Graph-Based Methods for Discovery Browsing with Semantic Predications

We present an extension to literature-based discovery that goes beyond making discoveries to a principled way of navigating through selected aspects of some biomedical domain. The method is a type of “discovery browsing” that guides the user through the research literature on a specified phenomenon. Poorly understood relationships may be explored through novel points of view, and potentially interesting relationships need not be known ahead of time. In a process of “cooperative reciprocity” the user iteratively focuses system output, thus controlling the large number of relationships often generated in literature-based discovery systems. The underlying technology exploits SemRep semantic predications represented as a graph of interconnected nodes (predication arguments) and edges (predicates). The system suggests paths in this graph, which represent chains of relationships. The methodology is illustrated with depressive disorder and focuses on the interaction of inflammation, circadian phenomena, and the neurotransmitter norepinephrine. Insight provided may contribute to enhanced understanding of the pathophysiology, treatment, and prevention of this disorder

Relación del consumo de oxígeno directo y estimado en el Yo-Yo test de resistencia intermitente en mujeres futbolistas profesionales

In professional women's soccer there has been significant growth in recent decades, game analysis determines that distances between 8.5 and 10.3 km are covered, defining power and aerobic capacity as determining factors in the conditional physical profile of the players. The evaluation of aerobic power through maximum oxygen consumption (VO2max) is essential. The objective of this study was to compare the aerobic power determined by the Yo-Yo intermittent resistance test measured directly with a gas and metabolite analyzer v/s the calculation proposed by the Bansgbo estimation formula. The study methodology consisted in the evaluation of the Yo-Yo intermittent resistance test on the soccer field in 25 professional soccer players. The results of the study gave direct average relative values ​​of 42.53 ml/kg-min and estimated VO2max of 41.96 ml/kg-min, without significant differences (p= 0.22). It is concluded that the Yo-Yo test and the Bansgbo formula are relevant for the estimation of aerobic power in professional Chilean soccer players.En el futbol profesional femenino ha presentado un importante crecimiento en las últimas décadas, el análisis del juego determina que se recorren distancias de entre 8,5 y 10,3 km definiendo a la potencia y capacidad aeróbica como factores determinantes en el perfil físico condicional de las jugadoras. La evaluación de la potencia aeróbica a través del consumo máximo de oxígeno (VO2max) es fundamental. El objetivo de este estudio fue comparar la potencia aeróbica determinada por el Yo-Yo test de resistencia intermitente medido en forma directa con analizador de gases y metabolitos v/s el cálculo propuesto por formula de estimación de Bansgbo. La metodología del estudio consistió en la evaluación del Yo-Yo test de resistencia intermitente en cancha de futbol en 25 jugadoras de fútbol profesional. Los resultados del estudio entregaron valores relativos promedio de VO2max directo de 42,53 ml/kg-min y estimado de 41,96 ml/kg-min, sin diferencias significativas (p= 0,22). Se concluye que el test Yo-Yo y la fórmula Bansgbo son pertinentes para la estimación de potencia aérobica en jugadoras profesionales de fútbol chilenas

Relación del consumo de oxígeno directo y estimado en el Yo-Yo test de resistencia intermitente en mujeres futbolistas profesionales

En el futbol profesional femenino ha presentado un importante crecimiento en las últimas décadas, el análisis del juego determina que se recorren distancias de entre 8,5 y 10,3 km definiendo a la potencia y capacidad aeróbica como factores determinantes en el perfil físico condicional de las jugadoras. La evaluación de la potencia aeróbica a través del consumo máximo de oxígeno (VO2max) es fundamental. El objetivo de este estudio fue comparar la potencia aeróbica determinada por el Yo-Yo test de resistencia intermitente medido en forma directa con analizador de gases y metabolitos v/s el cálculo propuesto por formula de estimación de Bansgbo. La metodología del estudio consistió en la evaluación del Yo-Yo test de resistencia intermitente en cancha de futbol en 25 jugadoras de fútbol profesional. Los resultados del estudio entregaron valores relativos promedio de VO2max directo de 42,53 ml/kg-min y estimado de 41,96 ml/kg-min, sin diferencias significativas (p= 0,22). Se concluye que el test Yo-Yo y la fórmula Bansgbo son pertinentes para la estimación de potencia aérobica en jugadoras profesionales de fútbol chilenas

Relationship of direct and estimated oxygen consumption in the intermittent resistance Yo-Yo test in female professional soccer players

En el futbol profesional femenino ha presentado un importante crecimiento en las últimas décadas, el análisis del juego determina que se recorren distancias de entre 8,5 y 10,3 km definiendoa la potencia y capacidad aeróbica como factores determinantes en el perfil físico condicional de las jugadoras. La evaluación de la potencia aeróbica a través del consumo máximo de oxígeno (VO2max) es fundamental. El objetivo de este estudio fue compararla potencia aeróbica determinada por el Yo-Yo test de resistencia intermitente medido en forma directacon analizador de gasesy metabolitosv/s el cálculo propuesto por formula de estimaciónde Bansgbo. La metodología del estudio consistió en la evaluacióndel Yo-Yo test de resistencia intermitente en cancha de futbol en 25 jugadoras de fútbol profesional. Los resultados del estudio entregaron valores relativos promedio de VO2maxdirecto de 42,53 ml/kg-min yestimado de 41,96 ml/kg-min, sin diferencias significativas (p= 0,22). Se concluye que el test Yo-Yoyla fórmulaBansgbo sonpertinentes para la estimación de potencia aérobica en jugadoras profesionales de fútbol chilenas.In professional women's soccer there has been significant growth in recent decades, game analysis determines that distances between 8.5 and 10.3 km are covered, defining power and aerobic capacity as determining factors in the conditional physical profile of the players. The evaluation of aerobic power through maximum oxygen consumption (VO2max) is essential. The objective of this study was to compare the aerobic power determined by the Yo-Yo intermittent resistance test measured directly with a gas and metabolite analyzer v/s the calculation proposed by the Bansgbo estimation formula. The study methodology consisted in the evaluation of the Yo-Yo intermittent resistance test on the soccer field in 25 professional soccer players. The results of the study gave direct average relative values of 42.53 ml/kg-min and estimated VO2maxof 41.96 ml/kg-min, without significant differences (p= 0.22). It is concluded that the Yo-Yo test and the Bansgbo formula are relevant for the estimation of aerobic power in professional Chilean soccer players

Constructing a semantic predication gold standard from the biomedical literature

<p>Abstract</p> <p>Background</p> <p>Semantic relations increasingly underpin biomedical text mining and knowledge discovery applications. The success of such practical applications crucially depends on the quality of extracted relations, which can be assessed against a gold standard reference. Most such references in biomedical text mining focus on narrow subdomains and adopt different semantic representations, rendering them difficult to use for benchmarking independently developed relation extraction systems. In this article, we present a multi-phase gold standard annotation study, in which we annotated 500 sentences randomly selected from MEDLINE abstracts on a wide range of biomedical topics with 1371 semantic predications. The UMLS Metathesaurus served as the main source for conceptual information and the UMLS Semantic Network for relational information. We measured interannotator agreement and analyzed the annotations closely to identify some of the challenges in annotating biomedical text with relations based on an ontology or a terminology.</p> <p>Results</p> <p>We obtain fair to moderate interannotator agreement in the practice phase (0.378-0.475). With improved guidelines and additional semantic equivalence criteria, the agreement increases by 12% (0.415 to 0.536) in the main annotation phase. In addition, we find that agreement increases to 0.688 when the agreement calculation is limited to those predications that are based only on the explicitly provided UMLS concepts and relations.</p> <p>Conclusions</p> <p>While interannotator agreement in the practice phase confirms that conceptual annotation is a challenging task, the increasing agreement in the main annotation phase points out that an acceptable level of agreement can be achieved in multiple iterations, by setting stricter guidelines and establishing semantic equivalence criteria. Mapping text to ontological concepts emerges as the main challenge in conceptual annotation. Annotating predications involving biomolecular entities and processes is particularly challenging. While the resulting gold standard is mainly intended to serve as a test collection for our semantic interpreter, we believe that the lessons learned are applicable generally.</p

Additional file 1 of Sortal anaphora resolution to enhance relation extraction from biomedical literature

Sortal anaphora annotation guidelines. The sortal anaphora annotation guidelines provided to the annotators and refined/expanded in several iterations. (PDF 79.1 kb