Article
Biochemistry & Molecular Biology
Stephen J. Fuller, Nick S. Edmunds, Liam J. McGuffin, Michelle A. Hardyman, Joshua J. Cull, Hajed O. Alharbi, Daniel N. Meijles, Peter H. Sugden, Angela Clerk
Summary: The study reveals that MAP4K4 is regulated in cardiomyocytes within STRIPAK complexes, possibly regulating the cytoskeleton function instead of activating JNKs. The interaction between MAP4K4 and striatins is direct and mediated via coiled-coil domains, contributing to the understanding of its regulatory mechanism in cardiac cells. Surprisingly, MAP4K4 inhibits JNK activation by H2O2 in cardiomyocytes and promotes myofibrillar organization.
BIOCHEMICAL JOURNAL
(2021)
Article
Multidisciplinary Sciences
Te-Yao Hsu, Hsin-Hsin Cheng, Kuo-Chung Lan, Hsuan-Ning Hung, Yun-Ju Lai, Chih-Chang Tsai, Wen-Lang Fan, Sung-Chou Li
Summary: Preterm birth (PTB) is a leading cause of neonatal morbidity and mortality, and early prediction of PTB is crucial for providing timely medical intervention. This study identified four protein biomarkers in amniotic fluid that were negatively correlated with neonatal weight and gestational age, and developed a prediction model with high accuracy for PTB.
SCIENTIFIC REPORTS
(2023)
Article
Engineering, Electrical & Electronic
Yuan Zhi, Vaithianathan Venkatasubramanian
Summary: This letter introduces a rigorous method for estimating the overall impact of a forced oscillation when the frequency is close to multiple system modes. The method not only provides analytical insight but also proves to be useful in analyzing forced oscillations in large-scale power system models and measurement-based analysis.
IEEE TRANSACTIONS ON POWER SYSTEMS
(2021)
Article
Chemistry, Physical
Yikun Gao, Ye He, Haotian Zhang, Youxi Zhang, Tianbin Gao, Jia-Hong Wang, Siling Wang
Summary: By modifying meso-porous silica nanoparticles with distinct coatings, the oral delivery of protein drugs was enhanced in terms of permeation and absorption in the gastrointestinal tract. Furthermore, the modified carrier showed reduced chances of entering lysosomes and displayed outstanding hypoglycemic effects in diabetic rats.
JOURNAL OF COLLOID AND INTERFACE SCIENCE
(2021)
Review
Biochemistry & Molecular Biology
Carla Rodriguez-Mogeda, Sabela Rodriguez-Lorenzo, Jiji Attia, Jack van Horssen, Maarten E. Witte, Helga E. de Vries
Summary: Multiple sclerosis is an inflammatory disease where B cells play a crucial role in the pathogenesis, migrating into the central nervous system through various routes. Understanding the routes of B cell entry into the inflamed CNS is essential for comprehending the disease.
Article
Chemistry, Physical
Agustina Cotic, Koen Veys, Daniel Escudero, Alejandro Cadranel
Summary: This study demonstrates the presence of high kinetic barriers for internal conversion in anti-Kasha chromophores and provides guidelines for their design. The results highlight the importance of wavefunction symmetry in inhibiting dissipative IC and offer insights into the dissipation process at the atomistic level.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2022)
Article
Chemistry, Inorganic & Nuclear
Giarita Ferraro, Maddalena Paolillo, Giuseppe Sciortino, Eugenio Garribba, Antonello Merlino
Summary: The interaction between metal-based drugs and proteins is essential for their transportation, mechanism, and activity. This study evaluates the interaction of [VIVO(malt)2] with HEWL and observes multiple binding of different V-containing isomers and enantiomers to various sites on HEWL, providing insights into their solution chemistry and mechanism of action.
INORGANIC CHEMISTRY
(2022)
Article
Physics, Applied
Quansan Yang, Ye Gao, Feng He, Pengfei Hao
Summary: The study introduces a new method for achieving uniform deposition of colloidal droplets during drying using forced airflow, which effectively eliminates the coffee-ring effect. Experimental results demonstrate the potential for diverse applications of this strategy in both industrial and scientific fields.
JOURNAL OF APPLIED PHYSICS
(2021)
Article
Biochemistry & Molecular Biology
Denise Bellotti, Angelica Sinigaglia, Remo Guerrini, Erika Marzola, Magdalena Rowinska-Zyrek, Maurizio Remelli
Summary: The study focused on the role of histidines in metal ion coordination, comparing the binding affinities for Cu(II), Ni(II), and Zn(II), as well as understanding Hpn's ability to form ternary and poly nuclear complexes. The results showed that histidines in position 4 and 8 lead to Cu(II) binuclear complex formation. The ATCUN motif is the most efficient binding site for Cu(II) and Ni(II), while Zn(II) complexes are formed due to the presence of suitable anchoring sites.
JOURNAL OF INORGANIC BIOCHEMISTRY
(2021)
Article
Chemistry, Inorganic & Nuclear
Bholey Singh, Balaram Pani, Deepak Gupta
Summary: These facial-Re(CO)(3)-based acyclic complexes exhibit unique structural features and strong DNA binding ability, confirmed by X-ray diffraction analysis which shows a variety of intermolecular supramolecular interactions.
DALTON TRANSACTIONS
(2021)
Article
Materials Science, Multidisciplinary
X. C. Liu, W. T. Li, Y. Q. Zhou, Y. Z. Li, X. J. Pei, Z. K. Shen, Q. H. Wang
Summary: The multiple effects of forced cooling on joint quality in coolant-assisted friction stir welding and the underlying mechanism were investigated. It was found that forced cooling can refine the grains in the weld zone, improve the tensile strength of the joint, but reduce the elongation. These effects are achieved by decreasing the heating rate, increasing the cooling rate, and suppressing grain growth.
JOURNAL OF MATERIALS RESEARCH AND TECHNOLOGY-JMR&T
(2023)
Article
Clinical Neurology
Xin Feng, Xin Tong, Fei Peng, Hao Niu, Peng Qi, Jun Lu, Yang Zhao, Weitao Jin, Zhongxue Wu, He Liu, Yuanli Zhao, Aihua Liu, Daming Wang
Summary: The number of coexisting intracranial aneurysms does not increase the risk of rupture for individual aneurysms, but it may increase the risk of SAH in patients with multiple aneurysms, highlighting the significant additive effect on SAH risk.
Article
Oncology
Ola Rizq, Naoya Mimura, Motohiko Oshima, Shuji Momose, Naoya Takayama, Naoki Itokawa, Shuhei Koide, Asuka Shibamiya, Yurie Miyamoto-Nagai, Mohamed Rizk, Yaeko Nakajima-Takagi, Kazumasa Aoyama, Changshan Wang, Atsunori Saraya, Masanori Seimiya, Mariko Watanabe, Satoshi Yamasaki, Tatsuhiro Shibata, Kiyoshi Yamaguchi, Yoichi Furukawa, Tetsuhiro Chiba, Emiko Sakaida, Chiaki Nakaseko, Jun-ichi Tamaru, Yu-Tzu Tai, Kenneth C. Anderson, Hiroaki Honda, Atsushi Iwama
Summary: In multiple myeloma (MM), conditional loss of UTX/KDM6A gene collaborates with Braf(V600E) mutation to induce lethal GC/post-GC B cell malignancies with MM-like plasma cell neoplasms. UTX's cIDR domain is responsible for its catalytic activity-independent tumor suppressor function. UTX loss in concert with Braf(V600E) activates transcriptional networks specific to MM, inducing high levels of Myc expression and gradual transformation of plasma cells.
Article
Chemistry, Multidisciplinary
Shir Marciano, Debabrata Dey, Dina Listov, Sarel J. Fleishman, Adar Sonn-Segev, Haydyn Mertens, Florian Busch, Yongseok Kim, Sophie R. Harvey, Vicki H. Wysocki, Gideon Schreiber
Summary: In this study, the oligomeric state of 17 different bacterial proteins in E. coli was re-evaluated using various methods, and it was found that most proteins exhibit multiple oligomeric states. Some proteins did not show mass-action driven equilibrium between oligomeric states. The predicted oligomeric forms underestimated the complexity of protein quaternary structures in solution, while AlphaFold multimer provided an accurate description.
Article
Physics, Multidisciplinary
Ermanno Pinotti, Stefano Longhi
Summary: A quantum particle constrained between two high potential barriers can exhibit quasi-bound states. The decay of the wave function in such states can be accelerated by additional lateral barriers, contrary to intuition. This acceleration is due to resonant tunneling effects and results in deviations from exponential decay.
Article
Chemistry, Physical
Yonghyun Song, Changbong Hyeon
Summary: This study reviews the trade-offs between speed, fluctuations, and thermodynamic cost in biological processes and discusses the optimization in nonequilibrium states. It finds suboptimal precision of enzymatic processes at a given thermodynamic cost, with key biological processes working around this condition. The research delves into how biological systems evolve through optimization and balancing conflicting functional requirements.
JOURNAL OF CHEMICAL PHYSICS
(2021)
Article
Biochemical Research Methods
Ji Hyun Bak, Min Hyeok Kim, Lei Liu, Changbong Hyeon
Summary: This study develops a unified framework for modeling and inferring chromatin domain structures over multiple scales, offering a quantitative view of multi-scale chromatin organization and revealing its connections with genome function.
PLOS COMPUTATIONAL BIOLOGY
(2021)
Article
Chemistry, Physical
Anvy Moly Tom, Won Kyu Kim, Changbong Hyeon
Summary: The study investigates the impact of mobile polymer brushes on proteins embedded in biological membranes using theoretical models and simulations. The depletion attraction between proteins due to brush polymers changes non-monotonically with the size of the brush; the interaction increases linearly with brush size as long as the brush height is shorter than the protein size. However, when the brush height exceeds the protein size, the depletion attraction among proteins is slightly reduced.
JOURNAL OF CHEMICAL PHYSICS
(2021)
Article
Chemistry, Physical
Pureun Kim, Changbong Hyeon
Summary: Temporal order in living matters reflects the self-organizing nature of dynamical processes driven out of thermodynamic equilibrium. The precision of biochemical oscillations is constrained by the thermodynamic cost according to the thermodynamic uncertainty relation (TUR). Glycolytic oscillations under cellular conditions are found to be cost-effective, with minimal entropy production when the oscillation period is between 5-10 minutes.
JOURNAL OF PHYSICAL CHEMISTRY B
(2021)
Article
Multidisciplinary Sciences
Changwon Kim, Min Ju Shon, Sung Hyun Kim, Gee Sung Eun, Je-Kyung Ryu, Changbong Hyeon, Reinhard Jahn, Tae-Young Yoon
Summary: Using single-molecule methods, researchers demonstrated the cooperativity between NSF and the SNARE complex to prevent ATP consumption without productive disassembly.
NATURE COMMUNICATIONS
(2021)
Article
Biology
Yonghyun Song, Changbong Hyeon
Summary: Spatial boundaries in animal development are formed by prepatterning of tissues by signaling molecules called morphogens. The accuracy of boundary location is limited by fluctuations in morphogen concentration, which control the expression level of target genes. Producing more morphogen molecules to reduce fluctuations can lead to more precise target boundaries, but also incurs higher thermodynamic cost. In order to achieve a precise morphogen profile with minimal cost, the characteristic length of the concentration profile should be roughly half the distance to the target boundary position from the source.
Biographical-Item
Chemistry, Physical
Margaret S. Cheung, Ruxandra I. Dima, Changbong Hyeon
JOURNAL OF PHYSICAL CHEMISTRY B
(2021)
Article
Biochemical Research Methods
Lei Liu, Bokai Zhang, Changbong Hyeon
Summary: The study highlights the importance of multi-way chromatin contacts in gene regulation, proposing a method to predict these contacts from Hi-C data. By analyzing pairwise genomic contact frequencies, the study reveals correlations and insights into related issues, such as cell-line dependent assemblies of genes and enhancers to chromatin hubs.
PLOS COMPUTATIONAL BIOLOGY
(2021)
Article
Biophysics
Seonghoon Kim, Changbong Hyeon
Summary: This study used molecular dynamics simulations to investigate the positioning of TEMPO spin label in lipid bilayers. The results showed that the location of TEMPO is dependent on the membrane phase, with it being stabilized above the interface in the gel phase and below the interface in the fluid phase. This finding highlights the importance of assessing lipid packing order and fluidity under specific measurement conditions.
BIOPHYSICAL JOURNAL
(2022)
Article
Biophysics
Lei Liu, Xinmeng Cao, Bokai Zhang, Changbong Hyeon
Summary: Genome architecture mapping (GAM) is a method to probe and decipher three-dimensional chromatin organization. It provides the cosegregation probability of two genomic segments from nuclear profiles. However, the cosegregation probability is different from the contact probability and has a weaker correlation with interlocus distance. The study suggests that a properly normalized version of cosegregation probability calculated from a large number of nuclear slices is needed to achieve a strong correlation with interlocus distance.
BIOPHYSICAL JOURNAL
(2022)
Article
Computer Science, Interdisciplinary Applications
Kiri Choi, Won Kyu Kim, Changbong Hyeon
Summary: This study proposes a systematic and principled method for classifying neurons based on the idea of polymer physics. By calculating the 3D coordinates of neurons and analyzing the resulting distance distribution, the authors are able to quantitatively characterize the morphology of neurons and classify them based on their structural similarities. This method provides valuable insights into the dense neural networks in the brain.
Article
Biology
Kiri Choi, Won Kyu Kim, Changbong Hyeon
Summary: Reconstructed from electron microscope images, the projection neurons of the Drosophila olfactory system provide a detailed view of neuronal anatomy and shed light on the relationship between neuronal organization and odor perception.
Article
Chemistry, Physical
Lei Liu, Changbong Hyeon
Summary: Confined polymer chains in two-dimensional planes are segregated due to topological interaction. The properties of the solution depend on the solvent quality, and the osmotic pressure increases with the area fraction, with different rates for good and bad solvents. Numerical simulations show that polymer chains in bad solvents occupy the surface in a more inhomogeneous manner and have a greater correlation length, leading to a higher and more heterogeneous interstitial void size.
JOURNAL OF PHYSICAL CHEMISTRY B
(2022)
Meeting Abstract
Biophysics
Seonghoon Kim, Changbong Hyeon
BIOPHYSICAL JOURNAL
(2022)
Article
Physics, Fluids & Plasmas
Davinder Singh, Changbong Hyeon
Summary: This study investigates the characteristics of thermodynamic uncertainty relations (TURs) in open quantum systems, revealing that the imaginary part of quantum coherence leads to a relaxation of the TUR bound, while the real part of coherence tightens it.