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.

由于受试者辍学或扫描失败，在纵向研究中不可避免地扫描是不可避免的。在本文中，我们提出了一个深度学习框架，以预测获得的扫描中缺少扫描，从而迎合纵向婴儿研究。由于快速的对比和结构变化，特别是在生命的第一年，对婴儿脑MRI的预测具有挑战性。我们引入了值得信赖的变质生成对抗网络（MGAN），用于将婴儿脑MRI从一个时间点转换为另一个时间点。MGAN具有三个关键功能：（i）图像翻译利用空间和频率信息以进行详细信息提供映射；（ii）将注意力集中在具有挑战性地区的质量指导学习策略。（iii）多尺度杂种损失函数，可改善组织对比度和结构细节的翻译。实验结果表明，MGAN通过准确预测对比度和解剖学细节来优于现有的gan。

复发性喉神经（RLN）的肿瘤浸润是机器人甲状腺切除术的禁忌症，很难通过标准喉镜检测。超声（US）是RLN检测的可行替代方法，因为其安全性和提供实时反馈的能力。但是，直径通常小于3mm的RLN的微小性对RLN的准确定位构成了重大挑战。在这项工作中，我们为RLN本地化提出了一个知识驱动的框架，模仿了外科医生根据其周围器官识别RLN的标准方法。我们基于器官之间固有的相对空间关系构建了先前的解剖模型。通过贝叶斯形状比对（BSA），我们获得了围绕RLN的感兴趣区域（ROI）中心的候选坐标。 ROI允许使用基于多尺度语义信息的双路径识别网络确定RLN的精制质心的视野减少。实验结果表明，与最先进的方法相比，所提出的方法达到了较高的命中率和距离较小的距离误差。

迄今为止，迄今为止，众所周知，对广泛的互补临床相关任务进行了全面比较了医学图像登记方法。这限制了采用研究进展，以防止竞争方法的公平基准。在过去五年内已经探讨了许多新的学习方法，但优化，建筑或度量战略的问题非常适合仍然是开放的。 Learn2reg涵盖了广泛的解剖学：脑，腹部和胸部，方式：超声波，CT，MRI，群体：患者内部和患者内部和监督水平。我们为3D注册的培训和验证建立了较低的入境障碍，这帮助我们从20多个独特的团队中汇编了65多个单独的方法提交的结果。我们的互补度量集，包括稳健性，准确性，合理性和速度，使得能够独特地位了解当前的医学图像登记现状。进一步分析监督问题的转移性，偏见和重要性，主要是基于深度学习的方法的优越性，并将新的研究方向开放到利用GPU加速的常规优化的混合方法。

由于变形领域缺乏原因，可变形的登记模型广泛采用无监督的学习策略。这些模型通常取决于基于强度的相似性损失，以获得学习融合。尽管成功，但这种依赖性不足。对于单片机图像的可变形登记，对准的两个图像不仅具有难以区分的强度差异，而且在统计分布和边界区域中也紧密。考虑到设计良好的损耗功能可以促进学习模型进入所需的收敛，我们通过通过混合丢失集成多个图像特性来学习T1加权MR图像的可变形登记模型。我们的方法在保持变形平滑度的同时以高精度注册OASIS数据集。

Masked image modeling (MIM) performs strongly in pre-training large vision Transformers (ViTs). However, small models that are critical for real-world applications cannot or only marginally benefit from this pre-training approach. In this paper, we explore distillation techniques to transfer the success of large MIM-based pre-trained models to smaller ones. We systematically study different options in the distillation framework, including distilling targets, losses, input, network regularization, sequential distillation, etc, revealing that: 1) Distilling token relations is more effective than CLS token- and feature-based distillation; 2) An intermediate layer of the teacher network as target perform better than that using the last layer when the depth of the student mismatches that of the teacher; 3) Weak regularization is preferred; etc. With these findings, we achieve significant fine-tuning accuracy improvements over the scratch MIM pre-training on ImageNet-1K classification, using all the ViT-Tiny, ViT-Small, and ViT-base models, with +4.2%/+2.4%/+1.4% gains, respectively. Our TinyMIM model of base size achieves 52.2 mIoU in AE20K semantic segmentation, which is +4.1 higher than the MAE baseline. Our TinyMIM model of tiny size achieves 79.6% top-1 accuracy on ImageNet-1K image classification, which sets a new record for small vision models of the same size and computation budget. This strong performance suggests an alternative way for developing small vision Transformer models, that is, by exploring better training methods rather than introducing inductive biases into architectures as in most previous works. Code is available at https://github.com/OliverRensu/TinyMIM.

Few Shot Instance Segmentation (FSIS) requires models to detect and segment novel classes with limited several support examples. In this work, we explore a simple yet unified solution for FSIS as well as its incremental variants, and introduce a new framework named Reference Twice (RefT) to fully explore the relationship between support/query features based on a Transformer-like framework. Our key insights are two folds: Firstly, with the aid of support masks, we can generate dynamic class centers more appropriately to re-weight query features. Secondly, we find that support object queries have already encoded key factors after base training. In this way, the query features can be enhanced twice from two aspects, i.e., feature-level and instance-level. In particular, we firstly design a mask-based dynamic weighting module to enhance support features and then propose to link object queries for better calibration via cross-attention. After the above steps, the novel classes can be improved significantly over our strong baseline. Additionally, our new framework can be easily extended to incremental FSIS with minor modification. When benchmarking results on the COCO dataset for FSIS, gFSIS, and iFSIS settings, our method achieves a competitive performance compared to existing approaches across different shots, e.g., we boost nAP by noticeable +8.2/+9.4 over the current state-of-the-art FSIS method for 10/30-shot. We further demonstrate the superiority of our approach on Few Shot Object Detection. Code and model will be available.

We present Muse, a text-to-image Transformer model that achieves state-of-the-art image generation performance while being significantly more efficient than diffusion or autoregressive models. Muse is trained on a masked modeling task in discrete token space: given the text embedding extracted from a pre-trained large language model (LLM), Muse is trained to predict randomly masked image tokens. Compared to pixel-space diffusion models, such as Imagen and DALL-E 2, Muse is significantly more efficient due to the use of discrete tokens and requiring fewer sampling iterations; compared to autoregressive models, such as Parti, Muse is more efficient due to the use of parallel decoding. The use of a pre-trained LLM enables fine-grained language understanding, translating to high-fidelity image generation and the understanding of visual concepts such as objects, their spatial relationships, pose, cardinality etc. Our 900M parameter model achieves a new SOTA on CC3M, with an FID score of 6.06. The Muse 3B parameter model achieves an FID of 7.88 on zero-shot COCO evaluation, along with a CLIP score of 0.32. Muse also directly enables a number of image editing applications without the need to fine-tune or invert the model: inpainting, outpainting, and mask-free editing. More results are available at https://muse-model.github.io

Learning the underlying distribution of molecular graphs and generating high-fidelity samples is a fundamental research problem in drug discovery and material science. However, accurately modeling distribution and rapidly generating novel molecular graphs remain crucial and challenging goals. To accomplish these goals, we propose a novel Conditional Diffusion model based on discrete Graph Structures (CDGS) for molecular graph generation. Specifically, we construct a forward graph diffusion process on both graph structures and inherent features through stochastic differential equations (SDE) and derive discrete graph structures as the condition for reverse generative processes. We present a specialized hybrid graph noise prediction model that extracts the global context and the local node-edge dependency from intermediate graph states. We further utilize ordinary differential equation (ODE) solvers for efficient graph sampling, based on the semi-linear structure of the probability flow ODE. Experiments on diverse datasets validate the effectiveness of our framework. Particularly, the proposed method still generates high-quality molecular graphs in a limited number of steps.

Deep neural networks are vulnerable to adversarial attacks. In this paper, we take the role of investigators who want to trace the attack and identify the source, that is, the particular model which the adversarial examples are generated from. Techniques derived would aid forensic investigation of attack incidents and serve as deterrence to potential attacks. We consider the buyers-seller setting where a machine learning model is to be distributed to various buyers and each buyer receives a slightly different copy with same functionality. A malicious buyer generates adversarial examples from a particular copy $\mathcal{M}_i$ and uses them to attack other copies. From these adversarial examples, the investigator wants to identify the source $\mathcal{M}_i$. To address this problem, we propose a two-stage separate-and-trace framework. The model separation stage generates multiple copies of a model for a same classification task. This process injects unique characteristics into each copy so that adversarial examples generated have distinct and traceable features. We give a parallel structure which embeds a ``tracer'' in each copy, and a noise-sensitive training loss to achieve this goal. The tracing stage takes in adversarial examples and a few candidate models, and identifies the likely source. Based on the unique features induced by the noise-sensitive loss function, we could effectively trace the potential adversarial copy by considering the output logits from each tracer. Empirical results show that it is possible to trace the origin of the adversarial example and the mechanism can be applied to a wide range of architectures and datasets.