RegenBase: a knowledge base of spinal cord injury biology for translational research.

Spinal cord injury (SCI) research is a data-rich field that aims to identify the biological mechanisms resulting in loss of function and mobility after SCI, as well as develop therapies that promote recovery after injury. SCI experimental methods, data and domain knowledge are locked in the largely unstructured text of scientific publications, making large scale integration with existing bioinformatics resources and subsequent analysis infeasible. The lack of standard reporting for experiment variables and results also makes experiment replicability a significant challenge. To address these challenges, we have developed RegenBase, a knowledge base of SCI biology. RegenBase integrates curated literature-sourced facts and experimental details, raw assay data profiling the effect of compounds on enzyme activity and cell growth, and structured SCI domain knowledge in the form of the first ontology for SCI, using Semantic Web representation languages and frameworks. RegenBase uses consistent identifier schemes and data representations that enable automated linking among RegenBase statements and also to other biological databases and electronic resources. By querying RegenBase, we have identified novel biological hypotheses linking the effects of perturbagens to observed behavioral outcomes after SCI. RegenBase is publicly available for browsing, querying and download.Database URL:http://regenbase.org

Semi-Automatic Extraction of Training Examples From Sensor Readings for Fall Detection and Posture Monitoring

While inexpensive wearable motion-sensing devices have shown great promise for fall detection and posture monitoring, two major problems still exist and have to be solved: a framework for the development of firmware and software to make intelligent decisions. We address both the problems. We propose a generic framework for developing the firmware. We also demonstrate that the k-means clustering algorithm can semi-automatically extract training examples from motion data. Moreover, we trained and evaluated several one- and two-level classification networks to monitor non-fall activities and to detect fall events. The proposed classification networks are the combinations of neural networks and softmax regression. These networks are trained offline with examples extracted by our proposed method. The cross-validation of trained two-level networks shows 100% accuracy for non-fall activities and fall events. The data sets for training and testing have been collected using the devices we assembled with four off-the-shelf components. We have programmed them using a prototype of our proposed framework. The data sets include seven types of non-fall activities and four types of fall events. This paper advances the state of the art for the development and training of wearable devices for monitoring non-fall activities and detecting fall events