Jan 12, 2015

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

BioRxiv : the Preprint Server for Biology
Andreas StöckelRoman Klinger

Abstract

Translational neuroscience in the field of spinal cord injuries (SCI) faces a strong disproportion between immense preclinical research efforts and a lack of therapeutic approaches successful in human patients: Currently, preclinical research on SCI yields more than 3,000 new publications per year (8,000 when including the whole central nervous system, growing at an exponential rate), whereas none of the resulting therapeutic concepts has led to functional recovery of neural tissue in humans. Improving clinical researchers’ information access therefore carries the potential to support more effective selection of promising therapy candidates from preclinical studies. Thus, automated information extraction from scientific publications contributes to enabling meta studies and therapy grading by aggregating relevant information from the entire body of previous work on SCI. We present SCIE, an automated information extraction pipeline capable of detecting relevant information in SCI publications based on ontological entity and probabilistic relation detection. The input are plain text or PDF documents. As output, the user choses between an online visualization or a machine-readable format. Compared to human gold standard annotation...Continue Reading

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Mentioned in this Paper

Research
Meta Analysis (Statistical Procedure)
Malignant Neoplasm of Spinal Cord
Clinical Researcher
Research Personnel
Entire Central Nervous System
Neoplasm of Uncertain or Unknown Behavior of Spinal Cord
Protein Biosynthesis
Extraction
Preclinical Study

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