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Concordia Publications:

Title Authors PubMed ID
1 Class imbalance should not throw you off balance: Choosing the right classifiers and performance metrics for brain decoding with imbalanced data Thölke P; Mantilla-Ramos YJ; Abdelhedi H; Maschke C; Dehgan A; Harel Y; Kemtur A; Mekki Berrada L; Sahraoui M; Young T; Bellemare Pépin A; El Khantour C; Landry M; Pascarella A; Hadid V; Combrisson E; O' Byrne J; Jerbi K; 37385392
IMAGING
2 A dataset of multi-contrast unbiased average MRI templates of a Parkinson's disease population Madge V; Fonov VS; Xiao Y; Zou L; Jackson C; Postuma RB; Dagher A; Fon EA; Collins DL; 37213552
IMAGING
3 Primary and Secondary Progressive Aphasia in Posterior Cortical Atrophy Brodeur C; Belley É; Deschênes LM; Enriquez-Rosas A; Hubert M; Guimond A; Bilodeau J; Soucy JP; Macoir J; 35629330
IMAGING
4 Associations of the BDNF Val66Met Polymorphism With Body Composition, Cardiometabolic Risk Factors, and Energy Intake in Youth With Obesity: Findings From the HEARTY Study Goldfield GS; Walsh J; Sigal RJ; Kenny GP; Hadjiyannakis S; De Lisio M; Ngu M; Prud' homme D; Alberga AS; Doucette S; Goldfield DB; Cameron JD; 34867148
IMAGING
5 The BigBrainWarp toolbox for integration of BigBrain 3D histology with multimodal neuroimaging Paquola C; Royer J; Lewis LB; Lepage C; Glatard T; Wagstyl K; DeKraker J; Toussaint PJ; Valk SL; Collins DL; Khan A; Amunts K; Evans AC; Dickscheid T; Bernhardt BC; 34431476
IMAGING
6 Lateral Position-Dependent Velocity Estimation Error in Plane-Wave Doppler Ultrasound Systems Wei L; Williams R; Loupas T; Helfield B; Burns PN; 34006440
IMAGING
7 Tools and Techniques for Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)/COVID-19 Detection Safiabadi Tali SH; LeBlanc JJ; Sadiq Z; Oyewunmi OD; Camargo C; Nikpour B; Armanfard N; Sagan SM; Jahanshahi-Anbuhi S; 33980687
IMAGING
8 Comparing perturbation models for evaluating stability of neuroimaging pipelines. Kiar G, de Oliveira Castro P, Rioux P, Petit E, Brown ST, Evans AC, Glatard T 32831546
IMAGING
9 Two-stage ultrasound image segmentation using U-Net and test time augmentation. Amiri M; Brooks R; Behboodi B; Rivaz H; 32350786
IMAGING
10 BOLD signal physiology: Models and applications. Gauthier CJ, Fan AP 29544818
IMAGING
11 Exploring the alpha desynchronization hypothesis in resting state networks with intracranial electroencephalography and wiring cost estimates. Gómez-Ramírez J, Freedman S, Mateos D, Pérez Velázquez JL, Valiante TA 29142213
IMAGING
12 Dance and music share gray matter structural correlates. Karpati FJ, Giacosa C, Foster NEV, Penhune VB, Hyde KL 27923638
IMAGING
13 Cyberinfrastructure for Open Science at the Montreal Neurological Institute. Das S, Glatard T, Rogers C, Saigle J, Paiva S, MacIntyre L, Safi-Harab M, Rousseau ME, Stirling J, Khalili-Mahani N, MacFarlane D, Kostopoulos P, Rioux P, Madjar C, Lecours-Boucher X, Vanamala S, Adalat R, Mohaddes Z, Fonov VS, Milot S, Leppert I, Degroot C, Durcan TM, Campbell T, Moreau J, Dagher A, Collins DL, Karamchandani J, Bar-Or A, Fon EA, Hoge R, Baillet S, Rouleau G, Evans AC 28111547
IMAGING
14 Best practices in data analysis and sharing in neuroimaging using MRI. Nichols TE, Das S, Eickhoff SB, Evans AC, Glatard T, Hanke M, Kriegeskorte N, Milham MP, Poldrack RA, Poline JB, Proal E, Thirion B, Van Essen DC, White T, Yeo BT 28230846
IMAGING
15 Neuroimaging tests for clinical psychiatry: Are we there yet? Leyton M, Kennedy SH 28639935
IMAGING
16 Experimental Investigation of Left Ventricular Flow Patterns After Percutaneous Edge-to-Edge Mitral Valve Repair. Jeyhani M, Shahriari S, Labrosse M 29168199
IMAGING
17 The first MICCAI challenge on PET tumor segmentation. Hatt M, Laurent B, Ouahabi A, Fayad H, Tan S, Li L, Lu W, Jaouen V, Tauber C, Czakon J, Drapejkowski F, Dyrka W, Camarasu-Pop S, Cervenansky F, Girard P, Glatard T, Kain M, Yao Y, Barillot C, Kirov A, Visvikis D 29268169
IMAGING
18 Cluster based statistical feature extraction method for automatic bleeding detection in wireless capsule endoscopy video. Ghosh T, Fattah SA, Wahid KA, Zhu WP, Ahmad MO 29407997
IMAGING
19 Muscle Mass and Mortality After Cardiac Transplantation. Bibas L, Saleh E, Al-Kharji S, Chetrit J, Mullie L, Cantarovich M, Cecere R, Giannetti N, Afilalo J 29877924
IMAGING
20 Efficacy of Auditory versus Motor Learning for Skilled and Novice Performers. Brown RM, Penhune VB 30156505
IMAGING

 

Title:Two-stage ultrasound image segmentation using U-Net and test time augmentation.
Authors:Amiri MBrooks RBehboodi BRivaz H
Link:https://www.ncbi.nlm.nih.gov/pubmed/32350786
DOI:10.1007/s11548-020-02158-3
Publication:International journal of computer assisted radiology and surgery
Keywords:DetectionSegmentationU-NetUltrasound
PMID:32350786 Category:Int J Comput Assist Radiol Surg Date Added:2020-05-01
Dept Affiliation: IMAGING
1 Concordia University, 1493 Saint-Catherine St W, Montreal, Quebec, Canada. amirim@encs.concordia.ca.
2 Concordia University, 1493 Saint-Catherine St W, Montreal, Quebec, Canada.
3 Nuance Communications, 1500 Boulevard Robert-Bourassa, Montreal, Quebec, H3A 3S7, Canada.

Description:

PURPOSE: Detecting breast lesions using ultrasound imaging is an important application of computer-aided diagnosis systems. Several automatic methods have been proposed for breast lesion detection and segmentation; however, due to the ultrasound artefacts, and to the complexity of lesion shapes and locations, lesion or tumor segmentation from ultrasound breast images is still an open problem. In this paper, we propose using a lesion detection stage prior to the segmentation stage in order to improve the accuracy of the segmentation.

METHODS: We used a breast ultrasound imaging dataset which contained 163 images of the breast with either benign lesions or malignant tumors. First, we used a U-Net to detect the lesions and then used another U-Net to segment the detected region. We could show when the lesion is precisely detected, the segmentation performance substantially improves; however, if the detection stage is not precise enough, the segmentation stage also fails. Therefore, we developed a test-time augmentation technique to assess the detection stage performance.

RESULTS: By using the proposed two-stage approach, we could improve the average Dice score by 1.8% overall. The improvement was substantially more for images wherein the original Dice score was less than 70%, where average Dice score was improved by 14.5%.

CONCLUSIONS: The proposed two-stage technique shows promising results for segmentation of breast US images and has a much smaller chance of failure.

PMID: 32350786 [PubMed - indexed for MEDLINE]





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