SCIE – Welcome

Spinal Cord Injury Information Extraction

SCIE is an ontology-based information extraction system that automatically extracts relevant preclinical knowledge about spinal cord injury treatments from natural language text.

This web service annotates individual papers that describe preclinical research (in PDF or plain text format), either via direct upload or automatically by using our API.

SCIE is free software licensed under the AGPL v3.0. You can learn more and download the current version at

Getting Started

Click on the "upload a document" button to continue to the document upload page.


If you use this work scientifically, please cite
  1. Benjamin Paassen, Andreas Stöckel, Raphael Dickfelder, Jan Philip Göpfert, Nicole Brazda, Tarek Kirchhoffer, Hans Werner Müller, Roman Klinger, Matthias Hartung and Philipp Cimiano

    Ontology-based Extraction of Structured Information from Publications on Preclinical Experiments for Spinal Cord Injury Treatments

    In Semantic Web and Information Extraction Workshop (SWAIE). The 25th International Conference on Computational Linguistics (COLING), Dublin. Ireland. August 2014

  2. Andreas Stöckel, Benjamin Paassen, Raphael Dickfelder, Jan Philipp Göpfert, Nicole Brazda, Hans Werner Müller, Philipp Cimiano, Matthias Hartung and Roman Klinger

    SCIE: Information Extraction for Spinal Cord Injury Preclinical Experiments – A Webservice and Open Source Toolkit

    In bioRxiv. Cold Spring Harbor Laboratory Press. January 2015,

Associated Institutes

Bielefeld University CIT-EC: Cognitive Interaction Technology - Excelence Cluster CNR: Center for Neuronal Regeneration