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JOURNAL ARTICLE
Rebecca Rimbach, Yosuke Yamada, Hiroyuki Sagayama, Philip N Ainslie, Lene F Anderson, Liam J Anderson, Lenore Arab, Issaad Baddou, Kweku Bedu-Addo, Ellen E Blaak, Stephane Blanc, Alberto G Bonomi, Carlijn V C Bouten, Pascal Bovet, Maciej S Buchowski, Nancy F Butte, Stefan G J A Camps, Graeme L Close, Jamie A Cooper, Sai Krupa Das, Lara R Dugas, Ulf Ekelund, Sonja Entringer, Terrence Forrester, Barry W Fudge, Annelies H Goris, Michael Gurven, Catherine Hambly, Asmaa El Hamdouchi, Marije B Hoos, Sumei Hu, Noorjehan Joonas, Annemiek M Joosen, Peter Katzmarzyk, Kitty P Kempen, Misaka Kimura, William E Kraus, Robert F Kushner, Estelle V Lambert, William R Leonard, Nader Lessan, Corby K Martin, Anine C Medin, Erwin P Meijer, James C Morehen, James P Morton, Marian L Neuhouser, Theresa A Nicklas, Robert M Ojiambo, Kirsi H Pietiläinen, Yannis P Pitsiladis, Jacob Plange-Rhule, Guy Plasqui, Ross L Prentice, Roberto A Rabinovich, Susan B Racette, David A Raichlen, Eric Ravussin, Rebecca M Reynolds, Susan B Roberts, Albertine J Schuit, Anders M Sjödin, Eric Stice, Samuel S Urlacher, Giulio Valenti, Ludo M Van Etten, Edgar A Van Mil, Jonathan C K Wells, George Wilson, Brian M Wood, Jack Yanovski, Tsukasa Yoshida, Xueying Zhang, Alexia J Murphy-Alford, Cornelia U Loechl, Amy H Luke, Jennifer Rood, Dale A Schoeller, Klaas R Westerterp, William W Wong, John R Speakman, Herman Pontzer
Low total energy expenditure (TEE, MJ/d) has been a hypothesized risk factor for weight gain, but repeatability of TEE, a critical variable in longitudinal studies of energy balance, is understudied. We examine repeated doubly labeled water (DLW) measurements of TEE in 348 adults and 47 children from the IAEA DLW Database (mean ± SD time interval: 1.9 ± 2.9 y) to assess repeatability of TEE, and to examine if TEE adjusted for age, sex, fat-free mass, and fat mass is associated with changes in weight or body composition...
January 10, 2022: Nature Communications
#22
JOURNAL ARTICLE
Christina Grimm, Stefan Frässle, Céline Steger, Lukas von Ziegler, Oliver Sturman, Noam Shemesh, Daria Peleg-Raibstein, Denis Burdakov, Johannes Bohacek, Klaas Enno Stephan, Daniel Razansky, Nicole Wenderoth, Valerio Zerbi
The basal ganglia (BG) are a group of subcortical nuclei responsible for motor and executive function. Central to BG function are striatal cells expressing D1 (D1R) and D2 (D2R) dopamine receptors. D1R and D2R cells are considered functional antagonists that facilitate voluntary movements and inhibit competing motor patterns, respectively. However, whether they maintain a uniform function across the striatum and what influence they exert outside the BG is unclear. Here, we address these questions by combining optogenetic activation of D1R and D2R cells in the mouse ventrolateral caudoputamen with fMRI...
December 28, 2021: Cell Reports
#23
JOURNAL ARTICLE
Stephanie I W van de Stadt, Petra A W Mooyer, Inge M E Dijkstra, Conny J M Dekker, Divya Vats, Moin Vera, Maura R Z Ruzhnikov, Keith van Haren, Nelson Tang, Klaas Koop, Michel A Willemsen, Joannie Hui, Frédéric M Vaz, Merel S Ebberink, Marc Engelen, Stephan Kemp, Sacha Ferdinandusse
Due to newborn screening for X-linked adrenoleukodystrophy (ALD), and the use of exome sequencing in clinical practice, the detection of variants of unknown significance (VUS) in the ABCD1 gene is increasing. In these cases, functional tests in fibroblasts may help to classify a variant as (likely) benign or pathogenic. We sought to establish reference ranges for these tests in ALD patients and control subjects with the aim of helping to determine the pathogenicity of VUS in ABCD1 . Fibroblasts from 36 male patients with confirmed ALD, 26 healthy control subjects and 17 individuals without a family history of ALD, all with an uncertain clinical diagnosis and a VUS identified in ABCD1 , were included...
November 30, 2021: Genes
#24
JOURNAL ARTICLE
Jenifer Cuesta Bernal, Jasmin El-Delik, Stephan Göttig, Klaas M Pos
Gram-negative Tripartite Resistance Nodulation and cell Division (RND) superfamily efflux pumps confer various functions, including multidrug and bile salt resistance, quorum-sensing, virulence and can influence the rate of mutations on the chromosome. Multidrug RND efflux systems are often characterized by a wide substrate specificity. Similarly to many other RND efflux pump systems, AcrAD-TolC confers resistance toward SDS, novobiocin and deoxycholate. In contrast to the other pumps, however, it in addition confers resistance against aminoglycosides and dianionic β-lactams, such as sulbenicillin, aztreonam and carbenicillin...
December 6, 2021: Antibiotics
#25
JOURNAL ARTICLE
Lars Kasper, Maria Engel, Jakob Heinzle, Matthias Mueller-Schrader, Nadine N Graedel, Jonas Reber, Thomas Schmid, Christoph Barmet, Bertram J Wilm, Klaas Enno Stephan, Klaas P Pruessmann
Spiral fMRI has been put forward as a viable alternative to rectilinear echo-planar imaging, in particular due to its enhanced average k-space speed and thus high acquisition efficiency. This renders spirals attractive for contemporary fMRI applications that require high spatiotemporal resolution, such as laminar or columnar fMRI. However, in practice, spiral fMRI is typically hampered by its reduced robustness and ensuing blurring artifacts, which arise from imperfections in both static and dynamic magnetic fields...
November 17, 2021: NeuroImage
#26
REVIEW
Inês Pereira, Stefan Frässle, Jakob Heinzle, Dario Schöbi, Cao Tri Do, Moritz Gruber, Klaas E Stephan
Dynamic Causal Modeling (DCM) is a Bayesian framework for inferring on hidden (latent) neuronal states, based on measurements of brain activity. Since its introduction in 2003 for functional magnetic resonance imaging data, DCM has been extended to electrophysiological data, and several variants have been developed. Their biophysically motivated formulations make these models promising candidates for providing a mechanistic understanding of human brain dynamics, both in health and disease. However, due to their complexity and reliance on concepts from several fields, fully understanding the mathematical and conceptual basis behind certain variants of DCM can be challenging...
October 20, 2021: NeuroImage
#27
JOURNAL ARTICLE
Olivia K Harrison, Laura Köchli, Stephanie Marino, Roger Luechinger, Franciszek Hennel, Katja Brand, Alexander J Hess, Stefan Frässle, Sandra Iglesias, Fabien Vinckier, Frederike H Petzschner, Samuel J Harrison, Klaas E Stephan
Interoception, the perception of internal bodily states, is thought to be inextricably linked to affective qualities such as anxiety. Although interoception spans sensory to metacognitive processing, it is not clear whether anxiety is differentially related to these processing levels. Here we investigated this question in the domain of breathing, using computational modeling and high-field (7 T) fMRI to assess brain activity relating to dynamic changes in inspiratory resistance of varying predictability. Notably, the anterior insula was associated with both breathing-related prediction certainty and prediction errors, suggesting an important role in representing and updating models of the body...
October 12, 2021: Neuron
#28
JOURNAL ARTICLE
Ozan Unal, Orhun Caner Eren, Göktuğ Alkan, Frederike H Petzschner, Yu Yao, Klaas Enno Stephan
Interoception and homeostatic/allostatic control are intertwined branches of closed-loop brain-body interactions (BBI). Given their importance in mental and psychosomatic disorders, establishing computational assays of BBI represents a clinically important but methodologically challenging endeavor. This technical note presents a novel approach, derived from a generic computational model of homeostatic/allostatic control that underpins (meta)cognitive theories of affective and psychosomatic disorders. This model views homeostatic setpoints as probability distributions ("homeostatic beliefs") whose parameters determine regulatory efforts and change dynamically under allostatic predictions...
September 18, 2021: Biological Psychology
#29
JOURNAL ARTICLE
Dario Schöbi, Cao-Tri Do, Stefan Frässle, Marc Tittgemeyer, Jakob Heinzle, Klaas Enno Stephan
Dynamic causal models (DCMs) of electrophysiological data allow, in principle, for inference on hidden, bulk synaptic function in neural circuits. The directed influences between the neuronal elements of modeled circuits are subject to delays due to the finite transmission speed of axonal connections. Ordinary differential equations are therefore not adequate to capture the ensuing circuit dynamics, and delay differential equations (DDEs) are required instead. Previous work has illustrated that the integration of DDEs in DCMs benefits from sophisticated integration schemes in order to ensure rigorous parameter estimation and correct model identification...
September 13, 2021: NeuroImage
#30
JOURNAL ARTICLE
Olivia K Harrison, Sarah N Garfinkel, Lucy Marlow, Sarah Finnegan, Stephanie Marino, Laura Nanz, Micah Allen, Johanna Finnemann, Laura Keur-Huizinga, Samuel J Harrison, Klaas E Stephan, Kyle T S Pattinson, Stephen M Fleming
The study of the brain's processing of sensory inputs from within the body ('interoception') has been gaining rapid popularity in neuroscience, where interoceptive disturbances are thought to exist across a wide range of chronic physiological and psychological conditions. Here we present a task and analysis procedure to quantify specific dimensions of breathing-related interoception, including interoceptive sensitivity (accuracy), decision bias, metacognitive bias, and metacognitive performance. Two major developments address some of the challenges presented by low trial numbers in interoceptive experiments: (i) a novel adaptive algorithm to maintain task performance at 70-75% accuracy; (ii) an extended hierarchical metacognitive model to estimate regression parameters linking metacognitive performance to relevant (e...
September 3, 2021: Biological Psychology
#31
JOURNAL ARTICLE
Klaas R Westerterp, Yosuke Yamada, Hiroyuki Sagayama, Philip N Ainslie, Lene F Andersen, Liam J Anderson, Lenore Arab, Issaad Baddou, Kweku Bedu-Addo, Ellen E Blaak, Stephane Blanc, Alberto G Bonomi, Carlijn V C Bouten, Pascal Bovet, Maciej S Buchowski, Nancy F Butte, Stefan G J A Camps, Graeme L Close, Jamie A Cooper, Sai K Das, Richard Cooper, Lara R Dugas, Ulf Ekelund, Sonja Entringer, Terrence Forrester, Barry W Fudge, Annelies H Goris, Michael Gurven, Catherine Hambly, Asmaa El Hamdouchi, Marije B Hoos, Sumei Hu, Noorjehan Joonas, Annemiek M Joosen, Peter Katzmarzyk, Kitty P Kempen, Misaka Kimura, William E Kraus, Robert F Kushner, Estelle V Lambert, William R Leonard, Nader Lessan, Corby K Martin, Anine C Medin, Erwin P Meijer, James C Morehen, James P Morton, Marian L Neuhouser, Theresa A Nicklas, Robert M Ojiambo, Kirsi H Pietiläinen, Yannis P Pitsiladis, Jacob Plange-Rhule, Guy Plasqui, Ross L Prentice, Roberto A Rabinovich, Susan B Racette, David A Raichlen, Eric Ravussin, Rebecca M Reynolds, Susan B Roberts, Albertine J Schuit, Anders M Sjödin, Eric Stice, Samuel S Urlacher, Giulio Valenti, Ludo M Van Etten, Edgar A Van Mil, Jonathan C K Wells, George Wilson, Brian M Wood, Jack Yanovski, Tsukasa Yoshida, Xueying Zhang, Alexia J Murphy-Alford, Cornelia U Loechl, Amy H Luke, Herman Pontzer, Jennifer Rood, Dale A Schoeller, William W Wong, John R Speakman
BACKGROUND: Physical activity may be a way to increase and maintain fat-free mass (FFM) in later life, similar to the prevention of fractures by increasing peak bone mass. OBJECTIVES: A study is presented of the association between FFM and physical activity in relation to age. METHODS: In a cross-sectional study, FFM was analyzed in relation to physical activity in a large participant group as compiled in the International Atomic Energy Agency Doubly Labeled Water database...
November 8, 2021: American Journal of Clinical Nutrition
#32
JOURNAL ARTICLE
Alexander Block, Alessandro Principi, Niels C H Hesp, Aron W Cummings, Matz Liebel, Kenji Watanabe, Takashi Taniguchi, Stephan Roche, Frank H L Koppens, Niek F van Hulst, Klaas-Jan Tielrooij
Conducting materials typically exhibit either diffusive or ballistic charge transport. When electron-electron interactions dominate, a hydrodynamic regime with viscous charge flow emerges1-13 . More stringent conditions eventually yield a quantum-critical Dirac-fluid regime, where electronic heat can flow more efficiently than charge14-22 . However, observing and controlling the flow of electronic heat in the hydrodynamic regime at room temperature has so far remained elusive. Here we observe heat transport in graphene in the diffusive and hydrodynamic regimes, and report a controllable transition to the Dirac-fluid regime at room temperature, using carrier temperature and carrier density as control knobs...
August 23, 2021: Nature Nanotechnology
#33
JOURNAL ARTICLE
Herman Pontzer, Yosuke Yamada, Hiroyuki Sagayama, Philip N Ainslie, Lene F Andersen, Liam J Anderson, Lenore Arab, Issaad Baddou, Kweku Bedu-Addo, Ellen E Blaak, Stephane Blanc, Alberto G Bonomi, Carlijn V C Bouten, Pascal Bovet, Maciej S Buchowski, Nancy F Butte, Stefan G Camps, Graeme L Close, Jamie A Cooper, Richard Cooper, Sai Krupa Das, Lara R Dugas, Ulf Ekelund, Sonja Entringer, Terrence Forrester, Barry W Fudge, Annelies H Goris, Michael Gurven, Catherine Hambly, Asmaa El Hamdouchi, Marjije B Hoos, Sumei Hu, Noorjehan Joonas, Annemiek M Joosen, Peter Katzmarzyk, Kitty P Kempen, Misaka Kimura, William E Kraus, Robert F Kushner, Estelle V Lambert, William R Leonard, Nader Lessan, Corby Martin, Anine C Medin, Erwin P Meijer, James C Morehen, James P Morton, Marian L Neuhouser, Teresa A Nicklas, Robert M Ojiambo, Kirsi H Pietiläinen, Yannis P Pitsiladis, Jacob Plange-Rhule, Guy Plasqui, Ross L Prentice, Roberto A Rabinovich, Susan B Racette, David A Raichlen, Eric Ravussin, Rebecca M Reynolds, Susan B Roberts, Albertine J Schuit, Anders M Sjödin, Eric Stice, Samuel S Urlacher, Giulio Valenti, Ludo M Van Etten, Edgar A Van Mil, Jonathan C K Wells, George Wilson, Brian M Wood, Jack Yanovski, Tsukasa Yoshida, Xueying Zhang, Alexia J Murphy-Alford, Cornelia Loechl, Amy H Luke, Jennifer Rood, Dale A Schoeller, Klaas R Westerterp, William W Wong, John R Speakman
Total daily energy expenditure ("total expenditure") reflects daily energy needs and is a critical variable in human health and physiology, but its trajectory over the life course is poorly studied. We analyzed a large, diverse database of total expenditure measured by the doubly labeled water method for males and females aged 8 days to 95 years. Total expenditure increased with fat-free mass in a power-law manner, with four distinct life stages. Fat-free mass-adjusted expenditure accelerates rapidly in neonates to ~50% above adult values at ~1 year; declines slowly to adult levels by ~20 years; remains stable in adulthood (20 to 60 years), even during pregnancy; then declines in older adults...
August 13, 2021: Science
#34
REVIEW
TAPAS: An Open-Source Software Package for Translational Neuromodeling and Computational Psychiatry.
Stefan Frässle, Eduardo A Aponte, Saskia Bollmann, Kay H Brodersen, Cao T Do, Olivia K Harrison, Samuel J Harrison, Jakob Heinzle, Sandra Iglesias, Lars Kasper, Ekaterina I Lomakina, Christoph Mathys, Matthias Müller-Schrader, Inês Pereira, Frederike H Petzschner, Sudhir Raman, Dario Schöbi, Birte Toussaint, Lilian A Weber, Yu Yao, Klaas E Stephan
Psychiatry faces fundamental challenges with regard to mechanistically guided differential diagnosis, as well as prediction of clinical trajectories and treatment response of individual patients. This has motivated the genesis of two closely intertwined fields: (i) Translational Neuromodeling (TN), which develops "computational assays" for inferring patient-specific disease processes from neuroimaging, electrophysiological, and behavioral data; and (ii) Computational Psychiatry (CP), with the goal of incorporating computational assays into clinical decision making in everyday practice...
2021: Frontiers in Psychiatry
#35
JOURNAL ARTICLE
Dario Schöbi, Fabienne Homberg, Stefan Frässle, Heike Endepols, Rosalyn J Moran, Karl J Friston, Marc Tittgemeyer, Jakob Heinzle, Klaas Enno Stephan
Drugs affecting neuromodulation, for example by dopamine or acetylcholine, take centre stage among therapeutic strategies in psychiatry. These neuromodulators can change both neuronal gain and synaptic plasticity and therefore affect electrophysiological measures. An important goal for clinical diagnostics is to exploit this effect in the reverse direction, i.e., to infer the status of specific neuromodulatory systems from electrophysiological measures. In this study, we provide proof-of-concept that the functional status of cholinergic (specifically muscarinic) receptors can be inferred from electrophysiological data using generative (dynamic causal) models...
August 15, 2021: NeuroImage
#36
JOURNAL ARTICLE
Yu Yao, Klaas E Stephan
In this article, we address technical difficulties that arise when applying Markov chain Monte Carlo (MCMC) to hierarchical models designed to perform clustering in the space of latent parameters of subject-wise generative models. Specifically, we focus on the case where the subject-wise generative model is a dynamic causal model (DCM) for functional magnetic resonance imaging (fMRI) and clusters are defined in terms of effective brain connectivity. While an attractive approach for detecting mechanistically interpretable subgroups in heterogeneous populations, inverting such a hierarchical model represents a particularly challenging case, since DCM is often characterized by high posterior correlations between its parameters...
April 7, 2021: Human Brain Mapping
#37
JOURNAL ARTICLE
John R Speakman, Yosuke Yamada, Hiroyuki Sagayama, Elena S F Berman, Philip N Ainslie, Lene F Andersen, Liam J Anderson, Lenore Arab, Issaad Baddou, Kweku Bedu-Addo, Ellen E Blaak, Stephane Blanc, Alberto G Bonomi, Carlijn V C Bouten, Pascal Bovet, Maciej S Buchowski, Nancy F Butte, Stefan G J A Camps, Graeme L Close, Jamie A Cooper, Seth A Creasy, Sai Krupa Das, Richard Cooper, Lara R Dugas, Cara B Ebbeling, Ulf Ekelund, Sonja Entringer, Terrence Forrester, Barry W Fudge, Annelies H Goris, Michael Gurven, Catherine Hambly, Asmaa El Hamdouchi, Marije B Hoos, Sumei Hu, Noorjehan Joonas, Annemiek M Joosen, Peter Katzmarzyk, Kitty P Kempen, Misaka Kimura, William E Kraus, Robert F Kushner, Estelle V Lambert, William R Leonard, Nader Lessan, David S Ludwig, Corby K Martin, Anine C Medin, Erwin P Meijer, James C Morehen, James P Morton, Marian L Neuhouser, Theresa A Nicklas, Robert M Ojiambo, Kirsi H Pietiläinen, Yannis P Pitsiladis, Jacob Plange-Rhule, Guy Plasqui, Ross L Prentice, Roberto A Rabinovich, Susan B Racette, David A Raichlen, Eric Ravussin, Rebecca M Reynolds, Susan B Roberts, Albertine J Schuit, Anders M Sjödin, Eric Stice, Samuel S Urlacher, Giulio Valenti, Ludo M Van Etten, Edgar A Van Mil, Jonathan C K Wells, George Wilson, Brian M Wood, Jack Yanovski, Tsukasa Yoshida, Xueying Zhang, Alexia J Murphy-Alford, Cornelia U Loechl, Edward L Melanson, Amy H Luke, Herman Pontzer, Jennifer Rood, Dale A Schoeller, Klaas R Westerterp, William W Wong
The doubly labeled water (DLW) method measures total energy expenditure (TEE) in free-living subjects. Several equations are used to convert isotopic data into TEE. Using the International Atomic Energy Agency (IAEA) DLW database (5,756 measurements of adults and children), we show considerable variability is introduced by different equations. The estimated rCO2 is sensitive to the dilution space ratio (DSR) of the two isotopes. Based on performance in validation studies, we propose a new equation based on a new estimate of the mean DSR...
February 16, 2021: Cell reports medicine
#38
JOURNAL ARTICLE
Stefan Frässle, Samuel J Harrison, Jakob Heinzle, Brett A Clementz, Carol A Tamminga, John A Sweeney, Elliot S Gershon, Matcheri S Keshavan, Godfrey D Pearlson, Albert Powers, Klaas E Stephan
"Resting-state" functional magnetic resonance imaging (rs-fMRI) is widely used to study brain connectivity. So far, researchers have been restricted to measures of functional connectivity that are computationally efficient but undirected, or to effective connectivity estimates that are directed but limited to small networks. Here, we show that a method recently developed for task-fMRI-regression dynamic causal modeling (rDCM)-extends to rs-fMRI and offers both directional estimates and scalability to whole-brain networks...
February 4, 2021: Human Brain Mapping
#39
JOURNAL ARTICLE
Samuel J Harrison, Samuel Bianchi, Jakob Heinzle, Klaas Enno Stephan, Sandra Iglesias, Lars Kasper
In this technical note, we introduce a new method for estimating changes in respiratory volume per unit time (RVT) from respiratory bellows recordings. By using techniques from the electrophysiological literature, in particular the Hilbert transform, we show how we can better characterise breathing rhythms, with the goal of improving physiological noise correction in functional magnetic resonance imaging (fMRI). Specifically, our approach leads to a representation with higher time resolution and better captures atypical breathing events than current peak-based RVT estimators...
January 28, 2021: NeuroImage
#40
JOURNAL ARTICLE
Isabel M Berwian, Julia G Wenzel, Leonie Kuehn, Inga Schnuerer, Lars Kasper, Ilya M Veer, Erich Seifritz, Klaas E Stephan, Henrik Walter, Quentin J M Huys
The risk of relapsing into depression after stopping antidepressants is high, but no established predictors exist. Resting-state functional magnetic resonance imaging (rsfMRI) measures may help predict relapse and identify the mechanisms by which relapses occur. rsfMRI data were acquired from healthy controls and from patients with remitted major depressive disorder on antidepressants. Patients were assessed a second time either before or after discontinuation of the antidepressant, and followed up for six months to assess relapse...
December 18, 2020: Scientific Reports
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