Article
Polymer Science
Katharina Breul, Sebastian Seiffert
Summary: The rational design of transiently crosslinked polymer gels requires a deep understanding of how molecular and topological factors affect material properties, with distinct differences observed between random PUs and alternating PUs.
Article
Mathematical & Computational Biology
Shaoqiang Yan, Ping Yang, Donglin Zhu, Wanli Zheng, Fengxuan Wu
Summary: This paper proposes an improved sparrow search algorithm based on iterative local search (ISSA), which introduces innovative strategies such as variable helix factor and dimension by dimension lens learning to enhance search performance. Verified on 23 basic benchmark functions and CEC 2017, ISSA shows good optimization performance and universality.
COMPUTATIONAL INTELLIGENCE AND NEUROSCIENCE
(2021)
Article
Materials Science, Multidisciplinary
Kewei Hu, Hang Yang, Haoyu Cao, Hongyu Fan, Xiaoxiao Li, Chaohua Cui, Yongfang Li
Summary: In this study, a flexible side-chains engineering strategy was applied to enhance the physicochemical properties of NTDO-based polymer donors. By replacing the 2-ethylhexyl chain with 2-butyloctyl chains, the resulting polymer PBN-SBO showed improved solubility, reduced crystallinity, and better miscibility with the acceptor material Y6. The PBN-SBO:Y6 blend exhibited enhanced morphology, enabling better charge carrier transport and less charge recombination, leading to a significantly improved power-conversion efficiency of 16.22% compared to the PBN-S:Y6-based device with a PCE of 12.86%. This work highlights the crucial role of side-chain engineering in manipulating the physicochemical properties for improved photovoltaic performance and the potential of NTDO unit in designing high-performance polymer donor materials for PSCs.
ORGANIC ELECTRONICS
(2023)
Article
Chemistry, Physical
Vitali Tugarinov, Alberto Ceccon, G. Marius Clore
Summary: The dynamics of methyl-bearing side chains in proteins were investigated through C-13 relaxation measurements, revealing correlations and anticorrelations between parameters, which can be partially decorrelated through the analysis of different C-13 magnetization modes.
JOURNAL OF PHYSICAL CHEMISTRY B
(2021)
Article
Biochemistry & Molecular Biology
Federico Napoli, Lea Marie Becker, Paul Schanda
Summary: Magic-angle spinning (MAS) nuclear magnetic resonance (NMR) is a powerful method for characterizing protein dynamics at the atomic scale. The R1r MAS relaxation dispersion NMR technique allows exploration of microsecond-to-millisecond motions. This technique has the potential to probe motions in challenging systems such as large enzymes, membrane proteins, and protein assemblies.
CURRENT OPINION IN STRUCTURAL BIOLOGY
(2023)
Article
Chemistry, Multidisciplinary
Wen-Hao Wu, Ya-Qun Wang, Hong-Li Mi, Qing-Xuan Xue, Feng Shao, Fei Shen, Feng-Lei Yang
Summary: A novel high-spin Co(II) complex has been synthesized using a solvothermal method, featuring Co(II) ions in octahedral and tetrahedral coordination bridged by mu-Cl, mu-(N-N), and mu-O linkers forming 1D chains. The compound exhibits single-chain magnetic behavior at low temperatures, with the mu-O linker transmitting ferromagnetic coupling according to both simulation and DFT computations.
Article
Mathematics
A'Qilah Ahmad Dahalan, Azali Saudi, Jumat Sulaiman
Summary: This article presents an extended variant of the block over-relaxation method to address the problem of autonomous guided vehicles. A numerical approach is used to explicitly solve the path navigation and obstacle avoidance problem. The proposed method improves the computational execution of the algorithm by combining the potential field technique with Laplace's equation. The experimental results show that the proposed method outperforms existing methods in terms of computational complexity and execution time.
Article
Chemistry, Multidisciplinary
Flavio Vinicius Crizostomo Kock, Attila Forgacs, Nicol Guidolin, Rachele Stefania, Adrienn Vagner, Eliana Gianolio, Silvio Aime, Zsolt Baranyai
Summary: This study presents the synthesis and characterization of two novel Gd(AAZTA) derivatives functionalized with short n-alkyl acid functions, which exhibit enhanced properties for use as MRI contrast agents. The stability constants were slightly higher than the parent complex, potentially due to the larger electron donation of the acyl substituents. The complexes show smaller susceptibility to chemical exchange with endogenous ions, indicating improved stability and performance as contrast agents. Fast interconversion between structural isomers and the presence of two populations of water molecules in exchange were observed, suggesting a potential mechanism for the enhanced properties of these derivatives.
CHEMISTRY-A EUROPEAN JOURNAL
(2021)
Article
Engineering, Environmental
Chao Yin, Xiaoyan Tai, Xiaozhen Li, Jihua Tan, Chun-Sing Lee, Pengfei Sun, Quli Fan, Wei Huang
Summary: Efficient agents for NIR-II fluorescence imaging in biomedicine and life science have been developed through side chain engineering of semiconducting polymers (SPs). The optimization of fluorescence by tuning the conformation and bulk of side chains, particularly using bulky branched side chains, has been shown to enhance fluorescence intensity and improve photothermal therapy efficacy. The study proposes a feasible molecular guideline for amplifying the NIR-II brightness of SPs for enhanced phototheranostics.
CHEMICAL ENGINEERING JOURNAL
(2022)
Article
Engineering, Electrical & Electronic
Junhong Li, Weicheng Song, Yizhe Jiang, Jie Chu
Summary: This paper proposes an improved chaotic gravitational search algorithm (ICGSA) combined with the gradient iterative (GI) algorithm, called the ICGSA-GI algorithm, to identify the parameters of multivariable Hammerstein time-delay (MHTD) systems. The feasibility of the algorithm is demonstrated through numerical and application examples, showing that the ICGSA-GI algorithm can effectively identify the unknown parameters of the MHTD system and outperforms the ICGSA and GI algorithms in terms of identification accuracy and convergence speed.
CIRCUITS SYSTEMS AND SIGNAL PROCESSING
(2023)
Article
Nanoscience & Nanotechnology
Yihan Zhen, Cuijuan Zhang, Yongdan Li
Summary: Nonaqueous redox flow batteries (NARFBs) have great potential for large-scale energy storage due to their high energy density. This study focuses on molecular engineering strategy to design anthraquinone-based ionic active species with improved solubility and stability. The experimental results demonstrate that the designed ionic active species, in combination with a specific cathode, achieves high discharge capacity retention over multiple cycles.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Materials Science, Multidisciplinary
Yan-Cheng Lin, Chih-Chien Hung, Chun-Kai Chen, Yun-Chi Chiang, Li-Che Hsu, Jian-Sian Li, Chu-Chen Chueh, Tomoya Higashihara, Wen-Chang Chen
Summary: In this study, side-chain-engineered D-A-type conjugated copolymers with PY electron-trapping moieties were developed to enhance charge-storage capability in FET memory devices. By controlling the PY content, improved charge-transport performance and stable charge-storage capability were achieved.
ACS APPLIED POLYMER MATERIALS
(2021)
Article
Acoustics
Partha Sengupta, Subrata Chakraborty
Summary: In this study, an improved Bayesian model updating technique is investigated in the Transitional Markov Chain Monte Carlo framework in the time domain. A modified iterative model reduction technique is embedded within the improved Bayesian framework to address the limited availability of measurements. The proposed algorithm modifies the transition levels of sampling, the choice of plausibility value, and the estimation of sample and covariance matrix for the proposal distribution, reducing the dependency on the determination of statistical estimators. Comparative study with existing approaches is conducted to evaluate the accuracy and computational efficiency of the proposed approach.
JOURNAL OF SOUND AND VIBRATION
(2023)
Article
Chemistry, Multidisciplinary
Taeho Lee, Chang Eun Song, Sang Kyu Lee, Won Suk Shin, Eunhee Lim
Summary: Two nonfullerene small molecules, TBTT-BORH and TBTT-ORH, are developed as electron acceptors for organic solar cells, with different alkyl groups influencing intermolecular aggregation and solubility. The introduction of a butyloctyl group greatly improves material solubility in TBTT-BORH, while a solvent-vapor annealing treatment effectively enhances film morphology. OSCs based on these acceptors and polymer donor PTB7-Th achieve good power conversion efficiency.
Article
Computer Science, Information Systems
Xinzhou Li, Guifen Chen
Summary: In recent years, D2D cooperative communication networks have become a major component of future communication networks, greatly improving spectrum efficiency and user communication quality. However, existing resource allocation schemes for D2D networks face challenges such as weak dynamic allocation capability and low communication quality. This paper proposes a resource allocation algorithm based on improved Monte Carlo tree search. Simulation results show that the proposed algorithm outperforms existing methods in terms of system throughput and outage probability.
Article
Immunology
Ida Lindeman, Chunyan Zhou, Linn M. Eggesbo, Zhichao Miao, Justyna Polak, Knut E. A. Lundin, Jorgen Jahnsen, Shuo-Wang Qiao, Rasmus Iversen, Ludvig M. Sollid
Summary: The study found a significant presence of disease-specific plasma cells (PCs) in the gut lesions of celiac disease (CeD) patients, showing a distinction between short-lived and long-lived cells, and suggesting that immunoglobulin gene polymorphisms may influence CeD-specific antibody responses.
JOURNAL OF EXPERIMENTAL MEDICINE
(2021)
Article
Biochemistry & Molecular Biology
Zhichao Miao, Antonin Tidu, Gilbert Eriani, Franck Martin
Summary: The 5'UTR of SARS-CoV-2 contains stable structures, including a very stable four-way junction close to the AUG start codon. Sequence alignment analysis of SARS-CoV-2 variants' 5'UTRs revealed a highly conserved structure with few co-variations, confirming the secondary structure model based on probing experiments.
Article
Multidisciplinary Sciences
Timothy I. Shaw, Li Dong, Liqing Tian, Chenxi Qian, Yu Liu, Bensheng Ju, Anthony High, Kanisha Kavdia, Vishwajeeth R. Pagala, Bridget Shaner, Deqing Pei, John Easton, Laura J. Janke, Shaina N. Porter, Xiaotu Ma, Cheng Cheng, Shondra M. Pruett-Miller, John Choi, Jiyang Yu, Junmin Peng, Wei Gu, A. Thomas Look, James R. Downing, Jinghui Zhang
Summary: The study revealed the synergistic effect of USP7 haploinsufficiency with aberrant TAL1 activation in T-ALL, implicating USP7 as a haploinsufficient tumor suppressor. Physical interactions of USP7 with E-proteins and TAL1 were demonstrated, showing that haploinsufficient USP7 leads to transcriptional down-regulation of E-protein target genes.
SCIENTIFIC REPORTS
(2021)
Editorial Material
Genetics & Heredity
Lin Chen, Huimin Li, Longxiang Xie, Zhanjie Zuo, Liqing Tian, Changning Liu, Xiangqian Guo
FRONTIERS IN GENETICS
(2021)
Article
Oncology
Ji Wen, Michael Rusch, Samuel W. Brady, Ying Shao, Michael N. Edmonson, Timothy Shaw, Brent B. Powers, Liqing Tian, John Easton, Charles G. Mullighan, Tanja Gruber, David Ellison, Jinghui Zhang
Summary: This study identified 722 unique RNA editing sites in coding regions across pediatric cancers, with 70% being nonsynonymous recoding variants. The majority of editing sites were canonical A-to-I or C-to-U sites. RNA editing was enriched in brain tumors compared to other cancers, with a focus on glutamate receptors and ion channels involved in neurotransmitter signaling.
Article
Biochemistry & Molecular Biology
Pablo Moreno, Silvie Fexova, Nancy George, Jonathan R. Manning, Zhichiao Miao, Suhaib Mohammed, Alfonso Munoz-Pomer, Anja Fullgrabe, Yalan Bi, Natassja Bush, Haider Iqbal, Upendra Kumbham, Andrey Solovyev, Lingyun Zhao, Ananth Prakash, David Garcia-Seisdedos, Deepti J. Kundu, Shengbo Wang, Mathias Walzer, Laura Clarke, David Osumi-Sutherland, Marcela Karey Tello-Ruiz, Sunita Kumari, Doreen Ware, Jana Eliasova, Mark J. Arends, Martijn C. Nawijn, Kerstin Meyer, Tony Burdett, John Marioni, Sarah Teichmann, Juan Antonio Vizcaino, Alvis Brazma, Irene Papatheodorou
Summary: EMBL-EBI Expression Atlas is a knowledge base that integrates data from over 4500 expression studies across different species, enabling researchers to explore the expression patterns of genes or proteins under various biological conditions. The data are curated by experts, re-analyzed, and visualized in an easily accessible form, aiming to reproduce the original conclusions of the experiments.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Francisco Carrascoza, Maciej Antczak, Zhichao Miao, Eric Westhof, Marta Szachniuk
Summary: This paper analyzes the stereochemical quality of predicted RNA three-dimensional models and aims to improve RNA 3D structure modeling approaches by reducing deviations from standard bond lengths and angles, planarity, or chirality.
Article
Biochemistry & Molecular Biology
Yao Luo, Jing Wang, Kairui Li, Mingxia Li, Shasha Xu, Xingjie Liu, Zhiwei Zhang, Xiang Xu, Yu Zhang, Jiawei Pan, Pengtao Liu, Shaorong Gao, Zhichao Miao, Yong Yu
Summary: The study identified B1 precursor subsets in the neonate peritoneal cavity and dissected the developmental pathway of the precursor cells, which includes pre-BCR dependent and pre-BCR independent pathways. Age-related changes in B1 cell transcriptomes were detected, with clear difference in senescence genetic program evident in differently aged B1 cells, and CD36 expression found on B1 cells in aged mice. Single-cell B-cell receptor sequencing revealed that B1 cell aging is associated with clonal expansion, with two B1 cell clones in aged mice having the same CDR-H3 sequence as a pathogenically linked cell type from a recent study of an atherosclerosis mouse model.
CELL AND BIOSCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Julita Gumna, Maciej Antczak, Ryszard W. Adamiak, Janusz M. Bujnicki, Shi-Jie Chen, Feng Ding, Pritha Ghosh, Jun Li, Sunandan Mukherjee, Chandran Nithin, Katarzyna Pachulska-Wieczorek, Almudena Ponce-Salvatierra, Mariusz Popenda, Joanna Sarzynska, Tomasz Wirecki, Dong Zhang, Sicheng Zhang, Tomasz Zok, Eric Westhof, Zhichao Miao, Marta Szachniuk, Agnieszka Rybarczyk
Summary: RNA is a unique biomolecule, and computational 3D structure prediction methods are rapidly developing. We introduced a computational pipeline for comparative analysis of 3D RNA structures and demonstrated its application in the RNA-Puzzles challenge.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Cell Biology
Brandon T. Wesley, Alexander D. B. Ross, Daniele Muraro, Zhichao Miao, Sarah Saxton, Rute A. Tomaz, Carola M. Morell, Katherine Ridley, Ekaterini D. Zacharis, Sandra Petrus-Reurer, Judith Kraiczy, Krishnaa T. Mahbubani, Stephanie Brown, Jose Garcia-Bernardo, Clara Alsinet, Daniel Gaffney, Dave Horsfall, Olivia C. Tysoe, Rachel A. Botting, Emily Stephenson, Dorin-Mirel Popescu, Sonya MacParland, Gary Bader, Ian D. McGilvray, Daniel Ortmann, Fotios Sampaziotis, Kourosh Saeb-Parsy, Muzlifah Haniffa, Kelly R. Stevens, Matthias Zilbauer, Sarah A. Teichmann, Ludovic Vallier
Summary: In this study, the developmental trajectories of human fetal liver cell types were described at single-cell resolution, and bipotential hepatoblast organoids were generated. This provides a platform for investigating human liver development and producing cell types for clinical applications.
NATURE CELL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Jie Deng, Yaohuang Shi, Xuemei Peng, Yuanlin He, Xiaoxue Chen, Mengxiao Li, Xiaowei Lin, Wenjian Liao, Yuanyin Huang, Taijiao Jiang, David M. J. Lilley, Zhichao Miao, Lin Huang
Summary: Ribozymes are valuable systems for studying the relationships between sequence, structure, and function in RNA molecules. A comprehensive database called Ribocentre has been created to collect and provide information on 21 ribozyme families, including timelines, sequence families, structures, mechanisms, applications, and key publications.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Cell Biology
Wanjing Huang, Qiang Xu, Jing Su, Lei Tang, Zhao-zhe Hao, Chuan Xu, Ruifeng Liu, Yuhui Shen, Xuan Sang, Nana Xu, Xiaoxiu Tie, Zhichao Miao, Xialin Liu, Ying Xu, Feng Liu, Yizhi Liu, Sheng Liu
Summary: In this study, we characterized the transcriptomic, morphological, and functional features of 472 high-quality RGCs using Patch-seq. The findings provide functional and morphological annotation for different transcriptomic-defined cell types in a previously established RGC atlas. The research highlights the convergence of different modalities in defining RGC identity and identifies differentially expressed genes among RGC subtypes, which could serve as candidate marker genes for functional studies.
Article
Multidisciplinary Sciences
Jia-Ru Wei, Zhao-Zhe Hao, Chuan Xu, Mengyao Huang, Lei Tang, Nana Xu, Ruifeng Liu, Yuhui Shen, Sarah A. Teichmann, Zhichao Miao, Sheng Liu
Summary: The study describes a single-cell RNA sequencing dataset of macaque V1 cortex cells, revealing similarities and specific markers compared to human cortex. Differences in gene expression profiles and neuron diversity across species were found, providing insights into cognitive functions.
NATURE COMMUNICATIONS
(2022)
Article
Zoology
Feng Liu, Zhong-Hao Wang, Wanjing Huang, Ying Xu, Xuan Sang, Ruifeng Liu, Zhou-Yue Li, Ya-Lan Bi, Lei Tang, Jing-Yi Peng, Jia-Ru Wei, Zhi-Chao Miao, Jian-Hua Yan, Sheng Liu
Summary: This study investigates the association between natural strabismus and amblyopia and abnormal asymmetries in the visual system. The results show that natural strabismic and amblyopic monkeys, as well as a strabismic patient, exhibit abnormal asymmetries in brain structure, visual behavior, visual function, and retinal structure. The study also identifies potential mutant genes related to strabismus and amblyopia.
ZOOLOGICAL RESEARCH
(2023)
Article
Oncology
Masayuki Umeda, Jing Ma, Benjamin J. Huang, Kohei Hagiwara, Tamara Westover, Sherif Abdelhamed, Juan M. Barajas, Melvin E. Thomas, Michael P. Walsh, Guangchun Song, Liqing Tian, Yanling Liu, Xiaolong Chen, Pandurang Kolekar, Quang Tran, Scott G. Foy, Jamie L. Maciaszek, Andrew B. Kleist, Amanda R. Leonti, Bengsheng Ju, John Easton, Huiyun Wu, Virginia Valentine, Marcus B. Valentine, Yen-Chun Liu, Rhonda E. Ries, Jenny L. Smith, Evan Parganas, Ilaria Iacobucci, Ryan Hiltenbrand, Jonathan Miller, Jason R. Myers, Evadnie Rampersaud, Delaram Rahbarinia, Michael Rusch, Gang Wu, Hiroto Inaba, Yi-Cheng Wang, Todd A. Alonzo, James R. Downing, Charles G. Mullighan, Stanley Pounds, M. Madan Babu, Jinghui Zhang, Jeffrey E. Rubnitz, Soheil Meshinchi, Xiaotu Ma, Jeffery M. Klco
Summary: The study reveals UBTF-TD as a new recurrent genetic alteration in relapsed pediatric AML, which is more common in children and associated with poor outcomes.
BLOOD CANCER DISCOVERY
(2022)
