Question: Can an encoder-decoder architecture pretrained on a large dataset of longitudinal electronic health records improves patient outcome predictions? Findings: In this prognostic study of 6.8 million patients, our denoising sequence-to-sequence prediction model of multiple outcomes outperformed state-of-the-art models scuh pretrained BERT on a broad range of patient outcomes, including intentional self-harm and pancreatic cancer. Meaning: Deep bidirectional and autoregressive representation improves patient outcome prediction.

The number of international benchmarking competitions is steadily increasing in various fields of machine learning (ML) research and practice. So far, however, little is known about the common practice as well as bottlenecks faced by the community in tackling the research questions posed. To shed light on the status quo of algorithm development in the specific field of biomedical imaging analysis, we designed an international survey that was issued to all participants of challenges conducted in conjunction with the IEEE ISBI 2021 and MICCAI 2021 conferences (80 competitions in total). The survey covered participants' expertise and working environments, their chosen strategies, as well as algorithm characteristics. A median of 72% challenge participants took part in the survey. According to our results, knowledge exchange was the primary incentive (70%) for participation, while the reception of prize money played only a minor role (16%). While a median of 80 working hours was spent on method development, a large portion of participants stated that they did not have enough time for method development (32%). 25% perceived the infrastructure to be a bottleneck. Overall, 94% of all solutions were deep learning-based. Of these, 84% were based on standard architectures. 43% of the respondents reported that the data samples (e.g., images) were too large to be processed at once. This was most commonly addressed by patch-based training (69%), downsampling (37%), and solving 3D analysis tasks as a series of 2D tasks. K-fold cross-validation on the training set was performed by only 37% of the participants and only 50% of the participants performed ensembling based on multiple identical models (61%) or heterogeneous models (39%). 48% of the respondents applied postprocessing steps.

Sequential recommendation is an important task to predict the next-item to access based on a sequence of interacted items. Most existing works learn user preference as the transition pattern from the previous item to the next one, ignoring the time interval between these two items. However, we observe that the time interval in a sequence may vary significantly different, and thus result in the ineffectiveness of user modeling due to the issue of \emph{preference drift}. In fact, we conducted an empirical study to validate this observation, and found that a sequence with uniformly distributed time interval (denoted as uniform sequence) is more beneficial for performance improvement than that with greatly varying time interval. Therefore, we propose to augment sequence data from the perspective of time interval, which is not studied in the literature. Specifically, we design five operators (Ti-Crop, Ti-Reorder, Ti-Mask, Ti-Substitute, Ti-Insert) to transform the original non-uniform sequence to uniform sequence with the consideration of variance of time intervals. Then, we devise a control strategy to execute data augmentation on item sequences in different lengths. Finally, we implement these improvements on a state-of-the-art model CoSeRec and validate our approach on four real datasets. The experimental results show that our approach reaches significantly better performance than the other 11 competing methods. Our implementation is available: https://github.com/KingGugu/TiCoSeRec.

Importance: Social determinants of health (SDOH) are known to be associated with increased risk of suicidal behaviors, but few studies utilized SDOH from unstructured electronic health record (EHR) notes. Objective: To investigate associations between suicide and recent SDOH, identified using structured and unstructured data. Design: Nested case-control study. Setting: EHR data from the US Veterans Health Administration (VHA). Participants: 6,122,785 Veterans who received care in the US VHA between October 1, 2010, and September 30, 2015. Exposures: Occurrence of SDOH over a maximum span of two years compared with no occurrence of SDOH. Main Outcomes and Measures: Cases of suicide deaths were matched with 4 controls on birth year, cohort entry date, sex, and duration of follow-up. We developed an NLP system to extract SDOH from unstructured notes. Structured data, NLP on unstructured data, and combining them yielded seven, eight and nine SDOH respectively. Adjusted odds ratios (aORs) and 95% confidence intervals (CIs) were estimated using conditional logistic regression. Results: In our cohort, 8,821 Veterans committed suicide during 23,725,382 person-years of follow-up (incidence rate 37.18 /100,000 person-years). Our cohort was mostly male (92.23%) and white (76.99%). Across the six common SDOH as covariates, NLP-extracted SDOH, on average, covered 84.38% of all SDOH occurrences. All SDOH, measured by structured data and NLP, were significantly associated with increased risk of suicide. The SDOH with the largest effects was legal problems (aOR=2.67, 95% CI=2.46-2.89), followed by violence (aOR=2.26, 95% CI=2.11-2.43). NLP-extracted and structured SDOH were also associated with suicide. Conclusions and Relevance: NLP-extracted SDOH were always significantly associated with increased risk of suicide among Veterans, suggesting the potential of NLP in public health studies.

Previous studies have explored generating accurately lip-synced talking faces for arbitrary targets given audio conditions. However, most of them deform or generate the whole facial area, leading to non-realistic results. In this work, we delve into the formulation of altering only the mouth shapes of the target person. This requires masking a large percentage of the original image and seamlessly inpainting it with the aid of audio and reference frames. To this end, we propose the Audio-Visual Context-Aware Transformer (AV-CAT) framework, which produces accurate lip-sync with photo-realistic quality by predicting the masked mouth shapes. Our key insight is to exploit desired contextual information provided in audio and visual modalities thoroughly with delicately designed Transformers. Specifically, we propose a convolution-Transformer hybrid backbone and design an attention-based fusion strategy for filling the masked parts. It uniformly attends to the textural information on the unmasked regions and the reference frame. Then the semantic audio information is involved in enhancing the self-attention computation. Additionally, a refinement network with audio injection improves both image and lip-sync quality. Extensive experiments validate that our model can generate high-fidelity lip-synced results for arbitrary subjects.

Objective: Evictions are involved in a cascade of negative events that can lead to unemployment, homelessness, long-term poverty, and mental health problems. In this study, we developed a natural language processing system to automatically detect eviction incidences and their attributes from electronic health record (EHR) notes. Materials and Methods: We annotated eviction status in 5000 EHR notes from the Veterans Health Administration. We developed a novel model, called Knowledge Injection based on Ripple Effects of Social and Behavioral Determinants of Health (KIRESH), that has shown to substantially outperform other state-of-the-art models such as fine-tuning pre-trained language models like BioBERT and Bio_ClinicalBERT. Moreover, we designed a prompt to further improve the model performance by using the intrinsic connection between the two sub-tasks of eviction presence and period prediction. Finally, we used the Temperature Scaling-based Calibration on our KIRESH-Prompt method to avoid over-confidence issues arising from the imbalance dataset. Results: KIRESH-Prompt achieved a Macro-F1 of 0.6273 (presence) and 0.7115 (period), which was significantly higher than 0.5382 (presence) and 0.67167 (period) for just fine-tuning Bio_ClinicalBERT model. Conclusion and Future Work: KIRESH-Prompt has substantially improved eviction status classification. In future work, we will evaluate the generalizability of the model framework to other applications.

Generalizable 3D part segmentation is important but challenging in vision and robotics. Training deep models via conventional supervised methods requires large-scale 3D datasets with fine-grained part annotations, which are costly to collect. This paper explores an alternative way for low-shot part segmentation of 3D point clouds by leveraging a pretrained image-language model, GLIP, which achieves superior performance on open-vocabulary 2D detection. We transfer the rich knowledge from 2D to 3D through GLIP-based part detection on point cloud rendering and a novel 2D-to-3D label lifting algorithm. We also utilize multi-view 3D priors and few-shot prompt tuning to boost performance significantly. Extensive evaluation on PartNet and PartNet-Mobility datasets shows that our method enables excellent zero-shot 3D part segmentation. Our few-shot version not only outperforms existing few-shot approaches by a large margin but also achieves highly competitive results compared to the fully supervised counterpart. Furthermore, we demonstrate that our method can be directly applied to iPhone-scanned point clouds without significant domain gaps.

The crossMoDA challenge aims to automatically segment the vestibular schwannoma (VS) tumor and cochlea regions of unlabeled high-resolution T2 scans by leveraging labeled contrast-enhanced T1 scans. The 2022 edition extends the segmentation task by including multi-institutional scans. In this work, we proposed an unpaired cross-modality segmentation framework using data augmentation and hybrid convolutional networks. Considering heterogeneous distributions and various image sizes for multi-institutional scans, we apply the min-max normalization for scaling the intensities of all scans between -1 and 1, and use the voxel size resampling and center cropping to obtain fixed-size sub-volumes for training. We adopt two data augmentation methods for effectively learning the semantic information and generating realistic target domain scans: generative and online data augmentation. For generative data augmentation, we use CUT and CycleGAN to generate two groups of realistic T2 volumes with different details and appearances for supervised segmentation training. For online data augmentation, we design a random tumor signal reducing method for simulating the heterogeneity of VS tumor signals. Furthermore, we utilize an advanced hybrid convolutional network with multi-dimensional convolutions to adaptively learn sparse inter-slice information and dense intra-slice information for accurate volumetric segmentation of VS tumor and cochlea regions in anisotropic scans. On the crossMoDA2022 validation dataset, our method produces promising results and achieves the mean DSC values of 72.47% and 76.48% and ASSD values of 3.42 mm and 0.53 mm for VS tumor and cochlea regions, respectively.

Image super-resolution is a common task on mobile and IoT devices, where one often needs to upscale and enhance low-resolution images and video frames. While numerous solutions have been proposed for this problem in the past, they are usually not compatible with low-power mobile NPUs having many computational and memory constraints. In this Mobile AI challenge, we address this problem and propose the participants to design an efficient quantized image super-resolution solution that can demonstrate a real-time performance on mobile NPUs. The participants were provided with the DIV2K dataset and trained INT8 models to do a high-quality 3X image upscaling. The runtime of all models was evaluated on the Synaptics VS680 Smart Home board with a dedicated edge NPU capable of accelerating quantized neural networks. All proposed solutions are fully compatible with the above NPU, demonstrating an up to 60 FPS rate when reconstructing Full HD resolution images. A detailed description of all models developed in the challenge is provided in this paper.

Various depth estimation models are now widely used on many mobile and IoT devices for image segmentation, bokeh effect rendering, object tracking and many other mobile tasks. Thus, it is very crucial to have efficient and accurate depth estimation models that can run fast on low-power mobile chipsets. In this Mobile AI challenge, the target was to develop deep learning-based single image depth estimation solutions that can show a real-time performance on IoT platforms and smartphones. For this, the participants used a large-scale RGB-to-depth dataset that was collected with the ZED stereo camera capable to generated depth maps for objects located at up to 50 meters. The runtime of all models was evaluated on the Raspberry Pi 4 platform, where the developed solutions were able to generate VGA resolution depth maps at up to 27 FPS while achieving high fidelity results. All models developed in the challenge are also compatible with any Android or Linux-based mobile devices, their detailed description is provided in this paper.