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Patrick Brandao; O. Zisimopoulos; E. Mazomenos; G. Ciutib; Jorge Bernal; M. Visentini-Scarzanell; A. Menciassi; P. Dario; A. Koulaouzidis; A. Arezzo; D.J. Hawkes; D. Stoyanov |
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Towards a computed-aided diagnosis system in colonoscopy: Automatic polyp segmentation using convolution neural networks |
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2018 |
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Journal of Medical Robotics Research |
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JMRR |
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3 |
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2 |
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convolutional neural networks; colonoscopy; computer aided diagnosis |
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Early diagnosis is essential for the successful treatment of bowel cancers including colorectal cancer (CRC) and capsule endoscopic imaging with robotic actuation can be a valuable diagnostic tool when combined with automated image analysis. We present a deep learning rooted detection and segmentation framework for recognizing lesions in colonoscopy and capsule endoscopy images. We restructure established convolution architectures, such as VGG and ResNets, by converting them into fully-connected convolution networks (FCNs), ne-tune them and study their capabilities for polyp segmentation and detection. We additionally use Shape-from-Shading (SfS) to recover depth and provide a richer representation of the tissue's structure in colonoscopy images. Depth is
incorporated into our network models as an additional input channel to the RGB information and we demonstrate that the resulting network yields improved performance. Our networks are tested on publicly available datasets and the most accurate segmentation model achieved a mean segmentation IU of 47.78% and 56.95% on the ETIS-Larib and CVC-Colon datasets, respectively. For polyp
detection, the top performing models we propose surpass the current state of the art with detection recalls superior to 90% for all datasets tested. To our knowledge, we present the rst work to use FCNs for polyp segmentation in addition to proposing a novel combination of SfS and RGB that boosts performance. |
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MV; no menciona |
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BZM2018 |
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2976 |
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David Vazquez; Jorge Bernal; F. Javier Sanchez; Gloria Fernandez Esparrach; Antonio Lopez; Adriana Romero; Michal Drozdzal; Aaron Courville |
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Title |
A Benchmark for Endoluminal Scene Segmentation of Colonoscopy Images |
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2017 |
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Journal of Healthcare Engineering |
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JHCE |
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2040-2295 |
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Colonoscopy images; Deep Learning; Semantic Segmentation |
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Colorectal cancer (CRC) is the third cause of cancer death world-wide. Currently, the standard approach to reduce CRC-related mortality is to perform regular screening in search for polyps and colonoscopy is the screening tool of choice. The main limitations of this screening procedure are polyp miss- rate and inability to perform visual assessment of polyp malignancy. These drawbacks can be reduced by designing Decision Support Systems (DSS) aim- ing to help clinicians in the different stages of the procedure by providing endoluminal scene segmentation. Thus, in this paper, we introduce an extended benchmark of colonoscopy image segmentation, with the hope of establishing a new strong benchmark for colonoscopy image analysis research. The proposed dataset consists of 4 relevant classes to inspect the endolumninal scene, tar- geting different clinical needs. Together with the dataset and taking advantage of advances in semantic segmentation literature, we provide new baselines by training standard fully convolutional networks (FCN). We perform a compar- ative study to show that FCN significantly outperform, without any further post-processing, prior results in endoluminal scene segmentation, especially with respect to polyp segmentation and localization. |
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ADAS; MV; 600.075; 600.085; 600.076; 601.281; 600.118 |
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VBS2017b |
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2940 |
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F. Javier Sanchez; Jorge Bernal; Cristina Sanchez Montes; Cristina Rodriguez de Miguel; Gloria Fernandez Esparrach |
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Title |
Bright spot regions segmentation and classification for specular highlights detection in colonoscopy videos |
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2017 |
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Machine Vision and Applications |
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MVAP |
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1-20 |
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Specular highlights; bright spot regions segmentation; region classification; colonoscopy |
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A novel specular highlights detection method in colonoscopy videos is presented. The method is based on a model of appearance de ning specular
highlights as bright spots which are highly contrasted with respect to adjacent regions. Our approach proposes two stages; segmentation, and then classi cation
of bright spot regions. The former de nes a set of candidate regions obtained through a region growing process with local maxima as initial region seeds. This process creates a tree structure which keeps track, at each growing iteration, of the region frontier contrast; nal regions provided depend on restrictions over contrast value. Non-specular regions are ltered through a classi cation stage performed by a linear SVM classi er using model-based features from each region. We introduce a new validation database with more than 25; 000 regions along with their corresponding pixel-wise annotations. We perform a comparative study against other approaches. Results show that our method is superior to other approaches, with our segmented regions being
closer to actual specular regions in the image. Finally, we also present how our methodology can also be used to obtain an accurate prediction of polyp histology. |
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MV; 600.096; 600.175 |
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Admin @ si @ SBS2017 |
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2975 |
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Hugo Jair Escalante; Victor Ponce; Sergio Escalera; Xavier Baro; Alicia Morales-Reyes; Jose Martinez-Carranza |
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Title |
Evolving weighting schemes for the Bag of Visual Words |
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2017 |
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Neural Computing and Applications |
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Neural Computing and Applications |
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28 |
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5 |
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925–939 |
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Bag of Visual Words; Bag of features; Genetic programming; Term-weighting schemes; Computer vision |
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The Bag of Visual Words (BoVW) is an established representation in computer vision. Taking inspiration from text mining, this representation has proved
to be very effective in many domains. However, in most cases, standard term-weighting schemes are adopted (e.g.,term-frequency or TF-IDF). It remains open the question of whether alternative weighting schemes could boost the
performance of methods based on BoVW. More importantly, it is unknown whether it is possible to automatically learn and determine effective weighting schemes from
scratch. This paper brings some light into both of these unknowns. On the one hand, we report an evaluation of the most common weighting schemes used in text mining, but rarely used in computer vision tasks. Besides, we propose an evolutionary algorithm capable of automatically learning weighting schemes for computer vision problems. We report empirical results of an extensive study in several computer vision problems. Results show the usefulness of the proposed method. |
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Springer |
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HUPBA;MV; no menciona |
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no |
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Admin @ si @ EPE2017 |
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2743 |
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Author |
Jorge Bernal; Nima Tajkbaksh; F. Javier Sanchez; Bogdan J. Matuszewski; Hao Chen; Lequan Yu; Quentin Angermann; Olivier Romain; Bjorn Rustad; Ilangko Balasingham; Konstantin Pogorelov; Sungbin Choi; Quentin Debard; Lena Maier Hein; Stefanie Speidel; Danail Stoyanov; Patrick Brandao; Henry Cordova; Cristina Sanchez Montes; Suryakanth R. Gurudu; Gloria Fernandez Esparrach; Xavier Dray; Jianming Liang; Aymeric Histace |
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Comparative Validation of Polyp Detection Methods in Video Colonoscopy: Results from the MICCAI 2015 Endoscopic Vision Challenge |
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Year |
2017 |
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IEEE Transactions on Medical Imaging |
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TMI |
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36 |
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6 |
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1231 - 1249 |
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Endoscopic vision; Polyp Detection; Handcrafted features; Machine Learning; Validation Framework |
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Colonoscopy is the gold standard for colon cancer screening though still some polyps are missed, thus preventing early disease detection and treatment. Several computational systems have been proposed to assist polyp detection during colonoscopy but so far without consistent evaluation. The lack
of publicly available annotated databases has made it difficult to compare methods and to assess if they achieve performance levels acceptable for clinical use. The Automatic Polyp Detection subchallenge, conducted as part of the Endoscopic Vision Challenge (http://endovis.grand-challenge.org) at the international conference on Medical Image Computing and Computer Assisted
Intervention (MICCAI) in 2015, was an effort to address this need. In this paper, we report the results of this comparative evaluation of polyp detection methods, as well as describe additional experiments to further explore differences between methods. We define performance metrics and provide evaluation databases that allow comparison of multiple methodologies. Results show that convolutional neural networks (CNNs) are the state of the art. Nevertheless it is also demonstrated that combining different methodologies can lead to an improved overall performance. |
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MV; 600.096; 600.075 |
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Admin @ si @ BTS2017 |
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2949 |
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