Article
Biochemistry & Molecular Biology
Agnieszka Bochynska, Alexander T. Stenzel, Roksaneh Sayadi Boroujeni, Chao-Chung Kuo, Mirna Barsoum, Weili Liang, Philip Bussmann, Ivan G. Costa, Juliane Luescher-Firzlaff, Bernhard Luescher
Summary: The expression of genes is regulated by the post-translational modifications of core histones. Loss of Ash2l leads to downregulation of H3K4 methylation and gene expression, inhibiting cell proliferation and cell cycle progression, and inducing senescence.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biotechnology & Applied Microbiology
Weisong Zhao, Shiqun Zhao, Liuju Li, Xiaoshuai Huang, Shijia Xing, Yulin Zhang, Guohua Qiu, Zhenqian Han, Yingxu Shang, De-En Sun, Chunyan Shan, Runlong Wu, Lusheng Gu, Shuwen Zhang, Riwang Chen, Jian Xiao, Yanquan Mo, Jianyong Wang, Wei Ji, Xing Chen, Baoquan Ding, Yanmei Liu, Heng Mao, Bao-Liang Song, Jiubin Tan, Jian Liu, Haoyu Li, Liangyi Chen
Summary: Sparse structured illumination microscopy (Sparse-SIM) achieves nearly twofold resolution enhancement by utilizing sparse deconvolution algorithm, enabling the resolution of intricate biological structures such as small fusion pores, nuclear pores, and relative movements of inner and outer mitochondrial membranes.
NATURE BIOTECHNOLOGY
(2022)
Article
Computer Science, Artificial Intelligence
Jie Jiang, Jing Liu, Jun Fu, Weining Wang, Hanqing Lu
Summary: To overcome the high computational cost of high-resolution inputs in semantic segmentation models, this study proposes a super-resolution semantic segmentation method using a degraded low-resolution image as input. The Relation Calibrating Network (RCNet) is introduced, consisting of the Relation Upsampling Module (RUM) and the Feature Calibrating Module (FCM), to generate high-resolution segmentation results. Extensive experiments show the effectiveness of the proposed method, achieving comparable results with significantly reduced computational cost on the Cityscapes dataset.
PATTERN RECOGNITION
(2022)
Article
Biochemical Research Methods
Kenny K. H. Chung, Zhao Zhang, Phylicia Kidd, Yongdeng Zhang, Nathan D. Williams, Bennett Rollins, Yang Yang, Chenxiang Lin, David Baddeley, Joerg Bewersdorf
Summary: Two-color fluorogenic DNA-PAINT introduces self-quenching probes, improving imaging speed 26-fold without the need for optical sectioning.
Review
Nanoscience & Nanotechnology
A. Femius Koenderink, Roman Tsukanov, Joerg Enderlein, Ignacio Izeddin, Valentina Krachmalnicoff
Summary: This article summarizes the recent advances in the field of nanophotonics that have leveraged SMLM and shows how some concepts commonly used in nanophotonics can benefit the development of new microscopy techniques for biophysics. It introduces the basic concepts of SMLM and the observables that can be measured, linking them with their corresponding physical quantities of interest in biophysics and nanophotonics.
Article
Biochemistry & Molecular Biology
Lai Wong, Aline Sami, Linda Chelico
Summary: The APOBEC family of deaminases play important roles in physiological processes but can also lead to cancer mutations; RPA's competition with APOBEC enzymes has significant implications for deamination in the cellular genome.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Multidisciplinary Sciences
Ushashi Bhattacharya, Jia-Fong Jhou, Yi-Fong Zou, Gerald Abrigo, Shu-Wei Lin, Yun-Hsuan Chen, Fan-Ching Chien, Hwan-Ching Tai
Summary: A facile strategy was developed to capture and image synaptosomes without aggregation artifacts using a new chemical fixative and modified glass coverslips, allowing for stable imaging of synaptosomes. Tau protein distribution within mouse cortical synapses was observed using two-color and three-color dSTORM techniques.
SCIENTIFIC REPORTS
(2021)
Article
Biochemistry & Molecular Biology
Ignacio Rodriguez-Pastrana, Eleni Birli, Amanda S. Coutts
Summary: The tumor suppressor p53 plays a crucial role in the cellular response to DNA damage, including cell cycle arrest, apoptosis, and DNA repair. JMY, an actin nucleator and DNA damage-responsive protein, undergoes nuclear accumulation during DNA damage. Through transcriptomics, we identified that JMY is required for the regulation of key p53 target genes involved in DNA repair. Lack or knockout of JMY leads to increased DNA damage and JMY's actin nucleation function is necessary for promoting the clearance of DNA lesions. This study suggests a role for actin in JMY's nuclear activity during the DNA damage response.
CELL DEATH AND DIFFERENTIATION
(2023)
Article
Chemistry, Physical
Ji-Hoon Lee, Joyce Han-Ching Chiu, Nicholas J. J. Ginga, Tasdiq Ahmed, M. D. Thouless, Yifan Liu, Shuichi Takayama
Summary: This study developed a three-layer tunable nanochannel system that enables non-electrophoretic linearization and immobilization of native chromatin. Through careful selection of self-blinking fluorescent dyes and nanochannel design, they achieved super-resolution imaging of the linearized chromatin using direct stochastic optical reconstruction microscopy (dSTORM). This work opens up a new avenue for collecting long-range and high-resolution epigenetic information as well as genetic information.
NANOSCALE HORIZONS
(2023)
Article
Computer Science, Artificial Intelligence
Chaoxiong Wu, Jiaojiao Li, Rui Song, Yunsong Li, Qian Du
Summary: Spectral super-resolution (SSR) is a challenging problem of recovering hyperspectral images (HSIs) from RGB counterparts. This article proposes a novel holistic prior-embedded relation network (HPRN) to address the ill-posed nature of SSR by integrating comprehensive priors. The HPRN framework consists of multiresidual relation blocks (MRBs) to utilize the low-frequency content prior of RGB images, semantic-driven spatial relation module (SSRM) for feature aggregation, and transformer-based channel relation module (TCRM) for robust mapping function. Experimental results demonstrate that the proposed HPRN achieves state-of-the-art performance in quantitative and qualitative SSR evaluation, and the effectiveness of the reconstructed spectra is verified through classification results on a remote sensing dataset.
IEEE TRANSACTIONS ON NEURAL NETWORKS AND LEARNING SYSTEMS
(2023)
Article
Multidisciplinary Sciences
Robin Diekmann, Joran Deschamps, Yiming Li, Takahiro Deguchi, Aline Tschanz, Maurice Kahnwald, Ulf Matti, Jonas Ries
Summary: This article presents an automated pipeline for camera characterization based on thermally generated signal, which can mitigate image artifacts caused by pixel-to-pixel variations in sCMOS cameras. It also enables high-quality super-resolution microscopy and live-cell time-lapse microscopy.
NATURE COMMUNICATIONS
(2022)
Article
Computer Science, Interdisciplinary Applications
Ruud J. G. van Sloun, Oren Solomon, Matthew Bruce, Zin Z. Khaing, Hessel Wijkstra, Yonina C. Eldar, Massimo Mischi
Summary: The study introduces a new method Deep-ULM, which utilizes deep learning and convolutional neural networks for super-resolution vascular imaging in dense contrast-enhanced scenarios, achieving high accuracy and fast imaging. The research demonstrates through experiments that deep learning performs well under high-density contrast agent conditions.
IEEE TRANSACTIONS ON MEDICAL IMAGING
(2021)
Article
Biochemistry & Molecular Biology
Yinyin Zhuang, Xiaoyu Shi
Summary: Super-resolution microscopy bypasses the diffraction limit of resolution and enables imaging at the molecular level. Expansion microscopy, a chemical approach that physically enlarges cells and tissues, has emerged as a new trend in super-resolution microscopy. It offers lower cost and higher imaging depth compared to optical approaches but requires a more complex procedure.
CURRENT OPINION IN STRUCTURAL BIOLOGY
(2023)
Article
Biochemical Research Methods
Mengting Li, Qihang Song, Yinghao Xiao, Junnan Wu, Weibing Kuang, Yingjun Zhang, Zhen-Li Huang
Summary: Quantifying the resolution of super-resolution images is crucial for biologists using super-resolution microscopy. However, traditional FWHM resolution quantification methods are time-consuming, labor-intensive, and prone to errors. This paper investigates the influencing factors and introduces the LuckyProfiler plugin, providing biologists with a simple and effective way to quantify the resolution of super-resolution images.
BIOMEDICAL OPTICS EXPRESS
(2022)
Article
Biophysics
Qian T. Liu, Qian Wang, Youchang Zhang, Vicky Kliemke, Qian Liu, Keng C. Chou
Summary: Matrix proteins of Nipah virus are involved in virus assembly and budding, and do not directly interact with envelope proteins during this process.
BIOPHYSICAL JOURNAL
(2022)
Article
Chemistry, Multidisciplinary
Laetitia Bardet, Herve Roussel, Stefano Saroglia, Masoud Akbari, David Munoz-Rojas, Carmen Jimenez, Aurore Denneulin, Daniel Bellet
Summary: The thermal instability of silver nanowires leads to increased electrical resistance in AgNW networks. Understanding the relationship between structural and electrical properties of AgNW networks is crucial for their integration as transparent electrodes in flexible optoelectronics. In situ X-ray diffraction measurements were used to study the crystallographic evolution of Ag-specific Bragg peaks during thermal ramping, revealing differences in thermal and structural transitions between bare and SnO2-coated AgNW networks.
Article
Chemistry, Multidisciplinary
Nathalia Cancino-Fuentes, Arnau Manasanch, Joana Covelo, Alex Suarez-Perez, Enrique Fernandez, Stratis Matsoukis, Christoph Guger, Xavi Illa, Anton Guimera-Brunet, Maria V. Sanchez-Vives
Summary: This study provides a comprehensive characterization of graphene-based solution-gated field-effect transistors (gSGFETs) for brain recordings, highlighting their potential clinical applications.
Article
Chemistry, Multidisciplinary
Sikandar Aftab, Hailiang Liu, Dhanasekaran Vikraman, Sajjad Hussain, Jungwon Kang, Abdullah A. Al-Kahtani
Summary: This study examines the effects of hybrid nanoparticles made of NiO@rGO and NiO@CNT on the active layers of polymer solar cells and X-ray photodetectors. The findings show that these hybrid nanoparticles can enhance the charge carrier capacities and exciton dissociation properties of the active layers. Among the tested configurations, the NiO@CNT device demonstrates superior performance in converting sunlight into electricity, and achieves the best sensitivity for X-ray detection.
Article
Chemistry, Multidisciplinary
Hyo Jung Shin, Seung Gyu Choi, Fengrui Qu, Min-Hee Yi, Choong-Hyun Lee, Sang Ryong Kim, Hyeong-Geug Kim, Jaewon Beom, Yoonyoung Yi, Do Kyung Kim, Eun-Hye Joe, Hee-Jung Song, Yonghyun Kim, Dong Woon Kim
Summary: This study investigates the role of SOX9 in reactive astrocytes following ischemic brain damage using a PLGA nanoparticle plasmid delivery system. The results demonstrate that PLGA nanoparticles can reduce ischemia-induced neurological deficits and infarct volume, providing a potential opportunity for stroke treatment.
Article
Chemistry, Multidisciplinary
Anurag Chaudhury, Koushik Debnath, Nikhil R. Jana, Jaydeep K. Basu
Summary: The study investigates the interaction between nanoparticles and cell membranes, and identifies key parameters, including charge, crowding, and membrane fluidity, that determine the adsorbed concentration and unbinding transition of nanoparticles.
Article
Chemistry, Multidisciplinary
Sina Sadeghi, Fazel Bateni, Taekhoon Kim, Dae Yong Son, Jeffrey A. Bennett, Negin Orouji, Venkat S. Punati, Christine Stark, Teagan D. Cerra, Rami Awad, Fernando Delgado-Licona, Jinge Xu, Nikolai Mukhin, Hannah Dickerson, Kristofer G. Reyes, Milad Abolhasani
Summary: In this study, an autonomous approach for the development of lead-free metal halide perovskite nanocrystals is presented, which integrates a modular microfluidic platform with machine learning-assisted synthesis modeling. This approach enables rapid and optimized synthesis of copper-based lead-free nanocrystals.
Article
Chemistry, Multidisciplinary
Zahir Abbas, Nissar Hussain, Surender Kumar, Shaikh M. Mobin
Summary: The rational construction of free-standing and flexible electrodes for electrochemical energy storage devices is an emerging research focus. In this study, a redox-active metal-organic framework (MOF) was prepared on carbon nanofibers using an in situ approach, resulting in a flexible electrode with high redox-active behavior and unique properties such as high flexibility and lightweight. The prepared electrode showed excellent cyclic retention and rate capability in supercapacitor applications. Additionally, it could be used as a freestanding electrode in flexible devices at different bending angles.
Article
Chemistry, Multidisciplinary
Lishan Zhang, Xiaoting Zhang, Hui Ran, Ze Chen, Yicheng Ye, Jiamiao Jiang, Ziwei Hu, Miral Azechi, Fei Peng, Hao Tian, Zhili Xu, Yingfeng Tu
Summary: Photodynamic therapy (PDT) is a promising local treatment modality in cancer therapy, but its therapeutic efficacy is restricted by ineffective delivery of photosensitizers and tumor hypoxia. In this study, a phototactic Chlorella-based near-infrared (NIR) driven green affording-oxygen microrobot system was developed for enhanced PDT. The system exhibited desirable phototaxis and continuous oxygen generation, leading to the inhibition of tumor growth in mice. This study demonstrates the potential of using a light-driven green affording-oxygen microrobot to enhance photodynamic therapy.
Article
Chemistry, Multidisciplinary
Yujin Li, Jing Xu, Xinqi Luo, Futing Wang, Zhong Dong, Ke-Jing Huang, Chengjie Hu, Mengyi Hou, Ren Cai
Summary: In this study, hollow heterostructured materials were constructed using an innovative template-engaged method as cathodes for zinc-ion batteries. The materials exhibited fast Zn2+ transport channels, improved electrical conductivity, and controlled volume expansion during cycling. The designed structure allowed for an admirable reversible capacity and high coulombic efficiency.
Article
Chemistry, Multidisciplinary
Paritosh Mahato, Shashi Shekhar, Rahul Yadav, Saptarshi Mukherjee
Summary: This study comprehensively elucidates the role of the core and electrostatic surface of metal nanoclusters in catalytic reduction reactions. The electrostatic surface dramatically modulates the reactivity of metal nanoclusters.
Article
Chemistry, Multidisciplinary
Pei Liu, Mengdi Liang, Zhengwei Liu, Haiyu Long, Han Cheng, Jiahe Su, Zhongbiao Tan, Xuewen He, Min Sun, Xiangqian Li, Shuai He
Summary: This study demonstrates a simple and environmentally-friendly method for the synthesis of zinc oxide nanozymes (ZnO NZs) using wasted hop extract (WHE). The WHE-ZnO NZs exhibit exceptional peroxidase-like activity and serve as effective catalysts for the oxidation of 3,3,5,5-tetramethylbenzidine (TMB) in the presence of hydrogen peroxide (H2O2). In addition, a straightforward colorimetric technique for detecting both H2O2 and glucose was developed using the WHE-ZnO NZs as peroxidase-like catalysts.
Article
Chemistry, Multidisciplinary
Hyunkyu Oh, Young Jun Lee, Eun Ji Kim, Jinseok Park, Hee-Eun Kim, Hyunsoo Lee, Hyunjoo Lee, Bumjoon J. Kim
Summary: Mesoporous carbon particles have unique structural properties that make them suitable as support materials for catalytic applications. This study investigates the impact of channel nanostructures on the catalytic activity of porous carbon particles (PCPs) by fabricating PCPs with controlled channel exposure on the carbon surface. The results show that PCPs with highly open channel nanostructures exhibit significantly higher catalytic activity compared to those with closed channel nanostructures.
Article
Chemistry, Multidisciplinary
Yunjie Lu, Zhaohui Li, Zewei Li, Shihao Zhou, Ning Zhang, Jianming Zhang, Lu Zong
Summary: A tough, long-lasting adhesive and highly conductive nanocomposite hydrogel (PACPH) was fabricated via the synergy of interfacial entanglement and adhesion group densification. PACPH possesses excellent mechanical properties, interfacial adhesion strength, and conductivity, making it a promising material for long-term monitoring of human activities and electrocardiogram signals.
Article
Chemistry, Multidisciplinary
Zichao Wei, Audrey Vandergriff, Chung-Hao Liu, Maham Liaqat, Mu-Ping Nieh, Yu Lei, Jie He
Summary: We have developed a simple method to prepare polymer-grafted plasmonic metal nanoparticles with pH-responsive surface-enhanced Raman scattering. By using pH-responsive polymers as ligands, the aggregation of nanoparticles can be controlled, leading to enhanced SERS. The pH-responsive polymer-grafted nanoparticles show high reproducibility and sensitivity in solution, providing a novel approach for SERS without the need for sample pre-concentration.
Article
Chemistry, Multidisciplinary
Melis Ozge Alas Colak, Ahmet Gungor, Merve Buldu Akturk, Emre Erdem, Rukan Genc
Summary: This research investigates the effect of functionalizing carbon dots with hydroxyl polymers on their performance as electrode materials in a supercapacitor. The results show that the functionalized carbon dots exhibit excellent electrochemical performance and improved stability.