Article
Chemistry, Physical
Huw Colin-York, John Heddleston, Eric Wait, Narain Karedla, Michael DeSantis, Satya Khuon, Teng-Leong Chew, Ivo F. Sbalzarini, Marco Fritzsche
Summary: Quantifying molecular dynamics within the context of complex cellular morphologies is crucial for understanding the function of living cells. This study proposes an experimental and computational pipeline that combines lattice light sheet microscopy, fluorescence recovery after photobleaching (FRAP), and numerical simulations to rapidly and non-invasively quantify the dynamics of molecules with respect to 3D cell morphology.
Article
Chemistry, Physical
Surya Pratap S. Deopa, Shatruhan Singh Rajput, Aadarsh Kumar, Shivprasad Patil
Summary: The nanomechanical response of a folded single protein provides insight into its function. Using a special interferometer based atomic force microscope, we directly measured the stiffness and internal friction of the folded domains of the protein titin. The results show that the individual immunoglobulins of titin transition from an elastic solid-like state to a soft viscoelastic state at a certain force.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2022)
Article
Chemistry, Physical
Surya Pratap S. Deopa, Shatruhan Singh Rajput, Aadarsh Kumar, Shivprasad Patil
Summary: The study investigates the nanomechanical response of protein folding state, revealing its conformational flexibility and viscoelastic characteristics. Direct measurement of stiffness and internal friction of the folded domains of the protein titin was achieved using an interferometer-based atomic force microscope.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2022)
Article
Biochemistry & Molecular Biology
Sevde Puza, Shima Asfia, Ralf Seemann, Jean-Baptiste Fleury
Summary: Lipid droplets (LD) locate in the endoplasmic reticulum membrane and play important roles in biological functions. A protein called ADRP surrounds LDs along with phospholipid monolayers and is involved in storing neutral lipids. This article focuses on the influence of ADRP on the 3D shape of LDs embedded in bilayers and the diffusion of phospholipids on LD surfaces. The study shows that ADRP significantly affects the 3D structure of LDs. Rating: 9/10.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Cell Biology
Mariam G. Aslanyan, Cenna Doornbos, Gaurav D. Diwan, Zeinab Anvarian, Tina Beyer, Katrin Junger, Sylvia E. C. van Beersum, Robert B. Russell, Marius Ueffing, Alexander Ludwig, Karsten Boldt, Lotte B. Pedersen, Ronald Roepman
Summary: By studying ubiquitination modifications in cells, we have identified the involvement of ESCRT-dependent clathrin-mediated endocytosis vesicles and caveolae components in ciliary function. These findings contribute to a better understanding of the mechanisms underlying cilia biology in health and disease.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2023)
Article
Chemistry, Multidisciplinary
Emilie Roger, Florence Franconi, Carl Simonsson, Benjamin Siegler, Rodolphe Perrot, Patrick Saulnier, Jean-Christophe Gimel
Summary: This study characterizes lipid nanocapsules, a nanoemulsion obtained from a medium-chain triglyceride mixed with a pegylated surfactant. It is found that a portion of the surfactant is not involved in the construction of the nanocapsules and forms residual micellar structures. These micelles also contain a small amount of medium-chain triglyceride and encapsulate fluorescent dye.
JOURNAL OF CONTROLLED RELEASE
(2023)
Article
Computer Science, Artificial Intelligence
Jayanth Sivakumar, Karthik Ramamurthy, Menaka Radhakrishnan, Daehan Won
Summary: Data generation techniques have become an emerging trend in machine learning, with synthetic data generation being a promising solution to small dataset problems. The kNNMTD method proposed in this research outperforms baseline MTD and CTGAN on all datasets, showing statistical significance.
KNOWLEDGE-BASED SYSTEMS
(2022)
Article
Multidisciplinary Sciences
Eunbyul Cho, Youngsik Woo, Yeongjun Suh, Bo Kyoung Suh, Soo Jeong Kim, Truong Thi My Nhung, Jin Yeong Yoo, Tran Diem Nghi, Su Been Lee, Dong Jin Mun, Sang Ki Park
Summary: The authors developed a MAM-specific BRET-based Ca2+ indicator called MAM-Calflux, which serves as both a Ca2+ indicator and a structural marker. It can estimate steady-state MAM Ca2+ levels and visualize abnormally accumulated MAM Ca2+ in Parkinson's disease mouse model. MAM-Calflux can be a versatile tool for ratiometric measurement of dynamic inter-organellar Ca2+ communication.
NATURE COMMUNICATIONS
(2023)
Article
Engineering, Electrical & Electronic
Daryosh Vatanparvar, Danmeng Wang, Andrei M. Shkel
Summary: This paper presents the instrumentation results of a Dynamically-Amplified Gyroscope (DAG) for direct angle measurement. By mathematical modeling and control methods, the direct angle measurement capability of the 4-DoF DAG was successfully demonstrated. The research results support the reduced-order model and provide an approach to reduce control complexity.
IEEE SENSORS JOURNAL
(2022)
Article
Physics, Multidisciplinary
Jingcheng Ma, Ishrat Zarin, Nenad Miljkovic
Summary: Solid-liquid interfacial free energy (gamma SL) is difficult to measure, but this study presents a direct experimental measurement method for different solid materials. The results show that water-metal adhesion is 80% stronger than the cohesion energy of bulk water, which is consistent with previous quantum chemical calculations.
PHYSICAL REVIEW LETTERS
(2022)
Article
Economics
Sondes Kahouli, Shinichiro Okushima
Summary: Energy poverty has become a significant issue globally, with the study highlighting the importance of methodological considerations in measuring energy poverty and the regional variations caused by climatic and spatial differences. The research emphasizes the necessity of considering circumstantial factors such as climate in accurately assessing energy poverty, and provides insights into addressing energy poverty and inequality through low-carbon energy transitions in different regions. The study also underscores the value of cross-border comparisons in regions with similar circumstantial factors for understanding and tackling energy poverty on an international scale.
Article
Biochemistry & Molecular Biology
Chao Xie, Julien C. Habif, Cedric R. Uytingco, Kirill Ukhanov, Lian Zhang, Carlos de Celis, Val C. Sheffield, Jeffrey R. Martens
Summary: Bardet-Biedl syndrome (BBS) is a hereditary genetic disorder that leads to various clinical manifestations, including olfactory dysfunction. A study using a mouse model found that the olfactory system of Bbs1(M390R/M390R) mice was significantly affected, but their odor discrimination acuity was still well maintained. Adenoviral expression of Bbs1 in olfactory sensory neurons can restore olfactory system function.
Article
Biochemistry & Molecular Biology
Debabrata Dey, Shir Marciano, Ariane Nunes-Alves, Vladimir Kiss, Rebecca C. Wade, Gideon Schreiber
Summary: The Line-FRAP combined with rigorous data analysis is capable of determining diffusion coefficients in different environments. The diffusion coefficients in HeLa and E. coli were significantly slower compared to buffer. This method can be applied to study molecules of different sizes and provide robust results for fast diffusing molecules in various environments and protein concentrations.
JOURNAL OF MOLECULAR BIOLOGY
(2021)
Article
Engineering, Electrical & Electronic
Federico M. Serra, Cristian H. De Angelo
Summary: A direct power based controller designed using a modified interconnection and damping assignment passivity-based control (IDA-PBC) with integral action is proposed in this brief for a shunt active power filter (SAPF). A power based model of the SAPF is proposed and it is described as a port-Hamiltonian model. Then, an extended port Hamiltonian system is proposed including an integral action to compensate for parameter errors and unmodeled uncertainties. From this model, a complete matching equation for the extended system is proposed, and a modified IDA-PBC with integral action is employed to design a power-based controller for a SAPF.
IEEE TRANSACTIONS ON CIRCUITS AND SYSTEMS II-EXPRESS BRIEFS
(2023)
Article
Developmental Biology
Julien C. Habif, Chao Xie, Carlos de Celis, Kirill Ukhanov, Warren W. Green, Jordan C. Moretta, Lian Zhang, Robert J. Campbell, Jeffrey R. Martens
Summary: Olfactory sensory neurons (OSNs) mature by developing glomeruli with multiple cilia, and a GTPase called ARL13B plays a crucial role in this maturation process. Loss of ARL13B in immature OSNs causes dysregulation of cellular homeostasis and delays the timing of maturation. Additionally, ARL13B is essential for the proper structure and innervation of glomeruli, contributing to odor detection and perception.
Article
Developmental Biology
Johannes J. J. Hjorth, Julia Dawitz, Tim Kroon, Johny Pires, Valerie J. Dassen, Janna A. Berkhout, Javier Emperador Melero, Aish G. Nadadhur, Mihai Alevra, Ruud F. Toonen, Vivi M. Heine, Huibert D. Mansvelder, Rhiannon M. Meredith
DEVELOPMENTAL NEUROBIOLOGY
(2016)
Article
Neurosciences
Guobin Bao, Danielle de Jong, Mihai Alevra, Detlev Schild
EUROPEAN JOURNAL OF NEUROSCIENCE
(2015)
Article
Cell Biology
Alice Nemajerova, Daniela Kramer, Saul S. Siller, Christian Herr, Orr Shomroni, Tonatiuh Pena, Cristina Gallinas Suazo, Katharina Glaser, Merit Wildung, Henrik Steffen, Anusha Sriraman, Fabian Oberle, Magdalena Wienken, Magali Hennion, Ramon Vidal, Bettina Royen, Mihai Alevra, Detlev Schild, Robert Bals, Juergen Doenitz, Dietmar Riedel, Stefan Bonn, Ken-Ichi Takemaru, Ute M. Moll, Muriel Lize
GENES & DEVELOPMENT
(2016)
Article
Biophysics
Stephan Junek, Tsai-Wen Chen, Mihai Alevra, Detlev Schildt
BIOPHYSICAL JOURNAL
(2009)
Article
Biochemistry & Molecular Biology
Tanja Ducic, Susanne Quintes, Klaus-Armin Nave, Jean Susini, Margaret Rak, Remi Tucoulou, Mihai Alevra, Peter Guttmann, Tim Salditt
JOURNAL OF STRUCTURAL BIOLOGY
(2011)
Article
Multidisciplinary Sciences
Eugenio F. Fornasiero, Sunit Mandad, Hanna Wildhagen, Mihai Alevra, Burkhard Rammner, Sarva Keihani, Felipe Opazo, Inga Urban, Till Ischebeck, M. Sadman Sakib, Maryam K. Fard, Koray Kirli, Tonatiuh Pena Centeno, Ramon O. Vidal, Raza-Ur Rahman, Eva Benito, Andre Fischer, Sven Dennerlein, Peter Rehling, Ivo Feussner, Stefan Bonn, Mikael Simons, Henning Urlaub, Silvio O. Rizzoli
NATURE COMMUNICATIONS
(2018)
Article
Biochemical Research Methods
Mihai Alevra, Sunit Mandad, Till Ischebeck, Henning Urlaub, Silvio O. Rizzoli, Eugenio F. Fornasiero
Article
Multidisciplinary Sciences
Verena Kluever, Belisa Russo, Sunit Mandad, Nisha Hemandhar Kumar, Mihai Alevra, Alessandro Ori, Silvio O. Rizzoli, Henning Urlaub, Anja Schneider, Eugenio F. Fornasiero
Summary: This study investigates the link between physiological aging and neurodegenerative disorders (NDDs) by studying protein turnover. The findings suggest that protein lifetimes are increased in aged brains and aging affects pathways associated with NDDs. A previously unknown alteration in proteostasis was also observed, indicating a metabolic adaptation that may precede neurodegeneration.
