Literature DB >> 30891329

High-throughput, high-resolution deep learning microscopy based on registration-free generative adversarial network.

Hao Zhang1,2, Chunyu Fang1,2, Xinlin Xie1, Yicong Yang1, Wei Mei3, Di Jin4,5, Peng Fei1,6,7.   

Abstract

We combine a generative adversarial network (GAN) with light microscopy to achieve deep learning super-resolution under a large field of view (FOV). By appropriately adopting prior microscopy data in an adversarial training, the neural network can recover a high-resolution, accurate image of new specimen from its single low-resolution measurement. Its capacity has been broadly demonstrated via imaging various types of samples, such as USAF resolution target, human pathological slides, fluorescence-labelled fibroblast cells, and deep tissues in transgenic mouse brain, by both wide-field and light-sheet microscopes. The gigapixel, multi-color reconstruction of these samples verifies a successful GAN-based single image super-resolution procedure. We also propose an image degrading model to generate low resolution images for training, making our approach free from the complex image registration during training data set preparation. After a well-trained network has been created, this deep learning-based imaging approach is capable of recovering a large FOV (~95 mm2) enhanced resolution of ~1.7 μm at high speed (within 1 second), while not necessarily introducing any changes to the setup of existing microscopes.

Entities:  

Year:  2019        PMID: 30891329      PMCID: PMC6420277          DOI: 10.1364/BOE.10.001044

Source DB:  PubMed          Journal:  Biomed Opt Express        ISSN: 2156-7085            Impact factor:   3.732


  16 in total

Review 1.  Inference in artificial intelligence with deep optics and photonics.

Authors:  Gordon Wetzstein; Aydogan Ozcan; Sylvain Gigan; Shanhui Fan; Dirk Englund; Marin Soljačić; Cornelia Denz; David A B Miller; Demetri Psaltis
Journal:  Nature       Date:  2020-12-02       Impact factor: 49.962

Review 2.  Deep learning in single-molecule microscopy: fundamentals, caveats, and recent developments [Invited].

Authors:  Leonhard Möckl; Anish R Roy; W E Moerner
Journal:  Biomed Opt Express       Date:  2020-02-27       Impact factor: 3.732

3.  Deep learning 2D and 3D optical sectioning microscopy using cross-modality Pix2Pix cGAN image translation.

Authors:  Huimin Zhuge; Brian Summa; Jihun Hamm; J Quincy Brown
Journal:  Biomed Opt Express       Date:  2021-11-12       Impact factor: 3.732

4.  Elimination of stripe artifacts in light sheet fluorescence microscopy using an attention-based residual neural network.

Authors:  Zechen Wei; Xiangjun Wu; Wei Tong; Suhui Zhang; Xin Yang; Jie Tian; Hui Hui
Journal:  Biomed Opt Express       Date:  2022-02-07       Impact factor: 3.732

5.  Super-resolution Segmentation Network for Reconstruction of Packed Neurites.

Authors:  Hang Zhou; Tingting Cao; Tian Liu; Shijie Liu; Lu Chen; Yijun Chen; Qing Huang; Wei Ye; Shaoqun Zeng; Tingwei Quan
Journal:  Neuroinformatics       Date:  2022-07-19

6.  Digital refocusing based on deep learning in optical coherence tomography.

Authors:  Zhuoqun Yuan; Di Yang; Zihan Yang; Jingzhu Zhao; Yanmei Liang
Journal:  Biomed Opt Express       Date:  2022-04-25       Impact factor: 3.562

Review 7.  Super-resolution Microscopy with Single Molecules in Biology and Beyond-Essentials, Current Trends, and Future Challenges.

Authors:  Leonhard Möckl; W E Moerner
Journal:  J Am Chem Soc       Date:  2020-10-09       Impact factor: 15.419

8.  Bi-channel image registration and deep-learning segmentation (BIRDS) for efficient, versatile 3D mapping of mouse brain.

Authors:  Xuechun Wang; Weilin Zeng; Xiaodan Yang; Yongsheng Zhang; Chunyu Fang; Shaoqun Zeng; Yunyun Han; Peng Fei
Journal:  Elife       Date:  2021-01-18       Impact factor: 8.140

9.  Establishment of a morphological atlas of the Caenorhabditis elegans embryo using deep-learning-based 4D segmentation.

Authors:  Jianfeng Cao; Guoye Guan; Vincy Wing Sze Ho; Ming-Kin Wong; Lu-Yan Chan; Chao Tang; Zhongying Zhao; Hong Yan
Journal:  Nat Commun       Date:  2020-12-07       Impact factor: 14.919

10.  AI-Assisted Forward Modeling of Biological Structures.

Authors:  Josh Lawrimore; Ayush Doshi; Benjamin Walker; Kerry Bloom
Journal:  Front Cell Dev Biol       Date:  2019-11-14
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