Literature DB >> 31192055

The transition module: a method for preventing overfitting in convolutional neural networks.

S Akbar1, M Peikari1, S Salama2, S Nofech-Mozes1,2, A L Martel1.   

Abstract

Digital pathology has advanced substantially over the last decade with the adoption of slide scanners in pathology labs. The use of digital slides to analyse diseases at the microscopic level is both cost-effective and efficient. Identifying complex tumour patterns in digital slides is a challenging problem but holds significant importance for tumour burden assessment, grading and many other pathological assessments in cancer research. The use of convolutional neural networks (CNNs) to analyse such complex images has been well adopted in digital pathology. However, in recent years, the architecture of CNNs has altered with the introduction of inception modules which have shown great promise for classification tasks. In this paper, we propose a modified 'transition' module which encourages generalisation in a deep learning framework with few training samples. In the transition module, filters of varying sizes are used to encourage class-specific filters at multiple spatial resolutions followed by global average pooling. We demonstrate the performance of the transition module in AlexNet and ZFNet, for classifying breast tumours in two independent data-sets of scanned histology sections; the inclusion of the transition module in these CNNs improved performance.

Entities:  

Keywords:  Convolutional neural networks; breast tumour; histology; inception; overfitting

Year:  2018        PMID: 31192055      PMCID: PMC6561649          DOI: 10.1080/21681163.2018.1427148

Source DB:  PubMed          Journal:  Comput Methods Biomech Biomed Eng Imaging Vis        ISSN: 2168-1163


  8 in total

Review 1.  Assessing Tumor-infiltrating Lymphocytes in Solid Tumors: A Practical Review for Pathologists and Proposal for a Standardized Method From the International Immunooncology Biomarkers Working Group: Part 1: Assessing the Host Immune Response, TILs in Invasive Breast Carcinoma and Ductal Carcinoma In Situ, Metastatic Tumor Deposits and Areas for Further Research.

Authors:  Shona Hendry; Roberto Salgado; Thomas Gevaert; Prudence A Russell; Tom John; Bibhusal Thapa; Michael Christie; Koen van de Vijver; M V Estrada; Paula I Gonzalez-Ericsson; Melinda Sanders; Benjamin Solomon; Cinzia Solinas; Gert G G M Van den Eynden; Yves Allory; Matthias Preusser; Johannes Hainfellner; Giancarlo Pruneri; Andrea Vingiani; Sandra Demaria; Fraser Symmans; Paolo Nuciforo; Laura Comerma; E A Thompson; Sunil Lakhani; Seong-Rim Kim; Stuart Schnitt; Cecile Colpaert; Christos Sotiriou; Stefan J Scherer; Michail Ignatiadis; Sunil Badve; Robert H Pierce; Giuseppe Viale; Nicolas Sirtaine; Frederique Penault-Llorca; Tomohagu Sugie; Susan Fineberg; Soonmyung Paik; Ashok Srinivasan; Andrea Richardson; Yihong Wang; Ewa Chmielik; Jane Brock; Douglas B Johnson; Justin Balko; Stephan Wienert; Veerle Bossuyt; Stefan Michiels; Nils Ternes; Nicole Burchardi; Stephen J Luen; Peter Savas; Frederick Klauschen; Peter H Watson; Brad H Nelson; Carmen Criscitiello; Sandra O'Toole; Denis Larsimont; Roland de Wind; Giuseppe Curigliano; Fabrice André; Magali Lacroix-Triki; Mark van de Vijver; Federico Rojo; Giuseppe Floris; Shahinaz Bedri; Joseph Sparano; David Rimm; Torsten Nielsen; Zuzana Kos; Stephen Hewitt; Baljit Singh; Gelareh Farshid; Sibylle Loibl; Kimberly H Allison; Nadine Tung; Sylvia Adams; Karen Willard-Gallo; Hugo M Horlings; Leena Gandhi; Andre Moreira; Fred Hirsch; Maria V Dieci; Maria Urbanowicz; Iva Brcic; Konstanty Korski; Fabien Gaire; Hartmut Koeppen; Amy Lo; Jennifer Giltnane; Marlon C Rebelatto; Keith E Steele; Jiping Zha; Kenneth Emancipator; Jonathan W Juco; Carsten Denkert; Jorge Reis-Filho; Sherene Loi; Stephen B Fox
Journal:  Adv Anat Pathol       Date:  2017-09       Impact factor: 3.875

2.  An Image Analysis Resource for Cancer Research: PIIP-Pathology Image Informatics Platform for Visualization, Analysis, and Management.

Authors:  Anne L Martel; Dan Hosseinzadeh; Caglar Senaras; Yu Zhou; Azadeh Yazdanpanah; Rushin Shojaii; Emily S Patterson; Anant Madabhushi; Metin N Gurcan
Journal:  Cancer Res       Date:  2017-11-01       Impact factor: 12.701

3.  Cancer Digital Slide Archive: an informatics resource to support integrated in silico analysis of TCGA pathology data.

Authors:  David A Gutman; Jake Cobb; Dhananjaya Somanna; Yuna Park; Fusheng Wang; Tahsin Kurc; Joel H Saltz; Daniel J Brat; Lee A D Cooper
Journal:  J Am Med Inform Assoc       Date:  2013-07-25       Impact factor: 4.497

4.  A Dataset for Breast Cancer Histopathological Image Classification.

Authors:  Fabio A Spanhol; Luiz S Oliveira; Caroline Petitjean; Laurent Heutte
Journal:  IEEE Trans Biomed Eng       Date:  2015-10-30       Impact factor: 4.538

5.  Histologic grade remains a prognostic factor for breast cancer regardless of the number of positive lymph nodes and tumor size: a study of 161 708 cases of breast cancer from the SEER Program.

Authors:  Arnold M Schwartz; Donald Earl Henson; Dechang Chen; Sivasankari Rajamarthandan
Journal:  Arch Pathol Lab Med       Date:  2014-08       Impact factor: 5.534

6.  Breast Cancer Multi-classification from Histopathological Images with Structured Deep Learning Model.

Authors:  Zhongyi Han; Benzheng Wei; Yuanjie Zheng; Yilong Yin; Kejian Li; Shuo Li
Journal:  Sci Rep       Date:  2017-06-23       Impact factor: 4.379

7.  Large scale tissue histopathology image classification, segmentation, and visualization via deep convolutional activation features.

Authors:  Yan Xu; Zhipeng Jia; Liang-Bo Wang; Yuqing Ai; Fang Zhang; Maode Lai; Eric I-Chao Chang
Journal:  BMC Bioinformatics       Date:  2017-05-26       Impact factor: 3.169

8.  Classification of breast cancer histology images using Convolutional Neural Networks.

Authors:  Teresa Araújo; Guilherme Aresta; Eduardo Castro; José Rouco; Paulo Aguiar; Catarina Eloy; António Polónia; Aurélio Campilho
Journal:  PLoS One       Date:  2017-06-01       Impact factor: 3.240

  8 in total
  1 in total

1.  DeepSnap-Deep Learning Approach Predicts Progesterone Receptor Antagonist Activity With High Performance.

Authors:  Yasunari Matsuzaka; Yoshihiro Uesawa
Journal:  Front Bioeng Biotechnol       Date:  2020-01-22
  1 in total

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