data through interactive and user-friendly menus and tools.


Two application ontologies (OESO and OEEV describe objects and events involved in life science experiments.

Open Source

OpenSILEX is available as an open source software under a GNU Affero General Public License version 2. Source code, user and developer documentation are available at github.com/OpenSILEX.

Object identification

The use of URIs allows standardized, unique and unambiguous identification of objects involved in experiments. Generate your own objects uri: URI Generator.

Events and Annotations

Datasets are enriched with knowledge and metadata enabling the reuse of data and meta-analyses.

Object tracking

Tracking features based on object identifcation and events allows following the different objects involved in experiment in time and space.

Data Integration

OpenSILEX allows to store, organise and manage heterogenous multi-deminsional data originating from multiple sources.

Advanced data querying

An inference engine based on the semantics and rules represented in the ontologies enables advanced queries, thereby linking the knowledge stored in the Triple Store to the information distributed among the different storage systems.

Graphic Visualisation

Advanced visualization features allow displaying images, dynamic graphs of static or time courses of variables.

Analysis and Workflows

Different tools allow advanced data querying and computing features including data analysis tools and integration of workflows.

Hybrid storage system

OpenSILEX is a hybrid system based on different storage databases (RDF4J, MongoDB, iRODS).

App Gallery

Team Members



2, place Pierre Viala
Campus La Gaillarde, bat. 29
34060 Montpellier Cedex 2