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  1. Does multi-way, long-range chromatin contact data advance 3D genome reconstruction?

    Background

    Methods for inferring the three-dimensional (3D) configuration of chromatin from conformation capture assays that provide strictly pairwise...

    Adam B. Olshen, Mark R. Segal in BMC Bioinformatics
    Article Open access 24 February 2023
  2. Desktop-Stereolithography 3D Printing of a Decellularized Extracellular Matrix/Mesenchymal Stem Cell Exosome Bioink for Vaginal Reconstruction

    Background

    3D-printing is widely used in regenerative medicine and is expected to achieve vaginal morphological restoration and true functional...

    Wenxin Shi, Jiahua Zheng, ... Yanfang Du in Tissue Engineering and Regenerative Medicine
    Article 27 June 2024
  3. Remaining microtia tissue as a source for 3D bioprinted elastic cartilage tissue constructs, potential use for surgical microtia reconstruction

    The absence of ears in children is a global problem. An implant made of costal cartilage is the standard procedure for ear reconstruction; however,...

    Cristina Velasquillo, Yaaziel Melgarejo-Ramírez, ... James J. Yoo in Cell and Tissue Banking
    Article 01 December 2023
  4. An intelligent workflow for sub-nanoscale 3D reconstruction of intact synapses from serial section electron tomography

    Background

    As an extension of electron tomography (ET), serial section electron tomography (serial section ET) aims to align the tomographic images of...

    Sheng Chang, Linlin Li, ... ** Chen in BMC Biology
    Article Open access 25 September 2023
  5. 3D reconstruction of skin and spatial map** of immune cell density, vascular distance and effects of sun exposure and aging

    Map** the human body at single cell resolution in three dimensions (3D) is important for understanding cellular interactions in context of tissue...

    Soumya Ghose, Yingnan Ju, ... Fiona Ginty in Communications Biology
    Article Open access 19 July 2023
  6. Volumetric 3D reconstruction of plant leaf cells using SEM, ion milling, TEM, and serial sectioning

    Main conclusion

    Focused ion beam scanning electron microscopy is well suited for volumetric extractions and 3D reconstructions of plant cells and its...

    Bernd Zechmann, Stefan Möstl, Günther Zellnig in Planta
    Article 06 May 2022
  7. 3D reconstruction from cryo-EM projection images using two spherical embeddings

    Single-particle analysis (SPA) in cryo-electron microscopy has become a powerful tool for determining and studying the macromolecular structure at an...

    Yonggang Lu, Jiaxuan Liu, ... **g He in Communications Biology
    Article Open access 04 April 2022
  8. Airway Cells 3D Reconstruction via Manual and Machine-Learning Aided Segmentation of Volume EM Datasets

    Volume electron microscopy (vEM) is a high-resolution imaging technique capable of revealing the 3D structure of cells, tissues, and model organisms....
    Aaran Vijayakumaran, Analle Abuammar, ... Vito Mennella in Cilia
    Protocol 2024
  9. Cellular 3D-reconstruction and analysis in the human cerebral cortex using automatic serial sections

    Techniques involving three-dimensional (3D) tissue structure reconstruction and analysis provide a better understanding of changes in molecules and...

    Nick Y. Larsen, **xia Li, ... Jens R. Nyengaard in Communications Biology
    Article Open access 02 September 2021
  10. CODA: quantitative 3D reconstruction of large tissues at cellular resolution

    A central challenge in biology is obtaining high-content, high-resolution information while analyzing tissue samples at volumes relevant to disease...

    Ashley L. Kiemen, Alicia M. Braxton, ... Pei-Hsun Wu in Nature Methods
    Article 24 October 2022
  11. The cryo-EM 3D image reconstruction of isolated Lethocerus indicus Z-discs

    The Z-disk of striated muscle defines the ends of the sarcomere, which repeats many times within the muscle fiber. Here we report application of...

    Fatemeh Abbasi Yeganeh, Corinne Summerill, ... Kenneth A. Taylor in Journal of Muscle Research and Cell Motility
    Article 03 September 2023
  12. Automated Segmentation and 3D Reconstruction of Different Membranes from Confocal Z-Stacks

    Confocal laser scanning microscopy (CLSM) is an advanced microscopy technique based on fluorescence technology which produces sharp images of a...
    Maryam Alsadat Zekri, Ingeborg Lang in The Plant Endoplasmic Reticulum
    Protocol 2024
  13. A non-destructive approach for measuring rice panicle-level photosynthetic responses using 3D-image reconstruction

    Background

    Our understanding of the physiological responses of rice inflorescence (panicle) to environmental stresses is limited by the challenge of...

    Jaspinder Singh Dharni, Balpreet Kaur Dhatt, ... Harkamal Walia in Plant Methods
    Article Open access 28 November 2022
  14. 3D reconstruction using Structure-from-Motion: a new technique for morphological measurement of tree root systems

    Purpose

    Clarification of root architecture is important for understanding tree root functions. 3D laser scanning reconstructs the 3D structure of root...

    Yuki Okamoto, Hidetoshi Ikeno, ... Mizue Ohashi in Plant and Soil
    Article 12 May 2022
  15. Auto3DCryoMap: an automated particle alignment approach for 3D cryo-EM density map reconstruction

    Background

    Cryo-EM data generated by electron tomography (ET) contains images for individual protein particles in different orientations and tilted...

    Adil Al-Azzawi, Anes Ouadou, ... Jianlin Cheng in BMC Bioinformatics
    Article Open access 28 December 2020
  16. 3D reconstruction of spatial expression

    Yingxin Lin, Jean Y. H. Yang in Nature Methods
    Article 16 May 2022
  17. 3D reconstruction and morphological analysis of electrostimulated hyperthermophile biofilms of Thermotoga neapolitana

    In this study, the morphological characteristics of the T. neapolitana biofilms on a ceramic carrier, stainless steel, graphite foil, carbon paper,...

    Joshua O. Ighalo, Adewale George Adeniyi, Chinenye Adaobi Igwegbe in Biotechnology Letters
    Article 31 March 2021
  18. 3D render volume CT reconstruction of the bones and arteries of the hind digit of the dromedary camel (Camelus dromedarius)

    Background

    The 3D computed tomography produces detailed images of the digit bones in addition to the angiograph render volume 3D of the CT shows the...

    Samir A. A. El-Gendy, Basma M. Kamal, Mohamed A. M. Alsafy in BMC Zoology
    Article Open access 31 August 2022
  19. The ultrastructural development and 3D reconstruction of the transparent carapace of the ostracod Skogsbergia lerneri

    The Skogsbergia lerneri is a marine ostracod which possesses a carapace that is both protective and transparent. Since development of this carapace...

    Benjamin M. Rumney, F. Tegwen Malik, ... Keith M. Meek in Marine Biology
    Article Open access 13 February 2022
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