@article{RazaghiMoghadamNikoloski2020, author = {Razaghi-Moghadam, Zahra and Nikoloski, Zoran}, title = {Supervised learning of gene-regulatory networks based on graph distance profiles of transcriptomics data}, series = {npj Systems biology and applications}, volume = {6}, journal = {npj Systems biology and applications}, number = {1}, publisher = {Nature Publ. Group}, address = {London}, issn = {2056-7189}, doi = {10.1038/s41540-020-0140-1}, pages = {8}, year = {2020}, abstract = {Characterisation of gene-regulatory network (GRN) interactions provides a stepping stone to understanding how genes affect cellular phenotypes. Yet, despite advances in profiling technologies, GRN reconstruction from gene expression data remains a pressing problem in systems biology. Here, we devise a supervised learning approach, GRADIS, which utilises support vector machine to reconstruct GRNs based on distance profiles obtained from a graph representation of transcriptomics data. By employing the data fromEscherichia coliandSaccharomyces cerevisiaeas well as synthetic networks from the DREAM4 and five network inference challenges, we demonstrate that our GRADIS approach outperforms the state-of-the-art supervised and unsupervided approaches. This holds when predictions about target genes for individual transcription factors as well as for the entire network are considered. We employ experimentally verified GRNs fromE. coliandS. cerevisiaeto validate the predictions and obtain further insights in the performance of the proposed approach. Our GRADIS approach offers the possibility for usage of other network-based representations of large-scale data, and can be readily extended to help the characterisation of other cellular networks, including protein-protein and protein-metabolite interactions.}, language = {en} } @article{BriniBenAbderrahmanClarketal.2021, author = {Brini, Seifeddine and Ben Abderrahman, Abderraouf and Clark, Cain C. T. and Zouita, Sghaeir and Hackney, Anthony C. and Govindasamy, Karuppasamy and Granacher, Urs and Zouhal, Hassane}, title = {Sex-specific effects of small-sided games in basketball on psychometric and physiological markers during Ramadan intermittent fasting}, series = {BMC Sports Science, Medicine and Rehabilitation}, volume = {13}, journal = {BMC Sports Science, Medicine and Rehabilitation}, publisher = {BioMed Central}, address = {London}, issn = {2052-1847}, doi = {10.1186/s13102-021-00285-1}, pages = {9}, year = {2021}, abstract = {Background: We assessed the effects of gender, in association with a four-week small-sided games (SSGs) training program, during Ramadan intermitting fasting (RIF) on changes in psychometric and physiological markers in professional male and female basketball players. Methods: Twenty-four professional basketball players from the first Tunisian (Tunisia) division participated in this study. The players were dichotomized by sex (males [GM = 12]; females [GF = 12]). Both groups completed a 4 weeks SSGs training program with 3 sessions per week. Psychometric (e.g., quality of sleep, fatigue, stress, and delayed onset of muscle soreness [DOMS]) and physiological parameters (e.g., heart rate frequency, blood lactate) were measured during the first week (baseline) and at the end of RIF (post-test). Results: Post hoc tests showed a significant increase in stress levels in both groups (GM [- 81.11\%; p < 0.001, d = 0.33, small]; GF [- 36,53\%; p = 0.001, d = 0.25, small]). Concerning physiological parameters, ANCOVA revealed significantly lower heart rates in favor of GM at post-test (1.70\%, d = 0.38, small, p = 0.002). Conclusions: Our results showed that SSGs training at the end of the RIF negatively impacted psychometric parameters of male and female basketball players. It can be concluded that there are sex-mediated effects of training during RIF in basketball players, and this should be considered by researchers and practitioners when programing training during RIF.}, language = {en} } @article{SandauGranacher2020, author = {Sandau, Ingo and Granacher, Urs}, title = {Effects of the barbell load on the acceleration phase during the snatch in elite Olympic weightlifting}, series = {Sports}, volume = {8}, journal = {Sports}, number = {5}, publisher = {MDPI}, address = {Basel}, issn = {2075-4663}, doi = {10.3390/sports8050059}, pages = {10}, year = {2020}, abstract = {The load-depended loss of vertical barbell velocity at the end of the acceleration phase limits the maximum weight that can be lifted. Thus, the purpose of this study was to analyze how increased barbell loads affect the vertical barbell velocity in the sub-phases of the acceleration phase during the snatch. It was hypothesized that the load-dependent velocity loss at the end of the acceleration phase is primarily associated with a velocity loss during the 1st pull. For this purpose, 14 male elite weightlifters lifted seven load-stages from 70-100\% of their personal best in the snatch. The load-velocity relationship was calculated using linear regression analysis to determine the velocity loss at 1st pull, transition, and 2nd pull. A group mean data contrast analysis revealed the highest load-dependent velocity loss for the 1st pull (t = 1.85, p = 0.044, g = 0.49 [-0.05, 1.04]) which confirmed our study hypothesis. In contrast to the group mean data, the individual athlete showed a unique response to increased loads during the acceleration sub-phases of the snatch. With the proposed method, individualized training recommendations on exercise selection and loading schemes can be derived to specifically improve the sub-phases of the snatch acceleration phase. Furthermore, the results highlight the importance of single-subject assessment when working with elite athletes in Olympic weightlifting.}, language = {en} } @article{CoppalleRaveMoranetal.2021, author = {Coppalle, Sullivan and Rav{\´e}, Guillaume and Moran, Jason and Salhi, Iyed and Ben Abderrahman, Abderraouf and Zouita, Sghaeir and Granacher, Urs and Zouhal, Hassane}, title = {Internal and External Training Load in Under-19 versus Professional Soccer Players during the In-Season Period}, series = {International Journal of Environmental Research and Public Health}, volume = {18}, journal = {International Journal of Environmental Research and Public Health}, number = {2}, publisher = {MDPI AG}, address = {Basel}, issn = {1660-4601}, doi = {10.3390/ijerph18020558}, pages = {10}, year = {2021}, abstract = {This study aimed to compare the training load of a professional under-19 soccer team (U-19) to that of an elite adult team (EAT), from the same club, during the in-season period. Thirty-nine healthy soccer players were involved (EAT [n = 20]; U-19 [n = 19]) in the study which spanned four weeks. Training load (TL) was monitored as external TL, using a global positioning system (GPS), and internal TL, using a rating of perceived exertion (RPE). TL data were recorded after each training session. During soccer matches, players' RPEs were recorded. The internal TL was quantified daily by means of the session rating of perceived exertion (session-RPE) using Borg's 0-10 scale. For GPS data, the selected running speed intensities (over 0.5 s time intervals) were 12-15.9 km/h; 16-19.9 km/h; 20-24.9 km/h; >25 km/h (sprint). Distances covered between 16 and 19.9 km/h, > 20 km/h and >25 km/h were significantly higher in U-19 compared to EAT over the course of the study (p = 0.023, d = 0.243, small; p = 0.016, d = 0.298, small; and p = 0.001, d = 0.564, small, respectively). EAT players performed significantly fewer sprints per week compared to U-19 players (p = 0.002, d = 0.526, small). RPE was significantly higher in U-19 compared to EAT (p = 0.001, d = 0.188, trivial). The external and internal measures of TL were significantly higher in the U-19 group compared to the EAT soccer players. In conclusion, the results obtained show that the training load is greater in U19 compared to EAT.}, language = {en} } @article{NevillNegraMyersetal.2021, author = {Nevill, Alan M. and Negra, Yassine and Myers, Tony D. and Duncan, Michael J. and Chaabene, Helmi and Granacher, Urs}, title = {Are Early or Late Maturers Likely to Be Fitter in the General Population?}, series = {International Journal of Environmental Research and Public Health}, volume = {18}, journal = {International Journal of Environmental Research and Public Health}, number = {2}, publisher = {MDPI}, address = {Basel}, issn = {1660-4601}, doi = {10.3390/ijerph18020497}, pages = {16}, year = {2021}, abstract = {The present study aims to identify the optimal body-size/shape and maturity characteristics associated with superior fitness test performances having controlled for body-size, sex, and chronological-age differences. The sample consisted of 597 Tunisian children (396 boys and 201 girls) aged 8 to 15 years. Three sprint speeds recorded at 10, 20 and 30 m; two vertical and two horizontal jump tests; a change-of-direction and a handgrip-strength tests, were assessed during physical-education classes. Allometric modelling was used to identify the benefit of being an early or late maturer. Findings showed that being tall and light is the ideal shape to be successful at most physical fitness tests, but the height-to-weight "shape" ratio seems to be test-dependent. Having controlled for body-size/shape, sex, and chronological age, the model identified maturity-offset as an additional predictor. Boys who go earlier/younger through peak-height-velocity (PHV) outperform those who go at a later/older age. However, most of the girls' physical-fitness tests peaked at the age at PHV and decline thereafter. Girls whose age at PHV was near the middle of the age range would appear to have an advantage compared to early or late maturers. These findings have important implications for talent scouts and coaches wishing to recruit children into their sports/athletic clubs.}, language = {en} } @article{RaveGranacherBoullosaetal.2020, author = {Rav{\´e}, Guillaume and Granacher, Urs and Boullosa, Daniel and Hackney, Anthony C. and Zouhal, Hassane}, title = {How to Use Global Positioning Systems (GPS) Data to Monitor Training Load in the "Real World" of Elite Soccer}, series = {Frontiers in Physiology}, volume = {11}, journal = {Frontiers in Physiology}, publisher = {Frontiers Research Foundation}, address = {Lausanne}, issn = {1664-042X}, doi = {10.3389/fphys.2020.00944}, pages = {11}, year = {2020}, language = {en} } @article{PrieskeChaabeneGaebleretal.2020, author = {Prieske, Olaf and Chaabene, Helmi and G{\"a}bler, Martijn and Herz, Michael and Helm, Norman and Markov, Adrian and Granacher, Urs}, title = {Seasonal changes in anthropometry, body composition, and physical fitness and the relationships with sporting success in young sub-elite judo athletes}, series = {International journal of environmental research and public health : IJERPH}, volume = {17}, journal = {International journal of environmental research and public health : IJERPH}, number = {19}, publisher = {MDPI AG}, address = {Basel}, issn = {1660-4601}, doi = {10.3390/ijerph17197169}, pages = {17}, year = {2020}, abstract = {This exploratory study aimed to monitor long-term seasonal developments in measures of anthropometry, body composition, and physical fitness in young judo athletes, and to compute associations between these measures and sporting success. Forty-four young judoka (20 females, 24 males) volunteered to participate. Tests for the assessment of anthropometry (e.g., body height/mass), body-composition (e.g., lean body mass), muscle strength (isometric handgrip strength), vertical jumping (e.g., countermovement-jump (CMJ) height), and dynamic balance (Y-balance test) were conducted at the beginning and end of a 10-month training season. Additionally, sporting success at the end of the season was recorded for each athlete. Analyses revealed significant time x sex interaction effects for lean-body-mass, isometric handgrip strength, and CMJ height (0.7 <= d <= 1.6). Post-hoc analyses showed larger gains for all measures in young males (1.9 <= d <= 6.0) compared with females (d = 2.4) across the season. Additionally, significant increases in body height and mass as well as Y-balance test scores were found from pre-to-post-test (1.2 <= d <= 4.3), irrespective of sex. Further, non-significant small-to-moderate-sized correlations were identified between changes in anthropometry/body composition/physical fitness and sporting success (p > 0.05; -0.34 <= rho <= 0.32). Regression analysis confirmed that no model significantly predicted sporting success. Ten months of judo training and/or growth/maturation contributed to significant changes in anthropometry, body composition, and physical fitness, particularly in young male judo athletes.}, language = {en} } @article{SaalChaabeneHelmetal.2022, author = {Saal, Christian and Chaabene, Helmi and Helm, Norman and Warnke, Torsten and Prieske, Olaf}, title = {Network analysis of associations between anthropometry, physical fitness, and sport-specific performance in young canoe sprint athletes}, series = {Frontiers in sports and active living}, volume = {4}, journal = {Frontiers in sports and active living}, publisher = {Frontiers Media}, address = {Lausanne}, issn = {2624-9367}, doi = {10.3389/fspor.2022.1038350}, pages = {13}, year = {2022}, abstract = {Introduction Anthropometric and physical fitness data can predict sport-specific performance (e.g., canoe sprint race time) in young athletes. Of note, inter-item correlations (i.e., multicollinearity) may exist between tests assessing similar physical qualities. However, multicollinearity among tests may change across age and/or sex due to age-/sex-specific non-linear development of test performances. Therefore, the present study aimed at analyzing inter-item correlations between anthropometric, physical fitness, and sport-specific performance data as a function of age and sex in young canoe sprint athletes. Methods Anthropometric, physical fitness, and sport-specific performance data of 618 male and 297 female young canoe sprint athletes (discipline: male/female kayak, male canoe) were recorded during a national talent identification program between 1992 and 2019. For each discipline, a correlation matrix (i.e., network analysis) was calculated for age category (U13, U14, U15, U16) and sex including anthropometrics (e.g., standing body height, body mass), physical fitness (e.g., cardiorespiratory endurance, muscle power), and sport-specific performance (i.e., 250 and 2,000-m on-water canoe sprint time). Network plots were used to explore the correlation patterns by visual inspection. Further, trimmed means (mu(trimmed)) of inter-item Pearson's correlations coefficients were calculated for each discipline, age category, and sex. Effects of age and sex were analyzed using one-way ANOVAs. Results Visual inspection revealed consistent associations among anthropometric measures across age categories, irrespective of sex. Further, associations between physical fitness and sport-specific performance were lower with increasing age, particularly in males. In this sense, statistically significant differences for mu(trimmed) were observed in male canoeists (p < 0.01, xi = 0.36) and male kayakers (p < 0.01, xi = 0.38) with lower mu(trimmed) in older compared with younger athletes (i.e., >= U15). For female kayakers, no statistically significant effect of age on mu(trimmed) was observed (p = 0.34, xi = 0.14). Discussion Our study revealed that inter-item correlation patterns (i.e., multicollinearity) of anthropometric, physical fitness, and sport-specific performance measures were lower in older (U15, U16) versus younger (U13, U14) male canoe sprint athletes but not in females. Thus, age and sex should be considered to identify predictors for sport-specific performance and design effective testing batteries for talent identification programs in canoe sprint athletes.}, language = {en} } @article{WickKriemlerGranacher2022, author = {Wick, Kristin and Kriemler, Susi and Granacher, Urs}, title = {Associations between measures of physical fitness and cognitive performance in preschool children}, series = {BMC sports science, medicine \& rehabilitation}, volume = {14}, journal = {BMC sports science, medicine \& rehabilitation}, number = {1}, publisher = {BMC}, address = {London}, issn = {2052-1847}, doi = {10.1186/s13102-022-00470-w}, pages = {8}, year = {2022}, abstract = {Background: Given that recent studies report negative secular declines in physical fitness, associations between fitness and cognition in childhood are strongly discussed. The preschool age is characterized by high neuroplasticity which effects motor skill learning, physical fitness, and cognitive development. The aim of this study was to assess the relation of physical fitness and attention (including its individual dimensions (quantitative, qualitative)) as one domain of cognitive performance in preschool children. We hypothesized that fitness components which need precise coordination compared to simple fitness components are stronger related to attention. Methods: Physical fitness components like static balance (i.e., single-leg stance), muscle strength (i.e., handgrip strength), muscle power (i.e., standing long jump), and coordination (i.e., hopping on one leg) were assessed in 61 healthy children (mean age 4.5 +/- 0.6 years; girls n = 30). Attention was measured with the "Konzentrations-Handlungsverfahren fur Vorschulkinder" [concentration-action procedure for preschoolers]). Analyses were adjusted for age, body height, and body mass. Results: Results from single linear regression analysis revealed a significant (p < 0.05) association between physical fitness (composite score) and attention (composite score) (standardized ss = 0.40), showing a small to medium effect (F-2 = 0.14). Further, coordination had a significant relation with the composite score and the quantitative dimension of attention (standardized ss = 0.35; p < 0.01; standardized ss = - 0.33; p < 0.05). Coordination explained about 11\% (composite score) and 9\% (quantitative dimension) of the variance in the stepwise multiple regression model. Conclusion: The results indicate that performance in physical fitness, particularly coordination, is related to attention in preschool children. Thus, high performance in complex fitness components (i.e., hopping on one leg) tends to predict attention in preschool children. Further longitudinal studies should focus on the effectiveness of physical activity programs implementing coordination and complex exercises at preschool age to examine cause-effect relationships between physical fitness and attention precisely.}, language = {en} } @article{PriesRazaghiMoghadamKopkaetal.2021, author = {Pries, Christopher and Razaghi-Moghadam, Zahra and Kopka, Joachim and Nikoloski, Zoran}, title = {Integration of relative metabolomics and transcriptomics time-course data in a metabolic model pinpoints effects of ribosome biogenesis defects on Arabidopsis thaliana metabolism}, series = {Scientific reports}, volume = {11}, journal = {Scientific reports}, number = {1}, publisher = {Macmillan Publishers Limited, part of Springer Nature}, address = {London}, issn = {2045-2322}, doi = {10.1038/s41598-021-84114-y}, pages = {12}, year = {2021}, abstract = {Ribosome biogenesis is tightly associated to plant metabolism due to the usage of ribosomes in the synthesis of proteins necessary to drive metabolic pathways. Given the central role of ribosome biogenesis in cell physiology, it is important to characterize the impact of different components involved in this process on plant metabolism. Double mutants of the Arabidopsis thaliana cytosolic 60S maturation factors REIL1 and REIL2 do not resume growth after shift to moderate 10 degrees C chilling conditions. To gain mechanistic insights into the metabolic effects of this ribosome biogenesis defect on metabolism, we developed TC-iReMet2, a constraint-based modelling approach that integrates relative metabolomics and transcriptomics time-course data to predict differential fluxes on a genome-scale level. We employed TC-iReMet2 with metabolomics and transcriptomics data from the Arabidopsis Columbia 0 wild type and the reil1-1 reil2-1 double mutant before and after cold shift. We identified reactions and pathways that are highly altered in a mutant relative to the wild type. These pathways include the Calvin-Benson cycle, photorespiration, gluconeogenesis, and glycolysis. Our findings also indicated differential NAD(P)/NAD(P)H ratios after cold shift. TC-iReMet2 allows for mechanistic hypothesis generation and interpretation of system biology experiments related to metabolic fluxes on a genome-scale level.}, language = {en} }