Literature DB >> 30559429

U-Net: deep learning for cell counting, detection, and morphometry.

Thorsten Falk1,2,3, Dominic Mai1,2,4,5, Robert Bensch1,2,6, Özgün Çiçek1, Ahmed Abdulkadir1,7, Yassine Marrakchi1,2,3, Anton Böhm1, Jan Deubner8,9, Zoe Jäckel8,9, Katharina Seiwald8, Alexander Dovzhenko10,11, Olaf Tietz10,11, Cristina Dal Bosco10, Sean Walsh10,11, Deniz Saltukoglu2,12,13,14, Tuan Leng Tay9,15,16, Marco Prinz2,3,15, Klaus Palme2,10, Matias Simons2,12,13,17, Ilka Diester8,9,18, Thomas Brox1,2,3,9, Olaf Ronneberger19,20,21.   

Abstract

U-Net is a generic deep-learning solution for frequently occurring quantification tasks such as cell detection and shape measurements in biomedical image data. We present an ImageJ plugin that enables non-machine-learning experts to analyze their data with U-Net on either a local computer or a remote server/cloud service. The plugin comes with pretrained models for single-cell segmentation and allows for U-Net to be adapted to new tasks on the basis of a few annotated samples.

Entities:  

Mesh:

Year:  2018        PMID: 30559429     DOI: 10.1038/s41592-018-0261-2

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


  239 in total

1.  Contrast-enhanced serial optical coherence scanner with deep learning network reveals vasculature and white matter organization of mouse brain.

Authors:  Tianqi Li; Chao J Liu; Taner Akkin
Journal:  Neurophotonics       Date:  2019-07-23       Impact factor: 3.593

2.  A Cyber-Physical Platform for Model Calibration.

Authors:  Lucia Bandiera; David Gomez-Cabeza; Eva Balsa-Canto; Filippo Menolascina
Journal:  Methods Mol Biol       Date:  2021

Review 3.  The overview of the deep learning integrated into the medical imaging of liver: a review.

Authors:  Kailai Xiang; Baihui Jiang; Dong Shang
Journal:  Hepatol Int       Date:  2021-07-15       Impact factor: 6.047

4.  Identification of Retinal Ganglion Cells from β-III Stained Fluorescent Microscopic Images.

Authors:  He Gai; Yi Wang; Leanne L H Chan; Bernard Chiu
Journal:  J Digit Imaging       Date:  2020-10       Impact factor: 4.056

5.  Sphere estimation network: three-dimensional nuclei detection of fluorescence microscopy images.

Authors:  David Joon Ho; Daniel Mas Montserrat; Chichen Fu; Paul Salama; Kenneth W Dunn; Edward J Delp
Journal:  J Med Imaging (Bellingham)       Date:  2020-08-27

6.  UNet++: Redesigning Skip Connections to Exploit Multiscale Features in Image Segmentation.

Authors:  Zongwei Zhou; Md Mahfuzur Rahman Siddiquee; Nima Tajbakhsh; Jianming Liang
Journal:  IEEE Trans Med Imaging       Date:  2019-12-13       Impact factor: 10.048

7.  Cell-machine interfaces for characterizing gene regulatory network dynamics.

Authors:  Jean-Baptiste Lugagne; Mary J Dunlop
Journal:  Curr Opin Syst Biol       Date:  2019-02-01

8.  Mapping mesoscale axonal projections in the mouse brain using a 3D convolutional network.

Authors:  Drew Friedmann; Albert Pun; Eliza L Adams; Jan H Lui; Justus M Kebschull; Sophie M Grutzner; Caitlin Castagnola; Marc Tessier-Lavigne; Liqun Luo
Journal:  Proc Natl Acad Sci U S A       Date:  2020-05-01       Impact factor: 11.205

Review 9.  Towards systems tissue engineering: Elucidating the dynamics, spatial coordination, and individual cells driving emergent behaviors.

Authors:  Matthew S Hall; Joseph T Decker; Lonnie D Shea
Journal:  Biomaterials       Date:  2020-06-14       Impact factor: 12.479

10.  Spatially Aware Dense-LinkNet Based Regression Improves Fluorescent Cell Detection in Adaptive Optics Ophthalmic Images.

Authors:  Jianfei Liu; Yoo-Jean Han; Tao Liu; Nancy Aguilera; Johnny Tam
Journal:  IEEE J Biomed Health Inform       Date:  2020-12-04       Impact factor: 5.772

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