Dataset Information

Deep learning-based detection and segmentation of diffusion abnormalities in acute ischemic stroke.

ABSTRACT:

Background

Accessible tools to efficiently detect and segment diffusion abnormalities in acute strokes are highly anticipated by the clinical and research communities.

Methods

We developed a tool with deep learning networks trained and tested on a large dataset of 2,348 clinical diffusion weighted MRIs of patients with acute and sub-acute ischemic strokes, and further tested for generalization on 280 MRIs of an external dataset (STIR).

Results

Our proposed model outperforms generic networks and DeepMedic, particularly in small lesions, with lower false positive rate, balanced precision and sensitivity, and robustness to data perturbs (e.g., artefacts, low resolution, technical heterogeneity). The agreement with human delineation rivals the inter-evaluator agreement; the automated lesion quantification of volume and contrast has virtually total agreement with human quantification.

Conclusion

Our tool is fast, public, accessible to non-experts, with minimal computational requirements, to detect and segment lesions via a single command line. Therefore, it fulfills the conditions to perform large scale, reliable and reproducible clinical and translational research.

SUBMITTER: Liu CF

PROVIDER: S-EPMC9053217 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Deep learning-based detection and segmentation of diffusion abnormalities in acute ischemic stroke.

Liu Chin-Fu CF Hsu Johnny J Xu Xin X Ramachandran Sandhya S Wang Victor V Miller Michael I MI Hillis Argye E AE Faria Andreia V AV

Communications medicine 20211216

<h4>Background</h4>Accessible tools to efficiently detect and segment diffusion abnormalities in acute strokes are highly anticipated by the clinical and research communities.<h4>Methods</h4>We developed a tool with deep learning networks trained and tested on a large dataset of 2,348 clinical diffusion weighted MRIs of patients with acute and sub-acute ischemic strokes, and further tested for generalization on 280 MRIs of an external dataset (STIR).<h4>Results</h4>Our proposed model outperforms ...[more]

PMID: 35602200

Similar Datasets

Project description:PurposeTo compare the segmentation and detection performance of a deep learning model trained on a database of human-labeled clinical stroke lesions on diffusion-weighted (DW) images to a model trained on the same database enhanced with synthetic stroke lesions.Materials and methodsIn this institutional review board-approved study, a stroke database of 962 cases (mean patient age ± standard deviation, 65 years ± 17; 255 male patients; 449 scans with DW positive stroke lesions) and a normal database of 2027 patients (mean age, 38 years ± 24; 1088 female patients) were used. Brain volumes with synthetic stroke lesions on DW images were produced by warping the relative signal increase of real strokes to normal brain volumes. A generic three-dimensional (3D) U-Net was trained on four different databases to generate four different models: (a) 375 neuroradiologist-labeled clinical DW positive stroke cases (CDB); (b) 2000 synthetic cases (S2DB); (c) CDB plus 2000 synthetic cases (CS2DB); and (d) CDB plus 40 000 synthetic cases (CS40DB). The models were tested on 20% (n = 192) of the cases of the stroke database, which were excluded from the training set. Segmentation accuracy was characterized using Dice score and lesion volume of the stroke segmentation, and statistical significance was tested using a paired two-tailed Student t test. Detection sensitivity and specificity were compared with labeling done by three neuroradiologists.ResultsThe performance of the 3D U-Net model trained on the CS40DB (mean Dice score, 0.72) was better than models trained on the CS2DB (Dice score, 0.70; P < .001) or the CDB (Dice score, 0.65; P < .001). The deep learning model (CS40DB) was also more sensitive (91% [95% confidence interval {CI}: 89%, 93%]) than each of the three human readers (human reader 3, 84% [95% CI: 81%, 87%]; human reader 1, 78% [95% CI: 75%, 81%]; human reader 2, 79% [95% CI: 76%, 82%]), but was less specific (75% [95% CI: 72%, 78%]) than each of the three human readers (human reader 3, 96% [95% CI: 94%, 98%]; human reader 1, 92% [95% CI: 90%, 94%]; human reader 2, 89% [95% CI: 86%, 91%]).ConclusionDeep learning training for segmentation and detection of stroke lesions on DW images was significantly improved by enhancing the training set with synthetic lesions.Supplemental material is available for this article.© RSNA, 2020.

Project description:PurposeRecently, a large number of patients with acute ischemic stroke benefited from the use of thrombectomy, a minimally invasive intervention technique for mechanically removing thrombi from the cerebrovasculature. During thrombectomy, 2D digital subtraction angiography (DSA) image sequences are acquired simultaneously from the posterior-anterior and the lateral view to control whether thrombus removal was successful, and to possibly detect newly occluded areas caused by thrombus fragments split from the main thrombus. However, such new occlusions, which would be treatable by thrombectomy, may be overlooked during the intervention. To prevent this, we developed a deep learning-based approach to automatic classification of DSA sequences into thrombus-free and non-thrombus-free sequences.MethodsWe performed a retrospective study based on the single-center DSA data of thrombectomy patients. For classifying the DSA sequences, we applied Long Short-Term Memory or Gated Recurrent Unit networks and combined them with different Convolutional Neural Networks used as feature extractor. These network variants were trained on the DSA data by using five-fold cross-validation. The classification performance was determined on a test data set with respect to the Matthews correlation coefficient (MCC) and the area under the curve (AUC). Finally, we evaluated our models on patient cases, in which overlooking thrombi during thrombectomy had happened.ResultsDepending on the specific model configuration used, we obtained a performance of up to 0.77[Formula: see text]0.94 for the MCC[Formula: see text]AUC, respectively. Additionally, overlooking thrombi could have been prevented in the reported patient cases, as our models would have classified the corresponding DSA sequences correctly.ConclusionOur deep learning-based approach to thrombus identification in DSA sequences yielded high accuracy on our single-center test data set. External validation is now required to investigate the generalizability of our method. As demonstrated, using this new approach may help reduce the incident risk of overlooking thrombi during thrombectomy in the future.

Dataset Information

Deep learning-based detection and segmentation of diffusion abnormalities in acute ischemic stroke.

Background

Methods

Results

Conclusion

Publications

Deep learning-based detection and segmentation of diffusion abnormalities in acute ischemic stroke.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets