Text Processing
Text Knows What, Tables Know When: Clinical Timeline Reconstruction via Retrieval-Augmented Multimodal Alignment
Kumar, Sayantan, Noroozizadeh, Shahriar, Kim, Juyong, Weiss, Jeremy C.
Reconstructing precise clinical timelines is essential for modeling patient trajectories and forecasting risk in complex, heterogeneous conditions like sepsis. While unstructured clinical narratives offer semantically rich and contextually complete descriptions of a patient's course, they often lack temporal precision and contain ambiguous event timing. Conversely, structured electronic health record (EHR) data provides precise temporal anchors but misses a substantial portion of clinically meaningful events. We introduce a retrieval-augmented multimodal alignment framework that bridges this gap to improve the temporal precision of absolute clinical timelines extracted from text. Our approach formulates timeline reconstruction as a graph-based multistep process: it first extracts central anchor events from narratives to build an initial temporal scaffold, places non-central events relative to this backbone, and then calibrates the timeline using retrieved structured EHR rows as external temporal evidence. Evaluated using instruction-tuned large language models on the i2m4 benchmark spanning MIMIC-III and MIMIC-IV, our multimodal pipeline consistently improves absolute timestamp accuracy (AULTC) and improves temporal concordance across nearly all evaluated models over unimodal text-only reconstruction, without compromising event match rates. Furthermore, our empirical gap analysis reveals that 34.8% of text-derived events are entirely absent from tabular records, demonstrating that aligning these modalities can produce a more temporally faithful and clinically informative reconstruction of patient trajectories than either source alone.
Brain encoding models based on multimodal transformers can transfer across language and vision
Encoding models have been used to assess how the human brain represents concepts in language and vision. While language and vision rely on similar concept representations, current encoding models are typically trained and tested on brain responses to each modality in isolation. Recent advances in multimodal pretraining have produced transformers that can extract aligned representations of concepts in language and vision. In this work, we used representations from multimodal transformers to train encoding models that can transfer across fMRI responses to stories and movies. We found that encoding models trained on brain responses to one modality can successfully predict brain responses to the other modality, particularly in cortical regions that represent conceptual meaning. Further analysis of these encoding models revealed shared semantic dimensions that underlie concept representations in language and vision. Comparing encoding models trained using representations from multimodal and unimodal transformers, we found that multimodal transformers learn more aligned representations of concepts in language and vision. Our results demonstrate how multimodal transformers can provide insights into the brain's capacity for multimodal processing.
StoryBench: AMultifaceted Benchmark for Continuous Story Visualization
Generating video stories from text prompts is a complex task. In addition to having high visual quality, videos need to realistically adhere to a sequence of text prompts whilst being consistent throughout the frames. Creating a benchmark for video generation requires data annotated over time, which contrasts with the single caption used often in video datasets. To fill this gap, we collect comprehensive human annotations on three existing datasets, and introduce StoryBench: a new, challenging multi-task benchmark to reliably evaluate forthcoming text-to-video models. Our benchmark includes three video generation tasks of increasing difficulty: action execution, where the next action must be generated starting from a conditioning video; story continuation, where a sequence of actions must be executed starting from a conditioning video; and story generation, where a video must be generated from only text prompts. We evaluate small yet strong text-to-video baselines, and show the benefits of training on story-like data algorithmically generated from existing video captions. Finally, we establish guidelines for human evaluation of video stories, and reaffirm the need of better automatic metrics for video generation. StoryBench aims at encouraging future research efforts in this exciting new area. Work completed during an internship at Google.
RaLEs: a Benchmark for Radiology Language Evaluations
The radiology report is the main form of communication between radiologists and other clinicians. Prior work in natural language processing in radiology reports has shown the value of developing methods tailored for individual tasks such as identifying reports with critical results or disease detection. Meanwhile, English and biomedical natural language understanding benchmarks such as the General Language Understanding and Evaluation as well as Biomedical Language Understanding and Reasoning Benchmark have motivated the development of models that can be easily adapted to address many tasks in those domains. Here, we characterize the radiology report as a distinct domain and introduce RaLEs, the Radiology Language Evaluations, as a benchmark for natural language understanding and generation in radiology. RaLEs is comprised of six natural language understanding and generation evaluations including the extraction of anatomical and disease entities and their relations, procedure selection, and report summarization. We characterize the performance of models designed for the general, biomedical, clinical and radiology domains across these tasks. We find that advances in the general and biomedical domains do not necessarily translate to radiology, and that certain more advanced models from the general domain can perform comparably to smaller clinical-specific models. The limited performance of existing pre-trained models on RaLEs highlights the opportunity to improve domain-specific self-supervised models for natural language processing in radiology. We propose RaLEs as a benchmark to promote and track the development of such domain-specific radiology language models.
Reverse Engineering Self-Supervised Learning
Self-supervised learning (SSL) is a powerful tool in machine learning, but understanding the learned representations and their underlying mechanisms remains a challenge. This paper presents an in-depth empirical analysis of SSL-trained representations, encompassing diverse models, architectures, and hyperparameters. Our study reveals an intriguing aspect of the SSL training process: it inherently facilitates the clustering of samples with respect to semantic labels, which is surprisingly driven by the SSL objective's regularization term. This clustering process not only enhances downstream classification but also compresses the data information. Furthermore, we establish that SSL-trained representations align more closely with semantic classes rather than random classes. Remarkably, we show that learned representations align with semantic classes across various hierarchical levels, and this alignment increases during training and when moving deeper into the network. Our findings provide valuable insights into SSL's representation learning mechanisms and their impact on performance across different sets of classes.