Modelling biochemical pathways through enhanced π-calculus

AbstractWe use the π-calculus to model the evolution of biochemical systems, taking advantage of their similarities with global computation applications. First, we present a reduction semantics for the π-calculus from which causality and concurrency can be mechanically derived. We prove that our semantics agrees with the causal definitions presented in the literature. We also extend our semantics to model biological compartments. Then, we show the applicability of our proposal on a couple of biological examples

What is New on Thyroid Cancer Biomarkers

Thyroid cancer harbours in about 5% of thyroid nodules. The majority of them are well-differentiated cancers originating from the follicular epithelium, and are subdivided into papillary and follicular carcinomas. Undifferentiated carcinomas and medullary thyroid carcinomas arising from C cells are less common

Cyclosporin A blocks calcium-dependent pathways of gene activation

We have used an interleukin-2 (IL-2) promoter-CAT fusion gene to study activation of IL-2 gene expression by IL-1, phytohemagglutinin (PHA), phorbol myristate acetate (PMA), and calcium ionophore in the murine thymoma line EL4 and the human lymphoma line Jurkat. The two cell lines respond differently to combinations of these stimuli. IL-1 in combination with suboptimal concentration of PMA induced chloramphenicol acetyltransferase (CAT) activity in EL4. In Jurkat cells, IL-1 failed to synergize with PMA or PHA. Cotransfection with the IL-2/CAT gene and a construct capable of expressing murine T-cell type IL-1 receptors converted Jurkat cells to IL-1 responsiveness. IL-1 in combination with PHA but not with PMA resulted in induction of CAT activity in these cells. Induction of IL-2/CAT activity by all stimuli in both cell lines was blocked by the presence of EGTA in the culture medium. EGTA did not inhibit IL-1/PMA activation of an SV40 early promoter-CAT fusion gene in either EL4 or Jurkat cells; therefore, calcium was not required for IL-1 or PMA signal transduction. Jurkat cells were shown to differ from EL4 in their requirement for calcium mobilization. Two different calcium-dependent pathways of gene activation were distinguished, both of which were blocked by the immunosuppressive drug cyclosporin A

Effects of open (Racket) and closed (running) skill sports practice on children’s attentional performance

Aims: The first aim of the study was to examine the attentional performance of children (8–13 years of age) who practiced two different sport disciplines: Open skill sport – racket and closed skill sport – running and also to investigate the acute effects of these two specific training sessions on children’s immediate and delayed attentional performance. The second aim of the present study was to verify gender differences in attentional performance. Eighteen children+ (8 girls and 10 boys; age = 10.6 ± 1.5 yrs; height = 144.3 ± 12.2 cm; weight = 44.2 ± 12.5 kg; BMI = 20.8 ± 2.7 kg/m2) engaged in a racket sports and eighteen children (9 girls and 9 boys; age = 9.9 ± 1.2 yrs; height = 142.4 ± 9.5 cm; weight = 40.0 ± 8.6 kg; BMI = 19.6 ± 2.4 kg/m2) engaged in running were enrolled. Methods: Children’s training and experience with these activities averaged 2.3 (± 1.0) years. Children’s attentional capacity was measured before, immediately after and 50 minutes after each specific training session by the d2 test of attention. This paper-and-pencil letter cancellation test evaluated concentration and sustained attention under stress induced by a fixed executing time. A 2 (Sport: open vs closed skill) x 2 (Gender: boys vs girls) x 3 (Time: pre vs 0’ post vs 50’ post) repeated measures ANOVA for time was used to compare the effect of an open skill session and a closed skill session on the individual attentional variables. Results: Children of open skill sport showed higher attentional scores (higher processing speed-TN, higher concentration performance-CP and lower percentage of errors-E%; p < 0.01), improved CP from pre to 0’ post intervention (p = 0.01) and maintained this improved performance at 50’ post intervention (50’ post vs pre; p < 0.01), and decreased E% from pre to 0’ post intervention (p = 0.01) and maintained this improvement at 50’ post intervention (50’ post vs pre; p < 0.001). Children of closed skill sport significantly decreased their CP from pre to 50’ post intervention (50’ post vs pre; p = 0.001 and 50’ post vs 0’ post; p < 0.0001) and worsened their E% across the time (50’ post vs pre; p = 0.001 and 50’ post vs 0’ post; p < 0.0001). Boys showed significantly higher TN values than girls only in closed skill sport (p = 0.023). Finally, all girls of both open and closed skill sports significantly improved their CP from pre to 0’ post intervention (p = 0.04). Conclusion: Results of the study showed that open skill sport practice and training session positively affects children’s attentional performance

Recurrence quantification analysis of heart rate variability to detect both ventilatory thresholds

Aims of this study were: To verify if Recurrence Quantification Analysis (RQA) of Heart Rate Variability (HRV) time series could determine both ventilatory thresholds in individuals with different fitness levels, and to assess the validity of RQA method compared to gasexchange method (GE). The two thresholds were estimated in thirty young individuals during incremental exercise on cycle-ergometer: Heart rate (HR), Oxygen consumption (VO2) and Workload were measured by the two methods (RQA and GE). Repeated measures ANOVA was used to assess main effects of methods and methods-by-groups interaction effects for HR, VO2 and Workload at aerobic (AerT) and anaerobic (AnT) thresholds. Validity of RQA at both thresholds was assessed for HR, VO2 and Workload by Ordinary Least Products (OLP) regression, Typical Percentage Error (TE), Intraclass Correlation Coefficients (ICC) and the Bland Altman plots. No methods-by-groups interaction effects were detected for HR, VO2 and Workload at AerT and AnT. The OLP analysis showed that at both thresholds RQA and GE methods had very strong correlations (r >0.8) in all variables (HR, VO2 and Workload). Slope and intercept values always included the 1 and the 0, respectively. At AerT the TE ranged from 4.02% (5.48 bpm) to 10.47% (8.53 Watts) (HR and Workload, respectively) and in all variables ICC values were excellent (≥0.85). At AnT the TE ranged from 2.53% (3.98 bpm) to 6.64% (7.81 Watts) (HR and Workload, respectively) and in all variables ICC values were excellent (≥0.90). Therefore, RQA of HRV time series is a new valid approach to determine both ventilatory thresholds in individuals with different physical fitness levels, it can be used when gas analysis is not possible or not convenient

Constrangimento mecânico provocado pela válvula aquatrainer® associada ao sistema de oximetria directa (K4 B2) na cinemática de bruços

estudo teve como objectivo determinar o constrangimento cinemático provocado pela válvula de treino Aquatrainer® (Cosmed, Roma, Itália), integrada com o sistema portátil analisador de gases K4 b2 (Cosmed, Roma, Itália), durante um esforço máximo na técnica de Bruços. O protocolo consistiu na realização de dois percursos à intensidade máxima de 100 m bruços, em piscina de 50 metros: um percurso com o sistema de oximetria acoplado e outro em nado livre (sem o sistema) e um intervalo mínimo de 48 horas por sete bruçistas. Duas câmaras registaram respectivamente imagens aéreas e subaquáticas no plano sagital. Foi efectuada a análise cinemática (Ariel Performance Analysis System, Ariel Dynamics Inc., Califórnia, EUA) de um ciclo gestual completo, através de um leitor de vídeo a 50 Hz (Panasonic, AG 7355, Japão). A duração do teste foi significativamente superior quando acoplados à válvula do que em nado livre (P = 0,02). Sem a válvula os bruçistas cumpriram os 100 metros em 109.09 ± 2.23 % do seu recorde pessoal e com a válvula a 115.94 ± 3.31 %. As restantes variáveis não apresentaram diferenças significativas entre as duas condições de exercitação. Contudo, verifica-se uma tendência para a frequência gestual (3.56 %) ser superior com a utilização da válvula; a distância de ciclo (-8.47 %), a velocidade de nado (-5.98 %), o índice de nado (-13.94 %), a flutuação da velocidade do centro de massa (-0.16 %) e periodo do ciclo (-3.24 %) serem inferiores com a utilização da válvula. Em síntese, a válvula Aquatrainer® induz constrangimentos significativos na performance durante uma prova máxima em Bruço

Comparação dos procedimentos metodológicos de reconstrução cinemática 2d na técnica de bruços – Duplo meio / planos seprados

O presente estudo teve como propósito principal o de averiguar os procedimentos bem como o grau de concordância das reconstruções dos parâmetros cinemáticos de execução na técnica de bruços com recurso a duas metodologias distintas de captura e reconstrução cinemétrica, duplo meio (DM) e planos separados (PS). A amostra foi constituída por 7 nadadores do sexo masculino especialistas na técnica de bruços (19.1 ± 4,3 anos de idade; 1.78 ± 0.62 m de estatura; 70.4 ± 8.0 kg de massa corporal; 69.10 ± 4.16 s de recorde pessoal aos 100 m Bruços em piscina longa). O protocolo consistiu na realização de um percurso de 100 m na técnica de bruços à máxima velocidade possível (prova maximal), em piscina de 50 metros. Os registos de imagem para posterior tratamento foram recolhidos por um sistema constituído por um par de câmaras de vídeo (uma subaquática - inclusa numa caixa estanque e uma de superfície). Assim, foram recolhidas as imagens da prova utilizando as duas metodologias, o DM e os PS. Duas câmaras registaram respectivamente imagens aéreas (GR-SX1 SVHS, JVC, Yokoama, Japão) e subaquáticas (GR-SXM25 SVHS, JVC, Yokoama, Japão) no plano sagital, a 25 metros da parede testa de partida. Foi efectuada a análise cinemática (Ariel Performance Analysis System, Ariel Dynamics Inc., Califórnia, EUA) de um ciclo gestual completo, através de um leitor de vídeo a 50 Hz (Panasonic, AG 7355, Japão). Recorreu-se ao método de digitalização em planos separados (aéreo e subaquático) e subsequente reconstrução pela aplicação do algoritmo2D-DLT [1]. Foi adoptado o modelo antropométrico de Zatsiorsky, adaptado por de Leva [6],, incluindo a divisão do tronco em 2 partes articuladas. Os sinais foram filtrados com uma frequência de corte de 5 Hz, como sugerido por Winter [15], com recurso a dupla-passagem. A fiabilidade do processo de digitalização-redigitalização para os dois métodos foi muito elevada (R = 0.97; ICR = .87; 0.95). Determinouse a duração absoluta do teste (T100, s), a duração absoluta do ciclo gestual (Durciclo), a frequência ciclo (FC, Hz), a distância de ciclo (DC, m), a velocidade de nado (v, m.s-1), o índice de nado (IN, m2.c-1.s-1), a flutuação intra-cíclica da velocidade horizontal do centro de massa (dv, %) e o deslocamento vertical do centro de massa corporal (Dy, m). Foi efectuada a comparação entre as duas situações com recurso a estatística não paramétrica (Teste de Wilcoxon) para P £ 0.05. O resultados sugerem-nos a ideia de que o padrão biomecânico de execução técnica dos nadadores na técnica de bruços parece ter características diferentes quando comparados os dados dos dois métodos de reconstrução cinemática (DP e PS)