Journal of Synchrotron Radiation最新文献_第8页

Present and future structural biology activities at DESY and the European XFEL. Erratum. DESY和欧洲XFEL的现在和未来结构生物学活动。勘误表。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-25 DOI: 10.1107/S1600577525003728

Dominik Oberthür, Johanna Hakanpää, Spyros Chatziefthymiou, Guilllaume Pompidor, Richard Bean, Henry N Chapman, Edgar Weckert

引用次数: 0

Structural dependency of polymer dynamics by means of small-angle X-ray photon correlation spectroscopy and wide-angle X-ray scattering on the D2AM beamline. 用小角x射线光子相关光谱和广角x射线D2AM波束线散射研究聚合物动力学的结构依赖性。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-01 DOI: 10.1107/S1600577525001626

Grégory Stoclet, Duncan Schwaller, Romain Garlet, Frédéric Livet, Gilbert A Chahine, Nils Blanc, Maxime Dupraz

{"title":"Structural dependency of polymer dynamics by means of small-angle X-ray photon correlation spectroscopy and wide-angle X-ray scattering on the D2AM beamline.","authors":"Grégory Stoclet, Duncan Schwaller, Romain Garlet, Frédéric Livet, Gilbert A Chahine, Nils Blanc, Maxime Dupraz","doi":"10.1107/S1600577525001626","DOIUrl":"10.1107/S1600577525001626","url":null,"abstract":"X-ray photon correlation spectroscopy (XPCS) has become a pivotal technique for exploring nanoscale dynamic phenomena across various materials, facilitated by advancements in synchrotron radiation sources and beamline upgrades. The recent Extremely Brilliant Source (EBS) upgrade at the European Synchrotron Radiation Facility (ESRF) in Grenoble, France, has notably improved brilliance and coherence length, thereby enhancing the capabilities of XPCS and related techniques. Here, we present a dedicated setup on the D2AM beamline at the ESRF, enabling simultaneous XPCS and wide-angle X-ray scattering measurements. The setup developed and its performance are detailed in the first part. Then, the XPCS capabilities are evaluated by studying polymer-based materials, with particular attention to the effects of temperature, crystallinity and macromolecular orientation on polymer dynamics. The study on the influence of temperature revealed that XPCS in the case of entangled polymers is an efficient technique to probe the dynamics of the macromolecular network, complementary to classical spectroscopy techniques. In addition, in situ measurements during the polymer crystallization revealed that increased crystallinity slows down macromolecular dynamics. Conversely, studies on stretched samples indicate that macromolecular orientation accelerates these dynamics. This work represents a novel investigation into the effect of crystallinity on macromolecular dynamics using XPCS, opening new avenues for research in polymer science.","PeriodicalId":48729,"journal":{"name":"Journal of Synchrotron Radiation","volume":" ","pages":"649-660"},"PeriodicalIF":2.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12067334/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143755400","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Development of portable nanofocusing optics for X-ray free-electron laser pulses. 用于x射线自由电子激光脉冲的便携式纳米聚焦光学系统的研制。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-09 DOI: 10.1107/S1600577525002279

Yuichi Inubushi, Gota Yamaguchi, Jumpei Yamada, Yuya Kubota, Ichiro Inoue, Taito Osaka, Toshinori Yabuuchi, Kensuke Tono, Makina Yabashi

{"title":"Development of portable nanofocusing optics for X-ray free-electron laser pulses.","authors":"Yuichi Inubushi, Gota Yamaguchi, Jumpei Yamada, Yuya Kubota, Ichiro Inoue, Taito Osaka, Toshinori Yabuuchi, Kensuke Tono, Makina Yabashi","doi":"10.1107/S1600577525002279","DOIUrl":"https://doi.org/10.1107/S1600577525002279","url":null,"abstract":"We present the development of a portable and compact nanofocusing system utilizing Kirkpatrick-Baez optics for X-ray free-electron lasers (XFELs). The system has a total length of merely 340 mm from the initial elliptical mirror to the focal point. With this setup, we achieve focusing capabilities reaching dimensions as small as 150 nm horizontally and 220 nm vertically, resulting in an intense beam with an intensity of 2.5 × 1019 W cm-2 for a 10 keV XFEL with a pulse energy of 110 µJ. As a demonstration of its applicability in X-ray nonlinear optics, we successfully observed an 8.64 keV Zn Kα laser by irradiating a Zn foil with the focused XFEL beam. The attained photon energy is currently the highest photon energy for amplified spontaneous emission via bound-bound transitions of electrons in the world. We anticipate that this portable and compact nanofocusing system will pave the way for new frontiers in X-ray nonlinear optics and high-energy density science, owing to its adaptability to various experimental conditions.","PeriodicalId":48729,"journal":{"name":"Journal of Synchrotron Radiation","volume":"32 Pt 3","pages":"534-538"},"PeriodicalIF":2.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12067319/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144064964","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Design of a time-delay-compensated monochromator for the ARPES endstation at S³FEL. S3FEL ARPES端站延时补偿单色仪的设计。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-02 DOI: 10.1107/S1600577525002139

Zhenjiang Xing, Chuan Yang, Qinming Li, Kai Hu, Ye Zhu, Chen Wu, Chenggong Zhang, Weiqing Zhang

引用次数: 0

Air artifact suppression in phase contrast micro-CT using conditional generative adversarial networks. 基于条件生成对抗网络的相衬微ct空气伪影抑制。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-03-26 DOI: 10.1107/S1600577525001511

Md Motiur Rahman Sagar, Lorenzo D'Amico, Elena Longo, Irma Mahmutovic Persson, Richard Deyhle, Giuliana Tromba, Sam Bayat, Frauke Alves, Christian Dullin

{"title":"Air artifact suppression in phase contrast micro-CT using conditional generative adversarial networks.","authors":"Md Motiur Rahman Sagar, Lorenzo D'Amico, Elena Longo, Irma Mahmutovic Persson, Richard Deyhle, Giuliana Tromba, Sam Bayat, Frauke Alves, Christian Dullin","doi":"10.1107/S1600577525001511","DOIUrl":"10.1107/S1600577525001511","url":null,"abstract":"3D virtual histology of formalin-fixed and paraffin-embedded (FFPE) tissue by means of phase contrast micro-computed tomography (micro-CT) is an increasingly popular technique, as it allows the 3D architecture of the tissue to be addressed without the need of additional heavy ion based staining approaches. Therefore, it can be applied on archived standard FFPE tissue blocks. However, one of the major concerns of using phase contrast micro-CT in combination with FFPE tissue blocks is the trapped air within the tissue. While air inclusion within the FFPE tissue block does not strongly impact the workflow and quality of classical histology, it creates serious obstacles in 3D visualization of detailed morphology. In particular, the 3D analysis of structural features is challenging, due to a strong edge effect caused by the phase shift at the air-tissue/paraffin interface. Despite certain improvements in sample preparation to eliminate air inclusion, such as the use of negative pressure, it is not always possible to remove all trapped air, for example in soft tissues such as lung. Here, we present a novel workflow based on conditional generative adversarial networks (cGANs) to effectively replace these air artifact regions with generated tissue, which are influenced by the surrounding content. Our results show that this approach not only improves the visualization of the lung tissue but also eases the use of structural analysis on the air artifact-suppressed phase contrast micro-CT scans. In addition, we demonstrate the transferability of the generative model to FFPE specimens of porcine lung tissue.","PeriodicalId":48729,"journal":{"name":"Journal of Synchrotron Radiation","volume":" ","pages":"678-689"},"PeriodicalIF":2.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12067328/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143732251","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Enhancing synchrotron radiation micro-CT images using deep learning: an application of Noise2Inverse on bone imaging. 利用深度学习增强同步辐射微ct图像：Noise2Inverse在骨成像中的应用。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-01 DOI: 10.1107/S1600577525001833

Yoshihiro Obata, Dilworth Y Parkinson, Daniël M Pelt, Claire Acevedo

{"title":"Enhancing synchrotron radiation micro-CT images using deep learning: an application of Noise2Inverse on bone imaging.","authors":"Yoshihiro Obata, Dilworth Y Parkinson, Daniël M Pelt, Claire Acevedo","doi":"10.1107/S1600577525001833","DOIUrl":"10.1107/S1600577525001833","url":null,"abstract":"In bone-imaging research, in situ synchrotron radiation micro-computed tomography (SRµCT) mechanical tests are used to investigate the mechanical properties of bone in relation to its microstructure. Low-dose computed tomography (CT) is used to preserve bone's mechanical properties from radiation damage, though it increases noise. To reduce this noise, the self-supervised deep learning method Noise2Inverse was used on low-dose SRµCT images where segmentation using traditional thresholding techniques was not possible. Simulated-dose datasets were created by sampling projection data at full, one-half, one-third, one-fourth and one-sixth frequencies of an in situ SRµCT mechanical test. After convolutional neural networks were trained, Noise2Inverse performance on all dose simulations was assessed visually and by analyzing bone microstructural features. Visually, high image quality was recovered for each simulated dose. Lacunae volume, lacunae aspect ratio and mineralization distributions shifted slightly in full, one-half and one-third dose network results, but were distorted in one-fourth and one-sixth dose network results. Following this, new models were trained using a larger dataset to determine differences between full dose and one-third dose simulations. Significant changes were found for all parameters of bone microstructure, indicating that a separate validation scan may be necessary to apply this technique for microstructure quantification. Noise present during data acquisition from the testing setup was determined to be the primary source of concern for Noise2Inverse viability. While these limitations exist, incorporating dose calculations and optimal imaging parameters enables self-supervised deep learning methods such as Noise2Inverse to be integrated into existing experiments to decrease radiation dose.","PeriodicalId":48729,"journal":{"name":"Journal of Synchrotron Radiation","volume":" ","pages":"690-699"},"PeriodicalIF":2.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12067336/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143755394","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Macromolecular crystallography and biology at the Linac Coherent Light Source. 直线相干光源下的大分子晶体学和生物学。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-23 DOI: 10.1107/S1600577525002735

Sandra Mous, Mark S Hunter, Frédéric Poitevin, Sébastien Boutet, Leland B Gee

引用次数: 0

Advances in macromolecular crystallography at the Photon Factory: automation from crystallization to structural determination. 光子工厂的大分子晶体学进展：从结晶到结构测定的自动化。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-04 DOI: 10.1107/S1600577525001407

Naohiro Matsugaki, Toshiya Senda

{"title":"Advances in macromolecular crystallography at the Photon Factory: automation from crystallization to structural determination.","authors":"Naohiro Matsugaki, Toshiya Senda","doi":"10.1107/S1600577525001407","DOIUrl":"10.1107/S1600577525001407","url":null,"abstract":"The Structural Biology Research Center (SBRC) and the Photon Factory at the High Energy Accelerator Research Organization (KEK) have played a key role in advancing macromolecular crystallography (MX) and have developed advanced experimental systems in the MX field. Key innovations include a long-wavelength MX beamline for native single-wavelength anomalous diffraction phasing (BL-1A), a crystal-shaping machine, an automated crystal-centering system and a fully automated diffraction data-acquisition system. In addition to the beamline technologies, the SBRC has developed a fully automated protein crystallization and monitoring system (PXS/PXS2). The crystallization plate prepared by PXS2 can be mounted directly onto an in situ data-acquisition system at BL-17A. These technologies have transformed experimental workflows, enabling high-throughput structure determination and supporting drug discovery. Furthermore, the SBRC can integrate advanced imaging techniques, including MX, cryogenic electron microscopy (cryo-EM) and small-angle X-ray scattering (SAXS), under one roof. This interdisciplinary approach facilitates hybrid structural analysis by combining techniques such as MX and SAXS or MX and cryo-EM.","PeriodicalId":48729,"journal":{"name":"Journal of Synchrotron Radiation","volume":" ","pages":"567-576"},"PeriodicalIF":2.5,"publicationDate":"2025-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12067343/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143784598","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Optical design and commissioning results of a constant-imaging-distance fixed-included-angle grating monochromator at SSRF. SSRF恒像距固定夹角光栅单色仪的光学设计与调试结果。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-01 DOI: 10.1107/S1600577525001778

Lian Xue, Zhongliang Li, Junnan Liu, Huiting Chen, Gaofeng Zhao, Yong Wang, Wanqian Zhu

引用次数: 0

PvaPy streaming framework for real-time data processing. 用于实时数据处理的PvaPy流框架。

IF 2.5 3区物理与天体物理

Journal of Synchrotron Radiation Pub Date : 2025-05-01 Epub Date: 2025-04-25 DOI: 10.1107/S1600577525002115

Siniša Veseli, John Hammonds, Steven Henke, Hannah Parraga, Barbara Frosik, Nicholas Schwarz

引用次数: 0