Improved MRI head anatomy segmentation using deep learning with multiple priors.
problem Challenges in segmenting head anatomy in MRI, especially with lesions.
method Added three types of prior information to a 3D convolutional network: spatial priors, morphological priors, and spatial context.
result Multiprior network improves segmentation performance, especially for abnormal anatomies.
Deep learning has been widely accepted as a promising solution for medical image segmentation, given a sufficiently large representative dataset of images with corresponding annotations. With ever increasing amounts of annotated medical datasets, it is infeasible to train a learning method always with all data from scr…
Novel deep learning framework for mandible segmentation and landmarking.
problem Challenging problem of mandible segmentation and anatomical landmarking from CBCT scans.
method Three-step approach: deep neural network for segmentation, geodesic space for landmarks, LSTM for closely spaced landmarks.
result Superior efficacy compared to state-of-the-art methods in craniofacial anomalies and diseased states.
MosaicMRI expands public datasets for musculoskeletal MRI, revealing cross-anatomical correlations.
problem Limited diversity in public MRI datasets hinders model evaluation across different anatomical settings.
method Developed a large, diverse dataset (MosaicMRI) and conducted experiments on a baseline model (VarNet).
result Models trained on combined anatomies outperform anatomy-specific models in low-sample regimes.
DeepMRSeg uses deep learning for brain tissue segmentation.
problem Automated segmentation of brain tissues and abnormalities.
method Modified UNet architecture with multi-scale feature extraction.
result DeepMRSeg achieves high accuracy on various brain segmentation tasks.
Bayesian U-Net exploits epistemic uncertainty for anomaly detection in retinal OCT images.
problem Anomaly detection in retinal OCT images using weak labels of healthy anatomy.
method Bayesian U-Net trained on weak labels of healthy anatomy, using Monte Carlo dropout for uncertainty estimation, and post-processing to transfer uncertainty to anomaly segmentations.
result Achieved a Dice index of 0.789 in an independent test set of AMD cases.
V-FCNN neural network segments atria from clinical images.
problem Automatic segmentation of atria from high-resolution images.
method Volumetric Fully Convolution Neural Network (V-FCNN) with a mixed loss function.
result 92.5% Dice similarity coefficient in 54 patients.
Lung segmentation accuracy varies little across diverse datasets.
problem Limited clinical applicability of automated lung segmentation methods.
method Comparison of four deep learning approaches and two standard algorithms on diverse datasets.
result Standard U-net approach yields higher accuracy on routine imaging data.
FalconBC improves patient-specific cardiovascular modeling by estimating boundary conditions efficiently.
problem Efficiently estimating boundary conditions in patient-specific cardiovascular models, especially in open-loop models and anatomies with lesions.
method A general amortized inference framework based on probabilistic flow that treats clinical targets and anatomies as conditioning variables.
result Demonstrated on two patient-specific models, FalconBC improves efficiency and accuracy in estimating boundary conditions.
Adapts CNN for robust medical image segmentation across different scanners and protocols.
problem Performance degradation of CNNs in medical image segmentation due to mismatch between training and test images.
method Designs a segmentation CNN as a concatenation of a shallow normalization CNN and a deep CNN. At test time, adapts the normalization sub-network for each test image using a denoising autoencoder.
result Consistently improves performance on multi-center MRI datasets of brain, heart, and prostate.
This paper simplifies complex geometry for shape analysis.
problem Understanding interactions between differential geometry and functional analysis.
method Provides an overview of infinite-dimensional Riemannian manifolds and metrics.
result Roadmap for beginners in computational anatomy and shape analysis.
Deep learning improves radiotherapy by automating head and neck cancer organ segmentation.
problem Manual delineation of radio-sensitive organs in head and neck cancer radiotherapy is time-consuming and variably performed.
method A 3D U-Net deep learning architecture trained on clinical CT scans and expert segmentations.
result Deep learning model achieves expert-level performance in delineating 21 distinct OARs.
Background: Cardiac MRI derived biventricular mass and function parameters, such as end-systolic volume (ESV), end-diastolic volume (EDV), ejection fraction (EF), stroke volume (SV), and ventricular mass (VM) are clinically well established. Image segmentation can be challenging and time-consuming, due to the complex a…
Deep learning predicts AF recurrence from MRI images without pre-processing.
problem Estimating AF recurrence from MRI images efficiently and accurately.
method Deep learning approach to predict shape descriptors directly from MRI images.
result Deep learning method produces similar outcomes to state-of-the-art methods.
Few-shot brain segmentation achieved with weak labels and deep networks.
problem Efficient brain segmentation from limited labeled data.
method Heteroscedastic multi-task networks with Monte-Carlo inference and direct probability learning.
result Significant improvements in segmentation accuracy with minimal labeled data.
Proposes a FoE prior for improving CNN performance in distribution shifts.
problem Improving CNN performance in image analysis tasks with distribution shifts.
method Uses a field-of-experts (FoE) prior to match feature distributions of test and training images.
result Outperforms previous TTA methods in lesion segmentation and most healthy tissue segmentation tasks.
Synthesizing images of the eye fundus is a challenging task that has been previously approached by formulating complex models of the anatomy of the eye. New images can then be generated by sampling a suitable parameter space. In this work, we propose a method that learns to synthesize eye fundus images directly from da…
Paper proposes DCDG for semi-supervised learning with MRI data.
problem Lack of labeled data and distribution mismatch between labeled and unlabeled data.
method Double-sided domain adaptation for feature space fusion and indirect learning for discriminativeness.
result Proposed DCDG achieves compelling segmentation results for LGE-CMRI images.
The space of embedded submanifolds plays an important role in applications such as computational anatomy and shape analysis. We can define two different classes on Riemannian metrics on this space: so-called outer metrics are metrics that measure shape changes using deformations of the ambient space and they find appli…
These lecture notes explain the geometry and discuss some of the analytical questions underlying image registration within the framework of large deformation diffeomorphic metric mapping (LDDMM) used in computational anatomy.
New model extracts shared brain activity patterns from fMRI data.
problem Challenges in aggregating multi-subject fMRI data due to variability.
method Shared Gaussian Process Factor Analysis (S-GPFA) incorporating temporal information.
result Model reveals ground truth latent structures and replicates experimental performance.
Machine learning builds personalized pediatric abdominal phantoms.
problem Lack of individualized phantoms for radiation therapy studies.
method Combining imaging and machine learning to automatically build phantoms.
result Automatically constructed phantoms more accurately represent patient anatomy.
Novel method embeds generative model into Bayesian optimization for HD cardiac model parameter estimation.
problem High-dimensional optimization of patient-specific cardiac model parameters with limited data.
method Embeds a generative variational auto-encoder into the objective function of Bayesian optimization.
result Improves accuracy of parameter estimation with more than 10x gain in efficiency.
Segmental structure is a common pattern in many types of sequences such as phrases in human languages. In this paper, we present a probabilistic model for sequences via their segmentations. The probability of a segmented sequence is calculated as the product of the probabilities of all its segments, where each segment …
Bayesian nonparametric method segments multi-sequence time series data.
problem Temporal segmentation of multi-sequence time series data into stationary segments.
method Gaussian process priors and nonparametric distribution for segment partitioning.
result Model effectively segments synthetic and real-time series data.
BiPE blends intra-segment and inter-segment encodings for better length extrapolation.
problem Improving length extrapolation in language models.
method Bilevel Positional Encoding (BiPE) that separates intra-segment and inter-segment encodings.
result BiPE enhances length extrapolation across various text modalities.
CNNs can be trained with clinically available segmentations for OARs in radiotherapy.
problem Lack of dedicated training volumes for CNNs in radiotherapy.
method Used clinically available segmentations from PACS, applied multi-label segmentation, empirically assessed training set size.
result Clinically available segmentations can be used to train an accurate OAR segmentation model.
Novel framework provides statistical significance for image segmentation results.
problem Evaluating the reliability of individual image segmentation results.
method Selective inference to account for segmentation bias in p-value computation.
result Valid p-values for segmentation results, accounting for bias.
QANet estimates image segmentation quality without human inspection.
problem Quantitative evaluation of image segmentation quality.
method QANet is a Quality Assurance Network that solves a regression problem to estimate quality measures.
result QANet accurately estimates segmentation quality with respect to ground truth.
Paper reduces Hausdorff Distance in medical image segmentation.
problem Reduction of Hausdorff Distance in medical image segmentation.
method Three novel loss functions for training CNNs to estimate and reduce HD.
result Approximately 18-45% reduction in HD without degrading other performance metrics.
Learning-based methods for visual segmentation have made progress on particular types of segmentation tasks, but are limited by the necessary supervision, the narrow definitions of fixed tasks, and the lack of control during inference for correcting errors. To remedy the rigidity and annotation burden of standard appro…
Develops deep learning for logical code segmentation.
problem Lack of logically segmented source code.
method Novel deep learning approach to generate logical code segments.
result Improves software analysis tasks like commenting, bug detection, and code synthesis.
A framework uses complex networks for image segmentation.
problem Over-segmentation in image segmentation.
method Initial segmentation, adaptive network construction, community detection.
result The proposed framework improves segmentation performance.
Hybrid CNN improves segmentation and registration of white matter tracts.
problem Accurate analysis of longitudinal brain imaging data.
method A hybrid CNN integrating segmentation and registration into a single procedure.
result Hybrid CNN outperforms multistage pipelines in segmentation accuracy, consistency, and speed.
UNet++ improves medical image segmentation with deep supervision.
problem Improving accuracy in medical image segmentation.
method Nested U-Net architecture with deep supervision.
result UNet++ achieves significant improvements in IoU scores.
New CRF model segments music into chords with rich features.
problem Harmonic analysis of music segments.
method Semi-Markov Conditional Random Field (semi-CRF) with segment-level features.
result Semi-CRF model performs better than previous approaches.
DNA rearrangement processes recombine gene segments that are organized on the chromosome in a variety of ways. The segments can overlap, interleave or one may be a subsegment of another. We use directed graphs to represent segment organizations on a given locus where contigs containing rearranged segments represent ver…
Preformer improves Transformer for long-term time series forecasting.
problem Transformer's quadratic complexity and lack of context-awareness for long-term forecasting.
method Introduces Multi-Scale Segment-Correlation mechanism for efficient time series segmentation and context-aware attention.
result Preformer outperforms other Transformer-based methods in long-term time series forecasting.
A new method for instance segmentation using a single network.
problem Precisely detecting and delineating objects in images.
method Proposes a solution based on DCME technique, using a single segmentation network.
result Reduces computational cost by repurposing the network encoder for classification.
Study uses LLM to extract and compare segment disclosures from financial filings.
problem Challenges in completeness and comparability of segment disclosures in financial reports.
method Developed a large language model framework to extract and preserve segment information from Form 10-K filings.
result The LLM accurately extracts segment-level information and addresses cross-period knowledge questions.
A new method models uncertainty in medical image segmentation.
problem Inherent ambiguity in anatomical structure and pathology segmentation.
method Hierarchical probabilistic model with variational autoencoder.
result Generates more realistic and diverse segmentation samples.
Proposes a method to learn speaker embeddings for variable duration utterances.
problem Mismatch between training and testing utterance durations degrades speaker verification performance.
method Sliding window segmentation, LSTM, attentive pooling, segment-level and utterance-level embeddings, similarity loss.
result Significant improvement in robustness for duration variant utterances.
Spatially-aware metrics improve uncertainty evaluation in segmentation.
problem Uncertainty evaluation metrics treat voxels independently, ignoring spatial context.
method Proposed three spatially aware metrics incorporating structural and boundary information.
result Improved alignment with clinically important factors and better discrimination between uncertainty patterns.
Deep learning improves automatic image segmentation.
problem Automatic object localization and boundary delineation in images and medical scans.
method Proposed and evaluated novel dilated dense encoder-decoder architectures for salient object segmentation and lesion localization in medical images.
result Proposed architectures outperform state-of-the-art models in accuracy and efficiency.
Proposes a new method for medical image segmentation.
problem Medical image segmentation challenges.
method Decompose-and-Integrate Learning.
result Improves segmentation performance on multiple datasets.
Wavelet features improve image clustering and segmentation accuracy.
problem Noise and lack of spatial context in pixel intensity-based methods.
method Modified K-means, Fuzzy c-means, and ACWE algorithms incorporating Wavelet features.
result Wavelet-based algorithms converge to different segmentation results based on frequency information.
UOLO detects and segments objects in medical images, achieving state-of-the-art performance.
problem Automatic detection and segmentation of objects in medical images.
method UOLO combines object segmentation and detection using a novel loss function.
result UOLO achieves state-of-the-art performance on optic disc and fovea detection and segmentation from retinal images.
This paper reviews deep learning for multi-modality medical image segmentation.
problem Improving segmentation accuracy in medical images using multiple modalities.
method Overview of deep learning and multi-modal medical image segmentation, analysis of different network architectures and fusion strategies.
result Later fusion of modalities can lead to more accurate segmentation results.