TY - JOUR A1 - Pandey, Yogesh T1 - Enriched cell-free and cell-based native membrane derived vesicles (nMV) enabling rapid in-vitro electrophysiological analysis of the voltage-gated sodium channel 1.5. JF - Biochimica et Biophysica Acta (BBA) - Biomembranes N2 - Here, we demonstrate the utility of native membrane derived vesicles (nMVs) as tools for expeditious electrophysiological analysis of membrane proteins. We used a cell-free (CF) and a cell-based (CB) approach for preparing protein-enriched nMVs. We utilized the Chinese Hamster Ovary (CHO) lysate-based cell-free protein synthesis (CFPS) system to enrich ER-derived microsomes in the lysate with the primary human cardiac voltage-gated sodium channel 1.5 (hNaV1.5; SCN5A) in 3 h. Subsequently, CB-nMVs were isolated from fractions of nitrogen-cavitated CHO cells overexpressing the hNaV1.5. In an integrative approach, nMVs were micro-transplanted into Xenopus laevis oocytes. CB-nMVs expressed native lidocaine-sensitive hNaV1.5 currents within 24 h; CF-nMVs did not elicit any response. Both the CB- and CF-nMV preparations evoked single-channel activity on the planar lipid bilayer while retaining sensitivity to lidocaine application. Our findings suggest a high usability of the quick-synthesis CF-nMVs and maintenance-free CB-nMVs as ready-to-use tools for in-vitro analysis of electrogenic membrane proteins and large, voltage-gated ion channels. KW - Cell-free protein synthesis KW - Electrophysiology KW - Membrane proteins KW - Micro-translantation KW - Protein expression Y1 - 2023 U6 - https://doi.org/10.1016/j.bbamem.2023.184144 SN - 1879-2642 SN - 0005-2736 VL - 1865 IS - 5 PB - Elsevier CY - Amsterdam ER - TY - JOUR A1 - Rösler, Antonia A1 - Scheffler, Christiane A1 - Hermanussen, Michael T1 - No evidence of growth impairment after forced migration in Polish school children after World War II JF - Human biology and public health N2 - Background: Migration is omnipresent. It can come hand in hand with emotional stress which is known to influence the growth of children. Objective: The aim of this study was to analyse whether type of migration (forced or voluntary) and the geographic direction had influenced the growth of Polish children after World War II. Sample and Methods: A sub dataset of 2,208 individuals between the ages of 2-20, created from data of the 2nd Polish Anthropological Survey carried out in 1966–1969, including anthropometrical data and social and demographic information based on questionnaire, was used to analyse migration effects. Results: No association could be found between the direction of migration and the height of the children. The confidence intervals of the means of all classified migration categories overlap significantly and the effect size of the influence of migration category on height is ds=.140, which is too low to see any effects, even if there were one. Conclusion: Neither forced nor voluntary migration in Poland after World War II led to a change in height in children of migrating families. KW - nutrition KW - stunting KW - socioeconomy KW - education KW - secular changes KW - pubertal timing Y1 - 2023 U6 - https://doi.org/10.52905/hbph2023.1.68 SN - 2748-9957 VL - 1 PB - Universitätsverlag Potsdam CY - Potsdam ER - TY - JOUR A1 - Gasparatos, Nikolaos A1 - Scheffler, Christiane A1 - Hermanussen, Michael T1 - Assessing the applicability of changepoint analysis to analyse short-term growth JF - Human biology and public health N2 - Background: Assessing short-term growth in humans is still fraught with difficulties. Especially when looking for small variations and increments, such as mini growth spurts, high precision instruments or frequent measurements are necessary. Daily measurements however require a lot of effort, both for anthropologists and for the subjects. Therefore, new sophisticated approaches are needed that reduce fluctuations and reveal underlying patterns. Objectives: Changepoints are abrupt variations in the properties of time series data. In the context of growth, such variations could be variation in mean height. By adjusting the variance and using different growth models, we assessed the ability of changepoint analysis to analyse short-term growth and detect mini growth spurts. Sample and Methods: We performed Bayesian changepoint analysis on simulated growth data using the bcp package in R. Simulated growth patterns included stasis, linear growth, catch-up growth, and mini growth spurts. Specificity and a normalised variant of the Matthews correlation coefficient (MCC) were used to assess the algorithm’s performance. Welch’s t-test was used to compare differences of the mean. Results: First results show that changepoint analysis can detect mini growth spurts. However, the ability to detect mini growth spurts is highly dependent on measurement error. Data preparation, such as ranking and rotating time series data, showed negligible improvements. Missing data was an issue and may affect the prediction quality of the classification metrics. Conclusion: Changepoint analysis is a promising tool to analyse short-term growth. However, further optimisation and analysis of real growth data is needed to make broader generalisations. KW - changepoint analysis KW - changepoint detection KW - performance evaluation KW - mini growth spurt KW - short-term growth Y1 - 2023 U6 - https://doi.org/10.52905/hbph2023.1.62 SN - 2748-9957 VL - 1 PB - Universitätsverlag Potsdam CY - Potsdam ER - TY - JOUR A1 - Groth, Detlef A1 - Scheffler, Christiane A1 - Hermanussen, Michael T1 - Human growth data analysis and statistics – the 5th Gülpe International Student Summer School JF - Human biology and public health N2 - The Summer School in Gülpe (Ecological Station of the University of Potsdam) offers an exceptional learning opportunity for students to apply their knowledge and skills to real-world problems. With the guidance of experienced human biologists, statisticians, and programmers, students have the unique chance to analyze their own data and gain valuable insights. This interdisciplinary setting not only bridges different research areas but also leads to highly valuable outputs. The progress of students within just a few days is truly remarkable, especially when they are motivated and receive immediate feedback on their questions, problems, and results. The Summer School covers a wide range of topics, with this year’s focus mainly on two areas: understanding the impact of socioeconomic and physiological factors on human development and mastering statistical techniques for analyzing data such as changepoint analysis and the St. Nicolas House Analysis (SNHA) to visualize interacting variables. The latter technique, born out of the Summer School’s emphasis on gaining comprehensive data insights and understanding major relationships, has proven to be a valuable tool for researchers in the field. The articles in this special issue demonstrate that the Summer School in Gülpe stands as a testament to the power of practical learning and collaboration. Students who attend not only gain hands-on experience but also benefit from the expertise of professionals and the opportunity to engage with peers from diverse disciplines. KW - Summer Schools KW - Statistical Exercise KW - Repetition Y1 - 2023 U6 - https://doi.org/10.52905/hbph2023.1.70 SN - 2748-9957 VL - 1 PB - Universitätsverlag Potsdam CY - Potsdam ER - TY - JOUR A1 - Hermanussen, Michael A1 - Scheffler, Christiane A1 - Pulungan, Aman B. A1 - Bandyopadhyay, Arup Ratan A1 - Ghosh, Jyoti Ratan A1 - Özdemir, Ayşegül A1 - Koca Özer, Başak A1 - Musalek, Martin A1 - Lebedeva, Lidia A1 - Godina, Elena A1 - Bogin, Barry A1 - Tutkuviene, Janina A1 - Budrytė, Milda A1 - Gervickaite, Simona A1 - Limony, Yehuda A1 - Kirchengast, Sylvia A1 - Buston, Peter A1 - Groth, Detlef A1 - Rösler, Antonia A1 - Gasparatos, Nikolaos A1 - Erofeev, Sergei A1 - Novine, Masiar A1 - Navazo, Bárbara A1 - Dahinten, Silvia A1 - Gomuła, Aleksandra A1 - Nowak-Szczepańska, Natalia A1 - Kozieł, Sławomir T1 - Environment, social behavior, and growth BT - Proceedings of the 30th Aschauer Soiree, held at Krobielowice, Poland, June 18th 2022 JF - Human biology and public health N2 - Twenty-four scientists met for the annual Auxological conference held at Krobielowice castle, Poland, to discuss the diverse influences of the environment and of social behavior on growth following last year’s focus on growth and public health concerns (Hermanussen et al., 2022b). Growth and final body size exhibit marked plastic responses to ecological conditions. Among the shortest are the pygmoid people of Rampasasa, Flores, Indonesia, who still live under most secluded insular conditions. Genetics and nutrition are usually considered responsible for the poor growth in many parts of this world, but evidence is accumulating on the prominent impact of social embedding on child growth. Secular trends not only in the growth of height, but also in body proportions, accompany the secular changes in the social, economic and political conditions, with major influences on the emotional and educational circumstances under which the children grow up (Bogin, 2021). Aspects of developmental tempo and aspects of sports were discussed, and the impact of migration by the example of women from Bangladesh who grew up in the UK. Child growth was considered in particular from the point of view of strategic adjustments of individual size within the network of its social group. Theoretical considerations on network characteristics were presented and related to the evolutionary conservation of growth regulating hypothalamic neuropeptides that have been shown to link behavior and physical growth in the vertebrate species. New statistical approaches were presented for the evaluation of short term growth measurements that permit monitoring child growth at intervals of a few days and weeks. KW - St. Nicolas House Analysis KW - child growth KW - body proportions KW - social network KW - public health KW - migration Y1 - 2023 U6 - https://doi.org/10.52905/hbph2023.1.59 SN - 2748-9957 VL - 1 PB - Universitätsverlag Potsdam CY - Potsdam ER - TY - JOUR A1 - Pornsawad, Pornsarp A1 - Sapsakul, Nantawan A1 - Böckmann, Christine T1 - A modified asymptotical regularization of nonlinear ill-posed problems JF - Mathematics N2 - In this paper, we investigate the continuous version of modified iterative Runge–Kutta-type methods for nonlinear inverse ill-posed problems proposed in a previous work. The convergence analysis is proved under the tangential cone condition, a modified discrepancy principle, i.e., the stopping time T is a solution of ∥𝐹(𝑥𝛿(𝑇))−𝑦𝛿∥=𝜏𝛿+ for some 𝛿+>𝛿, and an appropriate source condition. We yield the optimal rate of convergence. KW - nonlinear operator KW - regularization KW - discrepancy principle KW - asymptotic method KW - optimal rate Y1 - 2019 U6 - https://doi.org/10.3390/math7050419 SN - 2227-7390 VL - 7 PB - MDPI CY - Basel, Schweiz ET - 5 ER - TY - JOUR A1 - Dvornikov, Yury A1 - Leibman, Marina A1 - Heim, Birgit A1 - Bartsch, Annett A1 - Herzschuh, Ulrike A1 - Skorospekhova, Tatiana A1 - Fedorova, Irina A1 - Khomutov, Artem A1 - Widhalm, Barbara A1 - Gubarkov, Anatoly A1 - Rößler, Sebastian T1 - Terrestrial CDOM in lakes of Yamal Peninsula BT - Connection to lake and lake catchment properties JF - Remote Sensing N2 - In this study, we analyze interactions in lake and lake catchment systems of a continuous permafrost area. We assessed colored dissolved organic matter (CDOM) absorption at 440 nm (a(440)(CDOM)) and absorption slope (S300-500) in lakes using field sampling and optical remote sensing data for an area of 350 km(2) in Central Yamal, Siberia. Applying a CDOM algorithm (ratio of green and red band reflectance) for two high spatial resolution multispectral GeoEye-1 and Worldview-2 satellite images, we were able to extrapolate the a()(CDOM) data from 18 lakes sampled in the field to 356 lakes in the study area (model R-2 = 0.79). Values of a(440)(CDOM) in 356 lakes varied from 0.48 to 8.35 m(-1) with a median of 1.43 m(-1). This a()(CDOM) dataset was used to relate lake CDOM to 17 lake and lake catchment parameters derived from optical and radar remote sensing data and from digital elevation model analysis in order to establish the parameters controlling CDOM in lakes on the Yamal Peninsula. Regression tree model and boosted regression tree analysis showed that the activity of cryogenic processes (thermocirques) in the lake shores and lake water level were the two most important controls, explaining 48.4% and 28.4% of lake CDOM, respectively (R-2 = 0.61). Activation of thermocirques led to a large input of terrestrial organic matter and sediments from catchments and thawed permafrost to lakes (n = 15, mean a(440)(CDOM) = 5.3 m(-1)). Large lakes on the floodplain with a connection to Mordy-Yakha River received more CDOM (n = 7, mean a(440)(CDOM) = 3.8 m(-1)) compared to lakes located on higher terraces. KW - CDOM KW - lakes KW - lake catchments KW - permafrost KW - Yamal KW - remote sensing data Y1 - 2018 U6 - https://doi.org/10.3390/rs10020167 SN - 2072-4292 VL - 10 IS - 2 PB - MDPI CY - Basel ER - TY - JOUR A1 - Steinfath, Matthias A1 - Gärtner, Tanja A1 - Lisec, Jan A1 - Meyer, Rhonda Christiane A1 - Altmann, Thomas A1 - Willmitzer, Lothar A1 - Selbig, Joachim T1 - Prediction of hybrid biomass in Arabidopsis thaliana by selected parental SNP and metabolic markers JF - Theoretical and applied genetics : TAG ; international journal of plant breeding research N2 - A recombinant inbred line (RIL) population, derived from two Arabidopsis thaliana accessions, and the corresponding testcrosses with these two original accessions were used for the development and validation of machine learning models to predict the biomass of hybrids. Genetic and metabolic information of the RILs served as predictors. Feature selection reduced the number of variables (genetic and metabolic markers) in the models by more than 80% without impairing the predictive power. Thus, potential biomarkers have been revealed. Metabolites were shown to bear information on inherited macroscopic phenotypes. This proof of concept could be interesting for breeders. The example population exhibits substantial mid-parent biomass heterosis. The results of feature selection could therefore be used to shed light on the origin of heterosis. In this respect, mainly dominance effects were detected. KW - Quantitative Trait Locus KW - feature selection KW - Partial Little Square KW - recombinant inbred line KW - Quantitative Trait Locus analysis Y1 - 2009 U6 - https://doi.org/10.1007/s00122-009-1191-2 SN - 0040-5752 SN - 1432-2242 VL - 120 SP - 239 EP - 247 PB - Springer CY - Berlin ER - TY - JOUR A1 - Smith, Taylor A1 - Zotta, Ruxandra-Maria A1 - Boulton, Chris A. A1 - Lenton, Timothy M. A1 - Dorigo, Wouter A1 - Boers, Niklas T1 - Reliability of resilience estimation based on multi-instrument time series JF - Earth System Dynamics N2 - Many widely used observational data sets are comprised of several overlapping instrument records. While data inter-calibration techniques often yield continuous and reliable data for trend analysis, less attention is generally paid to maintaining higher-order statistics such as variance and autocorrelation. A growing body of work uses these metrics to quantify the stability or resilience of a system under study and potentially to anticipate an approaching critical transition in the system. Exploring the degree to which changes in resilience indicators such as the variance or autocorrelation can be attributed to non-stationary characteristics of the measurement process – rather than actual changes in the dynamical properties of the system – is important in this context. In this work we use both synthetic and empirical data to explore how changes in the noise structure of a data set are propagated into the commonly used resilience metrics lag-one autocorrelation and variance. We focus on examples from remotely sensed vegetation indicators such as vegetation optical depth and the normalized difference vegetation index from different satellite sources. We find that time series resulting from mixing signals from sensors with varied uncertainties and covering overlapping time spans can lead to biases in inferred resilience changes. These biases are typically more pronounced when resilience metrics are aggregated (for example, by land-cover type or region), whereas estimates for individual time series remain reliable at reasonable sensor signal-to-noise ratios. Our work provides guidelines for the treatment and aggregation of multi-instrument data in studies of critical transitions and resilience. Y1 - 2023 U6 - https://doi.org/10.5194/esd-14-173-2023 SN - 2190-4987 VL - 14 SP - 173 EP - 183 PB - Copernicus Publications CY - Göttingen ER - TY - JOUR A1 - Mumm, Rebekka A1 - Scheffler, Christiane A1 - Hermanussen, Michael T1 - Locally structured correlation (LSC) plots describe inhomogeneity in normally distributed correlated bivariate variables JF - Archives of Public Health N2 - Background The association between bivariate variables may not necessarily be homogeneous throughout the whole range of the variables. We present a new technique to describe inhomogeneity in the association of bivariate variables. Methods We consider the correlation of two normally distributed random variables. The 45° diagonal through the origin of coordinates represents the line on which all points would lie if the two variables completely agreed. If the two variables do not completely agree, the points will scatter on both sides of the diagonal and form a cloud. In case of a high association between the variables, the band width of this cloud will be narrow, in case of a low association, the band width will be wide. The band width directly relates to the magnitude of the correlation coefficient. We then determine the Euclidean distances between the diagonal and each point of the bivariate correlation, and rotate the coordinate system clockwise by 45°. The standard deviation of all Euclidean distances, named “global standard deviation”, reflects the band width of all points along the former diagonal. Calculating moving averages of the standard deviation along the former diagonal results in “locally structured standard deviations” and reflect patterns of “locally structured correlations (LSC)”. LSC highlight inhomogeneity of bivariate correlations. We exemplify this technique by analyzing the association between body mass index (BMI) and hip circumference (HC) in 6313 healthy East German adults aged 18 to 70 years. Results The correlation between BMI and HC in healthy adults is not homogeneous. LSC is able to identify regions where the predictive power of the bivariate correlation between BMI and HC increases or decreases, and highlights in our example that slim people have a higher association between BMI and HC than obese people. Conclusion Locally structured correlations (LSC) identify regions of higher or lower than average correlation between two normally distributed variables. KW - Standard deviation KW - Locally structured standard deviation KW - Locally structured correlation KW - Variance Y1 - 2022 U6 - https://doi.org/10.1186/s13690-021-00748-4 SN - 0778-7367 SN - 2049-3258 VL - 80 PB - Springer Nature BMC CY - Bruxelles ER -