A Cross Spatio-Temporal Pathology-based Lung Nodule Dataset

Recently, intelligent analysis of lung nodules with the assistant of computer aided detection (CAD) techniques can improve the accuracy rate of lung cancer diagnosis. However, existing CAD systems and pulmonary datasets mainly focus on Computed Tomography (CT) images from one single period, while ignoring the cross spatio-temporal features associated with the progression of nodules contained in imaging data from various captured periods of lung cancer. If the evolution patterns of nodules across various periods in the patients' CT sequences can be explored, it will play a crucial role in guiding the precise screening identification of lung cancer. Therefore, a cross spatio-temporal lung nodule dataset with pathological information for nodule identification and diagnosis is constructed, which contains 328 CT sequences and 362 annotated nodules from 109 patients. This comprehensive database is intended to drive research in the field of CAD towards more practical and robust methods, and also contribute to the further exploration of precision medicine related field. To ensure patient confidentiality, we have removed sensitive information from the dataset.

Multimodal Information Interaction for Medical Image Segmentation

The use of multimodal data in assisted diagnosis and segmentation has emerged as a prominent area of interest in current research. However, one of the primary challenges is how to effectively fuse multimodal features. Most of the current approaches focus on the integration of multimodal features while ignoring the correlation and consistency between different modal features, leading to the inclusion of potentially irrelevant information. To address this issue, we introduce an innovative Multimodal Information Cross Transformer (MicFormer), which employs a dual-stream architecture to simultaneously extract features from each modality. Leveraging the Cross Transformer, it queries features from one modality and retrieves corresponding responses from another, facilitating effective communication between bimodal features. Additionally, we incorporate a deformable Transformer architecture to expand the search space. We conducted experiments on the MM-WHS dataset, and in the CT-MRI multimodal image segmentation task, we successfully improved the whole-heart segmentation DICE score to 85.57 and MIoU to 75.51. Compared to other multimodal segmentation techniques, our method outperforms by margins of 2.83 and 4.23, respectively. This demonstrates the efficacy of MicFormer in integrating relevant information between different modalities in multimodal tasks. These findings hold significant implications for multimodal image tasks, and we believe that MicFormer possesses extensive potential for broader applications across various domains. Access to our method is available at https://github.com/fxxJuses/MICFormer

Fair Concurrent Training of Multiple Models in Federated Learning

Federated learning (FL) enables collaborative learning across multiple clients. In most FL work, all clients train a single learning task. However, the recent proliferation of FL applications may increasingly require multiple FL tasks to be trained simultaneously, sharing clients' computing and communication resources, which we call Multiple-Model Federated Learning (MMFL). Current MMFL algorithms use naive average-based client-task allocation schemes that can lead to unfair performance when FL tasks have heterogeneous difficulty levels, e.g., tasks with larger models may need more rounds and data to train. Just as naively allocating resources to generic computing jobs with heterogeneous resource needs can lead to unfair outcomes, naive allocation of clients to FL tasks can lead to unfairness, with some tasks having excessively long training times, or lower converged accuracies. Furthermore, in the FL setting, since clients are typically not paid for their training effort, we face a further challenge that some clients may not even be willing to train some tasks, e.g., due to high computational costs, which may exacerbate unfairness in training outcomes across tasks. We address both challenges by firstly designing FedFairMMFL, a difficulty-aware algorithm that dynamically allocates clients to tasks in each training round. We provide guarantees on airness and FedFairMMFL's convergence rate. We then propose a novel auction design that incentivizes clients to train multiple tasks, so as to fairly distribute clients' training efforts across the tasks. We show how our fairness-based learning and incentive mechanisms impact training convergence and finally evaluate our algorithm with multiple sets of learning tasks on real world datasets.

A Phone-based Distributed Ambient Temperature Measurement System with An Efficient Label-free Automated Training Strategy

Enhancing the energy efficiency of buildings significantly relies on monitoring indoor ambient temperature. The potential limitations of conventional temperature measurement techniques, together with the omnipresence of smartphones, have redirected researchers' attention towards the exploration of phone-based ambient temperature estimation technology. Nevertheless, numerous obstacles remain to be addressed in order to achieve a practical implementation of this technology. This study proposes a distributed phone-based ambient temperature estimation system which enables collaboration between multiple phones to accurately measure the ambient temperature in each small area of an indoor space. Besides, it offers a secure, efficient, and cost-effective training strategy to train a new estimation model for each newly added phone, eliminating the need for manual collection of labeled data. This innovative training strategy can yield a high-performing estimation model for a new phone with just 5 data points, requiring only a few iterations. Meanwhile, by crowdsourcing, our system automatically provides accurate inferred labels for all newly collected data. We also highlight the potential of integrating federated learning into our system to ensure privacy protection at the end of this study. We believe this study has the potential to advance the practical application of phone-based ambient temperature measurement, facilitating energy-saving efforts in buildings.

The Fine Line: Navigating Large Language Model Pretraining with Down-streaming Capability Analysis

Uncovering early-stage metrics that reflect final model performance is one core principle for large-scale pretraining. The existing scaling law demonstrates the power-law correlation between pretraining loss and training flops, which serves as an important indicator of the current training state for large language models. However, this principle only focuses on the model's compression properties on the training data, resulting in an inconsistency with the ability improvements on the downstream tasks. Some follow-up works attempted to extend the scaling-law to more complex metrics (such as hyperparameters), but still lacked a comprehensive analysis of the dynamic differences among various capabilities during pretraining. To address the aforementioned limitations, this paper undertakes a comprehensive comparison of model capabilities at various pretraining intermediate checkpoints. Through this analysis, we confirm that specific downstream metrics exhibit similar training dynamics across models of different sizes, up to 67 billion parameters. In addition to our core findings, we've reproduced Amber and OpenLLaMA, releasing their intermediate checkpoints. This initiative offers valuable resources to the research community and facilitates the verification and exploration of LLM pretraining by open-source researchers. Besides, we provide empirical summaries, including performance comparisons of different models and capabilities, and tuition of key metrics for different training phases. Based on these findings, we provide a more user-friendly strategy for evaluating the optimization state, offering guidance for establishing a stable pretraining process.

Recent Advances, Applications, and Open Challenges in Machine Learning for Health: Reflections from Research Roundtables at ML4H 2023 Symposium

The third ML4H symposium was held in person on December 10, 2023, in New Orleans, Louisiana, USA. The symposium included research roundtable sessions to foster discussions between participants and senior researchers on timely and relevant topics for the \ac{ML4H} community. Encouraged by the successful virtual roundtables in the previous year, we organized eleven in-person roundtables and four virtual roundtables at ML4H 2022. The organization of the research roundtables at the conference involved 17 Senior Chairs and 19 Junior Chairs across 11 tables. Each roundtable session included invited senior chairs (with substantial experience in the field), junior chairs (responsible for facilitating the discussion), and attendees from diverse backgrounds with interest in the session's topic. Herein we detail the organization process and compile takeaways from these roundtable discussions, including recent advances, applications, and open challenges for each topic. We conclude with a summary and lessons learned across all roundtables. This document serves as a comprehensive review paper, summarizing the recent advancements in machine learning for healthcare as contributed by foremost researchers in the field.

TimeXer: Empowering Transformers for Time Series Forecasting with Exogenous Variables

Recent studies have demonstrated remarkable performance in time series forecasting. However, due to the partially-observed nature of real-world applications, solely focusing on the target of interest, so-called endogenous variables, is usually insufficient to guarantee accurate forecasting. Notably, a system is often recorded into multiple variables, where the exogenous series can provide valuable external information for endogenous variables. Thus, unlike prior well-established multivariate or univariate forecasting that either treats all the variables equally or overlooks exogenous information, this paper focuses on a practical setting, which is time series forecasting with exogenous variables. We propose a novel framework, TimeXer, to utilize external information to enhance the forecasting of endogenous variables. With a deftly designed embedding layer, TimeXer empowers the canonical Transformer architecture with the ability to reconcile endogenous and exogenous information, where patch-wise self-attention and variate-wise cross-attention are employed. Moreover, a global endogenous variate token is adopted to effectively bridge the exogenous series into endogenous temporal patches. Experimentally, TimeXer significantly improves time series forecasting with exogenous variables and achieves consistent state-of-the-art performance in twelve real-world forecasting benchmarks.

Tokenization Is More Than Compression

Tokenization is a foundational step in Natural Language Processing (NLP) tasks, bridging raw text and language models. Existing tokenization approaches like Byte-Pair Encoding (BPE) originate from the field of data compression, and it has been suggested that the effectiveness of BPE stems from its ability to condense text into a relatively small number of tokens. We test the hypothesis that fewer tokens lead to better downstream performance by introducing PathPiece, a new tokenizer that segments a document's text into the minimum number of tokens for a given vocabulary. Through extensive experimentation we find this hypothesis not to be the case, casting doubt on the understanding of the reasons for effective tokenization. To examine which other factors play a role, we evaluate design decisions across all three phases of tokenization: pre-tokenization, vocabulary construction, and segmentation, offering new insights into the design of effective tokenizers. Specifically, we illustrate the importance of pre-tokenization and the benefits of using BPE to initialize vocabulary construction. We train 64 language models with varying tokenization, ranging in size from 350M to 2.4B parameters, all of which are made publicly available.

Timer: Transformers for Time Series Analysis at Scale

Deep learning has contributed remarkably to the advancement of time series analysis. Still, deep models can encounter performance bottlenecks in real-world small-sample scenarios, which can be concealed due to the performance saturation with small models on current benchmarks. Meanwhile, large models have demonstrated great powers in these scenarios through large-scale pre-training. Continuous progresses have been achieved as the emergence of large language models, exhibiting unprecedented ability in few-shot generalization, scalability, and task generality, which is however absent in time series models. To change the current practices of training small models on specific datasets from scratch, this paper aims at an early development of large time series models (LTSM). During pre-training, we curate large-scale datasets with up to 1 billion time points, unify heterogeneous time series into single-series sequence (S3) format, and develop the GPT-style architecture toward LTSMs. To meet diverse application needs, we convert forecasting, imputation, and anomaly detection of time series into a unified generative task. The outcome of this study is a Time Series Transformer (Timer), that is pre-trained by autoregressive next token prediction on large multi-domain datasets, and is fine-tuned to downstream scenarios with promising abilities as an LTSM.

A Literature Review on Fetus Brain Motion Correction in MRI

This paper provides a comprehensive review of the latest advancements in fetal motion correction in MRI. We delve into various contemporary methodologies and technological advancements aimed at overcoming these challenges. It includes traditional 3D fetal MRI correction methods like Slice to Volume Registration (SVR), deep learning-based techniques such as Convolutional Neural Networks (CNNs), Long Short-Term Memory (LSTM) Networks, Transformers, Generative Adversarial Networks (GANs) and most recent advancements of Diffusion Models. The insights derived from this literature review reflect a thorough understanding of both the technical intricacies and practical implications of fetal motion in MRI studies, offering a reasoned perspective on potential solutions and future improvements in this field.