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

Self-efficacy, religiosity, and crime: profiles of African American youth in urban housing communities

Youth reporting independently elevated levels of religiosity and self-efficacy tend to abstain from externalizing behavior. However, little is known about the ways in which religiosity and self-efficacy interrelate to impact youth externalizing. Drawing from a sample of African American youth from public housing communities (N = 236), we use latent profile analysis to identify subtypes of youth based on self-reported religiosity and self-efficacy and, in turn, examine links with crime. Compared to youth in other subgroups, those classified as both highly religious and highly self-efficacious reported less involvement in minor and severe delinquency, but not violence.R25 DA030310 - National Institute on Drug Abuse; R25 DA030310 - National Institutes of Healt

Ontology-based knowledge representation of experiment metadata in biological data mining

According to the PubMed resource from the U.S. National Library of Medicine, over 750,000 scientific articles have been published in the ~5000 biomedical journals worldwide in the year 2007 alone. The vast majority of these publications include results from hypothesis-driven experimentation in overlapping biomedical research domains. Unfortunately, the sheer volume of information being generated by the biomedical research enterprise has made it virtually impossible for investigators to stay aware of the latest findings in their domain of interest, let alone to be able to assimilate and mine data from related investigations for purposes of meta-analysis. While computers have the potential for assisting investigators in the extraction, management and analysis of these data, information contained in the traditional journal publication is still largely unstructured, free-text descriptions of study design, experimental application and results interpretation, making it difficult for computers to gain access to the content of what is being conveyed without significant manual intervention. In order to circumvent these roadblocks and make the most of the output from the biomedical research enterprise, a variety of related standards in knowledge representation are being developed, proposed and adopted in the biomedical community. In this chapter, we will explore the current status of efforts to develop minimum information standards for the representation of a biomedical experiment, ontologies composed of shared vocabularies assembled into subsumption hierarchical structures, and extensible relational data models that link the information components together in a machine-readable and human-useable framework for data mining purposes

Workers’ Educational Association: report from the Inspectorate (FEFC inspection report; 22/95 and 75/99)

The Further Education Funding Council has a legal duty to make sure further education in England is properly assessed. The FEFC’s inspectorate inspects and reports on each college of further education according to a four-year cycle. This record comprises two of these reports for periods 1994-95 and 1998-99

Subject Specific Information Literacy Curriculum and Assessment

Academic libraries have been changing the traditional instructional framework of library instruction teaching modules to information literacy teaching modules. National standards for information literacy increased the possibility to unify such efforts throughout the country and clarify for librarians, administrators, and faculty the desired student learning outcomes. This paper presents findings of a quantitative research study developed to provide documentation for a regional accrediting body, college administration, and faculty on the efficacy of a subject specific information literacy curriculum and assessment instrument. The study took place within a seminary and began with an initial needs assessment. A previously developed instrument, B-TILED, which had been through a rigorous process of reliability and validity testing was applied to conduct the needs assessment. The findings of the needs assessment indicated a requirement for intervention which led to the development and implementation of a formal course of instruction in information literacy. The course was developed and taught by the researcher in the fall of 2010. All incoming 1st year students were required to take, complete, and pass a one-unit class in information literacy. In order to assess the effectiveness of the course, and to provide supportive documented data to the accrediting body, pretests and posttests were administered. The instrument used, B-TILED, was the same as that used in the needs assessment study

Evaluating the Efficacy of an Attachment-Informed Psychotherapeutic Parenting Program for Incarcerated Parents

An attachment-based, psychotherapeutic parent education course was created for incarcerated mothers and fathers to improve their ability to provide positive parenting and a more stable home environment for their children. The current study assessed the effects of this parenting curriculum on parents’ tendencies to be abusive, their sense of efficacy and satisfaction as a parent, their psychological distress, and their knowledge of child development and positive child guidance strategies. Results of pre-post assessments showed a significant improvement in parents’ sense of efficacy and satisfaction in the parenting role; their knowledge, skills, and behavior as a parent; their understanding of child development; their knowledge of alternatives to using corporal punishment; establishing appropriate parent-child boundaries; and they were less likely to view their child’s independence as a threat. Females showed a significant decrease in distress symptoms. Results are discussed in terms of the critical need for effective, high-quality parent education to break the intergenerational cycle of poor parenting for this at-risk population

Role of patient-reported outcomes and other efficacy endpoints in the drug approval process in Europe (2008-2012)

The present study aimed at systematically reviewing the role and extent of patient-reported outcomes (PROs) usage within the package of scientific evidence considered for marketing authorization (MA). All regulatory information published by the European Medicines Agency (EMA) for products authorized between January 2008 and December 2012 and appearing in the European Public Assessment Report (EPAR) database was examined for efficacy endpoints. The endpoints here considered included: PROs, clinician reported outcomes (CROs), and laboratory reported outcomes (LROs). LROs were the most frequently reported endpoints. Out of the 180 products here selected, 99 (55%), 67 (37%), and 30 (17%), respectively, used LROs, CROs and PROs as primary endpoints (PEs). PROs as any endpoints were used in 82 (46%) products. Out of these, PROs were documented as PE in 30 (37%), with 27 (33%) products having used PROs both as primary and non-PEs. PRO usage was most frequently identified with nervous system and antineoplastic agents. During the study period, the use of all the three types of endpoints appeared to be static. Both the regulatory bodies and the industry should ensure complete and clear reporting of all endpoints used, including PROs, to improve transparency.Peer reviewedFinal Published versio

Ontology of core data mining entities

In this article, we present OntoDM-core, an ontology of core data mining entities. OntoDM-core defines themost essential datamining entities in a three-layered ontological structure comprising of a specification, an implementation and an application layer. It provides a representational framework for the description of mining structured data, and in addition provides taxonomies of datasets, data mining tasks, generalizations, data mining algorithms and constraints, based on the type of data. OntoDM-core is designed to support a wide range of applications/use cases, such as semantic annotation of data mining algorithms, datasets and results; annotation of QSAR studies in the context of drug discovery investigations; and disambiguation of terms in text mining. The ontology has been thoroughly assessed following the practices in ontology engineering, is fully interoperable with many domain resources and is easy to extend