Biology subjects

Rausch, M.

Publications and source records attributed to Rausch, M..

7 recordsLinked to original sources

bioRxiv2026

Fiber dispersion in the right ventricle: A comparison of constitutive neural network predictions with experimental data

The mechanical behavior of right ventricular (RV) myocardium is governed by its anisotropic microstructure, yet constitutive models that account for fiber dispersion and enable reliable parameter identification remain limited. In this study, we propose a physics-embedded constitutive neural network framework for automated discovery of strain energy functions and microstructural parameters from experimental data. The model is formulated within an incompressible, orthotropic hyperelastic setting using invariant-based representations. Fiber, sheet, and normal directions are incorporated through a rotated structural basis, and dispersion effects are modeled using a generalized structure tensor approach. The framework is trained on multi-axial mechanical data from ovine RV myocardium, including uniaxial tension-compression and simple shear tests. We investigate two training scenarios: (i) full datasets containing both tensile and compressive regimes and (ii) datasets restricted to tensile loading. In both cases, the model accurately reproduces the measured stress-strain responses and identifies sparse, interpretable constitutive models which involve isotropic, anisotropic, and coupling invariants. However, the identifiability of microstructural parameters strongly depends on the available loading conditions. While tensile-only data yield higher predictive accuracy, they result in non-unique or biased estimates of fiber dispersion. In contrast, inclusion of compressive data enables consistent identification of dispersion parameters by separating fiber and matrix contributions. These results highlight the importance of multi-axial loading data for robust parameter identification and demonstrate the capability of constitutive neural network-based approaches for data-driven modeling of anisotropic soft tissues.

bioengineering↗

bioRxiv2023

Fiber alignment in 3D collagen networks as a biophysical marker for cell contractility

Cells cultured in 3D fibrous biopolymer matrices exert traction forces on their environment that induce deformations and remodeling of the fiber network. By measuring these deformations, the traction forces can be reconstructed if the mechanical properties of the matrix and the force-free matrix configuration are known. These requirements severely limit the applicability of traction force reconstruction in practice. In this study, we test whether force-induced matrix remodeling can instead be used as a proxy for cellular traction forces. We measure the traction forces of hepatic stellate cells and different glioblastoma cell lines and quantify matrix remodeling by measuring the fiber orientation and fiber density around these cells. In agreement with simulated fiber networks, we demonstrate that changes in local fiber orientation and density are directly related to cell forces. By resolving Rho-kinase (ROCK) Inhibitor-induced changes of traction forces and fiber alignment and density in hepatic stellate cells, we show that the method is suitable for drug screening assays. We conclude that differences in local fiber orientation and density, which are easily measurable, can be used as a qualitative proxy for changes in traction forces. The method is available as an open-source Python package with a graphical user interface.

biophysics↗

bioRxiv2019

Cognitive modelling reveals distinct electrophysiological markers of decision confidence and error monitoring

Is confidence in perceptual decisions generated by the same brain processes as decision itself, or does confidence require metacognitive processes following up on the decision? In a masked orientation task with varying stimulus-onset-asynchrony, we used EEG and cognitive modelling to trace the timing of the neural correlates of confidence. Confidence as reported by observers increased with stimulus-onset-asynchrony in correct and to a lesser degree in incorrect trials, a pattern incompatible with established models of confidence. Electrophysiological activity in two different time periods was associated with confidence, namely, 350 - 500 ms after stimulus onset and 250 - 350 ms after the response. Cognitive modelling revealed that only the activity following on the stimulus exhibited the same statistical regularities as confidence, while the statistical pattern of the activity following the response was not compatible with confidence. It is argued that electrophysiological markers of decision confidence and error awareness are at least in parts distinct.

neuroscience↗

bioRxiv2019

Measurement of skeletal muscle fiber contractility with high-speed traction microscopy

We describe a technique for simultaneous quantification of the contractile forces and cytosolic calcium dynamics of muscle fibers embedded in three-dimensional biopolymer gels. We derive a scaling law for linear elastic matrices such as basement membrane extract hydrogels (Matrigel) that allows us to measure contractile force from the shape of the relaxed and contracted muscle cell and the Youngs modulus of the matrix, without further knowledge of the matrix deformations surrounding the cell and without performing computationally intensive inverse force reconstruction algorithms. We apply our method to isolated mouse flexor digitorum brevis (FDB) fibers that are embedded in 10 mg/ml Matrigel. Upon electrical stimulation, individual FDB fibers show twitch forces of 0.37 {micro}N {+/-} 0.15 {micro}N and tetanic forces (100 Hz stimulation frequency) of 2.38 {micro}N {+/-} 0.71 {micro}N, corresponding to a tension of 0.44 kPa {+/-} 0.25 kPa and 2.53 kPa {+/-} 1.17 kPa, respectively. Contractile forces of FDB fibers increase in response to caffeine and the troponin-calcium-stabilizer Tirasemtiv, similar to responses measured in whole muscle. From simultaneous high-speed measurements of cell length changes and cytosolic calcium concentration using confocal line scanning at a frequency of 2048 Hz, we show that twitch and tetanic force responses to electric pulses follow the low-pass filtered calcium signal. In summary, we present a technically simple high speed and high throughput method for measuring contractile forces and cytosolic calcium dynamics of single muscle fibers. We expect that our method will help to reduce preparation time, costs, and the number of sacrificed animals needed for experiments such as drug testing.\n\nStatement of significanceWe describe a high speed, high throughput method for the simultaneous measurement of contractile force and cytoplasmic calcium dynamics following electrical pulse stimulation of muscle fibers embedded in a 3-dimensional biopolymer matrix. In contrast to the classical approach of attaching muscle fibers to a force-transducer, our method allows for a highly efficient, parallel analysis of large numbers of fibers under different treatment conditions.

bioengineering↗

bioRxiv2018

let-7 controls the transition to adulthood by releasing select transcriptional regulators from repression by LIN41

Development of multicellular organisms relies on faithful temporal control of cell fates. In Caenorhabditis elegans, the heterochronic pathway governs temporal patterning of somatic cells. This function may be phylogenetically conserved as several heterochronic genes have mammalian orthologues, and as the heterochronic let-7 miRNA and its regulator LIN28 appear to time the onset of puberty in mice and humans. Here, we have investigated how let-7 promotes the transition to adulthood in C. elegans. We find that let-7 controls each of three relevant processes, namely male and female sexual organ morphogenesis as well as changes in skin progenitor cell fates, through the same single target, lin-41. LIN41 in turn silences two pairs of targets post-transcriptionally, by binding and silencing their mRNAs. The EGR-type transcription factor LIN-29a and its co-factor, the NAB1/2 orthologous MAB-10, mediate control of progenitor cell fates and vulval integrity. By contrast, male tail development depends on regulation of the DM domain-containing transcription factors DMD-3 and MAB-3. Our results provide mechanistic insight into an exemplary temporal patterning pathway, demonstrate that let-7 - LIN41 function as a versatile regulatory module that can be connected to different outputs, and reveal how several levels of post-transcriptional regulation ultimately achieve effects through controlling transcriptional outputs.

developmental biology↗

bioRxiv2018

PGC-1α regulates mitochondrial calcium homeostasis, SR stress and cell death to mitigate skeletal muscle aging

Age-related impairment of muscle function severely affects the health of an increasing elderly population. While causality and the underlying mechanisms remain poorly understood, exercise is an efficient intervention to blunt these aging effects. We thus investigated the role of the peroxisome proliferator-activated receptor {gamma} coactivator 1 (PGC-1), a potent regulator of mitochondrial function and exercise adaptation, in skeletal muscle during aging. We demonstrate that PGC-1 overexpression improves mitochondrial dynamics and calcium buffering in an estrogen-related receptor (ERR)-dependent manner. Moreover, we show that sarcoplasmic reticulum stress is attenuated by PGC-1. As a result, PGC-1 prevents tubular aggregate formation and fiber apoptosis in old muscle. Similarly, the pro-apoptotic effects of ceramide and thapsigargin were blunted by PGC-1 in muscle cells. Accordingly, mice with muscle-specific gain- and loss-of-function of PGC-1 exhibit a delayed and premature aging phenotype, respectively. Together, our data reveal a key protective effect of PGC-1 on muscle function and overall health span in aging.\n\nStatement of significanceThe loss of muscle function in aging results in a massive impairment in life quality, e.g. by reducing motor function, strength, endurance, the ability to perform daily tasks or social interactions. Unfortunately, the mechanistic aspects underlying age-related muscle disorders remain poorly understood and treatments improving the disease are extremely limited. We now show that PGC-1, a transcriptional coactivator, is a key regulator of mitochondrial calcium homeostasis, cellular stress and death, all of which are linked to muscle aging and dysfunction. As a result, inhibition of the age-related decline in muscle PGC-1 considerably reduces aging of muscle and constitutes a promising target to prevent and treat the deterioration of muscle function in the elderly.\n\nAbbreviationsBNIP3, BCL2/Adenovirus E1B 19kDa interacting protein 3; Cpt1b, carnitine palmitoyltransferase 1B; CSQ1, calsequestrin 1; Drp1, dynamin-related protein 1; ER stress, endoplasmic reticulum stress; ERR, estrogen-related receptor ; Fis1, fission 1; GRP75, Glucose-Regulated Protein 75; IGFBP5, insulin like growth factor binding protein 5; IP3, inositol 1,4,5-trisphosphate; IP3R1, inositol 1,4,5-trisphosphate receptor type 1; Letm1, leucine zipper and EF-hand containing transmembrane protein 1; MAMs, mitochondria-associated ER membranes; Mcad, medium-chain acyl-CoA dehydrogenase; Opa1, optic atrophy 1; OXPHOS, oxidative phosphorylation; PGC-1, peroxisome proliferator-activated receptor {gamma} coactivator 1; pH2AX, phospho-H2A Histone Family Member X; ppRB, phospho-preproretinoblastoma-associated protein; Puma, BCL2 Binding Component 3; ROS, reactive oxygen species; SR, sarcoplasmic reticulum; TA, tibialis anterior; TBP, TATA binding protein; TPG, thapsigargin; Ucp3, uncoupling protein 3; VDAC, voltage-dependent anion channel; XBP1, X-Box Binding Protein 1; Xiap, X-linked inhibitor of apoptosis protein

cell biology↗

bioRxiv2018

Multiple statistical signatures of human confidence

Recent studies have traced the neural correlates of confidence in perceptual choices using statistical signatures of confidence. The most widely used statistical signature is the folded X-pattern, which was derived from a standard model of confidence assuming an objective definition of confidence as the posterior probability of making the correct choice given the evidence. The folded X-pattern entails that confidence as the subjective probability of being correct equals the probability 0.75 if the stimulus in neutral about the choice options, increases with discriminability of the stimulus in correct trials, and decreases with discriminability in incorrect trials. Here, we show that the standard model of confidence is a special case in which there is no reliable trial-by-trial evidence about discriminability itself. According to a more general model, if there is enough evidence about discriminability, objective confidence is characterised by different pattern: For both correct and incorrect choices, confidence increases with discriminability. In addition, we demonstrate the consequence if discriminability is varied in discrete steps within the standard model: confidence in choices about neutral stimuli is no longer .75. Overall, identifying neural correlates of confidence by presupposing the folded X-pattern as a statistical signature of confidence is not legitimate.

neuroscience↗