Literature DB >> 33617450

Transferable Visual Words: Exploiting the Semantics of Anatomical Patterns for Self-Supervised Learning.

Fatemeh Haghighi, Mohammad Reza Hosseinzadeh Taher, Zongwei Zhou, Michael B Gotway, Jianming Liang.   

Abstract

This paper introduces a new concept called "transferable visual words" (TransVW), aiming to achieve annotation efficiency for deep learning in medical image analysis. Medical imaging-focusing on particular parts of the body for defined clinical purposes-generates images of great similarity in anatomy across patients and yields sophisticated anatomical patterns across images, which are associated with rich semantics about human anatomy and which are natural visual words. We show that these visual words can be automatically harvested according to anatomical consistency via self-discovery, and that the self-discovered visual words can serve as strong yet free supervision signals for deep models to learn semantics-enriched generic image representation via self-supervision (self-classification and self-restoration). Our extensive experiments demonstrate the annotation efficiency of TransVW by offering higher performance and faster convergence with reduced annotation cost in several applications. Our TransVW has several important advantages, including (1) TransVW is a fully autodidactic scheme, which exploits the semantics of visual words for self-supervised learning, requiring no expert annotation; (2) visual word learning is an add-on strategy, which complements existing self-supervised methods, boosting their performance; and (3) the learned image representation is semantics-enriched models, which have proven to be more robust and generalizable, saving annotation efforts for a variety of applications through transfer learning. Our code, pre-trained models, and curated visual words are available at https://github.com/JLiangLab/TransVW.

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Year:  2021        PMID: 33617450      PMCID: PMC8516596          DOI: 10.1109/TMI.2021.3060634

Source DB:  PubMed          Journal:  IEEE Trans Med Imaging        ISSN: 0278-0062            Impact factor:   11.037


  11 in total

1.  Validation, comparison, and combination of algorithms for automatic detection of pulmonary nodules in computed tomography images: The LUNA16 challenge.

Authors:  Arnaud Arindra Adiyoso Setio; Alberto Traverso; Thomas de Bel; Moira S N Berens; Cas van den Bogaard; Piergiorgio Cerello; Hao Chen; Qi Dou; Maria Evelina Fantacci; Bram Geurts; Robbert van der Gugten; Pheng Ann Heng; Bart Jansen; Michael M J de Kaste; Valentin Kotov; Jack Yu-Hung Lin; Jeroen T M C Manders; Alexander Sóñora-Mengana; Juan Carlos García-Naranjo; Evgenia Papavasileiou; Mathias Prokop; Marco Saletta; Cornelia M Schaefer-Prokop; Ernst T Scholten; Luuk Scholten; Miranda M Snoeren; Ernesto Lopez Torres; Jef Vandemeulebroucke; Nicole Walasek; Guido C A Zuidhof; Bram van Ginneken; Colin Jacobs
Journal:  Med Image Anal       Date:  2017-07-13       Impact factor: 8.545

2.  Convolutional Neural Networks for Medical Image Analysis: Full Training or Fine Tuning?

Authors:  Nima Tajbakhsh; Jae Y Shin; Suryakanth R Gurudu; R Todd Hurst; Christopher B Kendall; Michael B Gotway
Journal:  IEEE Trans Med Imaging       Date:  2016-03-07       Impact factor: 10.048

3.  Exploiting the potential of unlabeled endoscopic video data with self-supervised learning.

Authors:  Tobias Ross; David Zimmerer; Anant Vemuri; Fabian Isensee; Manuel Wiesenfarth; Sebastian Bodenstedt; Fabian Both; Philip Kessler; Martin Wagner; Beat Müller; Hannes Kenngott; Stefanie Speidel; Annette Kopp-Schneider; Klaus Maier-Hein; Lena Maier-Hein
Journal:  Int J Comput Assist Radiol Surg       Date:  2018-04-27       Impact factor: 2.924

4.  The Lung Image Database Consortium (LIDC) and Image Database Resource Initiative (IDRI): a completed reference database of lung nodules on CT scans.

Authors:  Samuel G Armato; Geoffrey McLennan; Luc Bidaut; Michael F McNitt-Gray; Charles R Meyer; Anthony P Reeves; Binsheng Zhao; Denise R Aberle; Claudia I Henschke; Eric A Hoffman; Ella A Kazerooni; Heber MacMahon; Edwin J R Van Beeke; David Yankelevitz; Alberto M Biancardi; Peyton H Bland; Matthew S Brown; Roger M Engelmann; Gary E Laderach; Daniel Max; Richard C Pais; David P Y Qing; Rachael Y Roberts; Amanda R Smith; Adam Starkey; Poonam Batrah; Philip Caligiuri; Ali Farooqi; Gregory W Gladish; C Matilda Jude; Reginald F Munden; Iva Petkovska; Leslie E Quint; Lawrence H Schwartz; Baskaran Sundaram; Lori E Dodd; Charles Fenimore; David Gur; Nicholas Petrick; John Freymann; Justin Kirby; Brian Hughes; Alessi Vande Casteele; Sangeeta Gupte; Maha Sallamm; Michael D Heath; Michael H Kuhn; Ekta Dharaiya; Richard Burns; David S Fryd; Marcos Salganicoff; Vikram Anand; Uri Shreter; Stephen Vastagh; Barbara Y Croft
Journal:  Med Phys       Date:  2011-02       Impact factor: 4.071

5.  Fine-tuning Convolutional Neural Networks for Biomedical Image Analysis: Actively and Incrementally.

Authors:  Zongwei Zhou; Jae Shin; Lei Zhang; Suryakanth Gurudu; Michael Gotway; Jianming Liang
Journal:  Proc IEEE Comput Soc Conf Comput Vis Pattern Recognit       Date:  2017-11-09

6.  End-to-end lung cancer screening with three-dimensional deep learning on low-dose chest computed tomography.

Authors:  Diego Ardila; Atilla P Kiraly; Sujeeth Bharadwaj; Bokyung Choi; Joshua J Reicher; Lily Peng; Daniel Tse; Mozziyar Etemadi; Wenxing Ye; Greg Corrado; David P Naidich; Shravya Shetty
Journal:  Nat Med       Date:  2019-05-20       Impact factor: 53.440

7.  Self-supervised learning for medical image analysis using image context restoration.

Authors:  Liang Chen; Paul Bentley; Kensaku Mori; Kazunari Misawa; Michitaka Fujiwara; Daniel Rueckert
Journal:  Med Image Anal       Date:  2019-07-26       Impact factor: 8.545

8.  Automatic Multi-Organ Segmentation on Abdominal CT With Dense V-Networks.

Authors:  Eli Gibson; Francesco Giganti; Yipeng Hu; Ester Bonmati; Steve Bandula; Kurinchi Gurusamy; Brian Davidson; Stephen P Pereira; Matthew J Clarkson; Dean C Barratt
Journal:  IEEE Trans Med Imaging       Date:  2018-02-14       Impact factor: 10.048

9.  NiftyNet: a deep-learning platform for medical imaging.

Authors:  Eli Gibson; Wenqi Li; Carole Sudre; Lucas Fidon; Dzhoshkun I Shakir; Guotai Wang; Zach Eaton-Rosen; Robert Gray; Tom Doel; Yipeng Hu; Tom Whyntie; Parashkev Nachev; Marc Modat; Dean C Barratt; Sébastien Ourselin; M Jorge Cardoso; Tom Vercauteren
Journal:  Comput Methods Programs Biomed       Date:  2018-01-31       Impact factor: 5.428

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  3 in total

1.  A Systematic Benchmarking Analysis of Transfer Learning for Medical Image Analysis.

Authors:  Mohammad Reza Hosseinzadeh Taher; Fatemeh Haghighi; Ruibin Feng; Michael B Gotway; Jianming Liang
Journal:  Domain Adapt Represent Transf Afford Healthc AI Resour Divers Glob Health (2021)       Date:  2021-09-21

2.  Seeking an Optimal Approach for Computer-Aided Pulmonary Embolism Detection.

Authors:  Nahid Ul Islam; Shiv Gehlot; Zongwei Zhou; Michael B Gotway; Jianming Liang
Journal:  Mach Learn Med Imaging       Date:  2021-09-21

3.  Guest Editorial Annotation-Efficient Deep Learning: The Holy Grail of Medical Imaging.

Authors:  Nima Tajbakhsh; Holger Roth; Demetri Terzopoulos; Jianming Liang
Journal:  IEEE Trans Med Imaging       Date:  2021-09-30       Impact factor: 11.037

  3 in total

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