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Dec 12

p-MoD: Building Mixture-of-Depths MLLMs via Progressive Ratio Decay

Despite the remarkable performance of multimodal large language models (MLLMs) across diverse tasks, the substantial training and inference costs impede their advancement. The majority of computation stems from the overwhelming volume of vision tokens processed by the transformer decoder. In this paper, we propose to build efficient MLLMs by leveraging the Mixture-of-Depths (MoD) mechanism, where each transformer decoder layer selects essential vision tokens to process while skipping redundant ones. However, integrating MoD into MLLMs is non-trivial. To address the challenges of training and inference stability as well as limited training data, we adapt the MoD module with two novel designs: tanh-gated weight normalization (TanhNorm) and symmetric token reweighting (STRing). Moreover, we observe that vision tokens exhibit higher redundancy in deeper layer and thus design a progressive ratio decay (PRD) strategy, which gradually reduces the token retention ratio layer by layer, employing a shifted cosine schedule. This crucial design fully unleashes the potential of MoD, significantly boosting the efficiency and performance of our models. To validate the effectiveness of our approach, we conduct extensive experiments with two baseline models across 14 benchmarks. Our model, p-MoD, matches or even surpasses the performance of the baseline models, with only 55.6% TFLOPs and 53.8% KV cache storage during inference, and 77.7% GPU hours during training.

  • 6 authors
·
Dec 5, 2024 2

pLSTM: parallelizable Linear Source Transition Mark networks

Modern recurrent architectures, such as xLSTM and Mamba, have recently challenged the Transformer in language modeling. However, their structure constrains their applicability to sequences only or requires processing multi-dimensional data structures, such as images or molecular graphs, in a pre-defined sequential order. In contrast, Multi-Dimensional RNNs (MDRNNs) are well suited for data with a higher level structure, like 2D grids, trees, and directed acyclic graphs (DAGs). In this work, we extend the notion of multi-dimensionality to linear RNNs. We introduce parallelizable Linear Source Transition Mark networks (pLSTMs) using Source, Transition, and Mark gates that act on the line graph of a general DAG. This enables parallelization in analogy to parallel associative scans and the chunkwise-recurrent form of sequential linear RNNs, but for DAGs. For regular grids (1D and 2D), like images, this scheme can be efficiently implemented using einsum operations, concatenations, and padding in logarithmic time. pLSTMs tackle the vanishing/exploding activation/gradient problem for long distances in DAGs via two distinct modes: a directed propagation mode (P-mode) and a diffusive distribution mode (D-mode). To showcase the long-range capabilities of pLSTM, we introduce arrow-pointing extrapolation as a synthetic computer vision task that contains long-distance directional information. We demonstrate that pLSTMs generalize well to larger image sizes, whereas Transformers struggle to extrapolate. On established molecular graph and computer vision benchmarks, pLSTMs also show strong performance. Code and Datasets are available at: https://github.com/ml-jku/plstm_experiments.

  • 5 authors
·
Jun 13 2

P-Adapters: Robustly Extracting Factual Information from Language Models with Diverse Prompts

Recent work (e.g. LAMA (Petroni et al., 2019)) has found that the quality of the factual information extracted from Large Language Models (LLMs) depends on the prompts used to query them. This inconsistency is problematic because different users will query LLMs for the same information using different wording, but should receive the same, accurate responses regardless. In this work we aim to address this shortcoming by introducing P-Adapters: lightweight models that sit between the embedding layer and first attention layer of LLMs. They take LLM embeddings as input and output continuous prompts that are used to query the LLM. Additionally, we investigate Mixture of Experts (MoE) models that learn a set of continuous prompts ("experts") and select one to query the LLM. They require a separate classifier trained on human-annotated data to map natural language prompts to the continuous ones. P-Adapters perform comparably to the more complex MoE models in extracting factual information from BERT and RoBERTa while eliminating the need for additional annotations. P-Adapters show between 12-26% absolute improvement in precision and 36-50% absolute improvement in consistency over a baseline of only using natural language queries. Finally, we investigate what makes P-Adapters successful and conclude that a significant factor is access to the LLM's embeddings of the original natural language prompt, particularly the subject of the entity pair being queried.

  • 3 authors
·
Oct 14, 2021

$λ$-ECLIPSE: Multi-Concept Personalized Text-to-Image Diffusion Models by Leveraging CLIP Latent Space

Despite the recent advances in personalized text-to-image (P-T2I) generative models, subject-driven T2I remains challenging. The primary bottlenecks include 1) Intensive training resource requirements, 2) Hyper-parameter sensitivity leading to inconsistent outputs, and 3) Balancing the intricacies of novel visual concept and composition alignment. We start by re-iterating the core philosophy of T2I diffusion models to address the above limitations. Predominantly, contemporary subject-driven T2I approaches hinge on Latent Diffusion Models (LDMs), which facilitate T2I mapping through cross-attention layers. While LDMs offer distinct advantages, P-T2I methods' reliance on the latent space of these diffusion models significantly escalates resource demands, leading to inconsistent results and necessitating numerous iterations for a single desired image. Recently, ECLIPSE has demonstrated a more resource-efficient pathway for training UnCLIP-based T2I models, circumventing the need for diffusion text-to-image priors. Building on this, we introduce lambda-ECLIPSE. Our method illustrates that effective P-T2I does not necessarily depend on the latent space of diffusion models. lambda-ECLIPSE achieves single, multi-subject, and edge-guided T2I personalization with just 34M parameters and is trained on a mere 74 GPU hours using 1.6M image-text interleaved data. Through extensive experiments, we also establish that lambda-ECLIPSE surpasses existing baselines in composition alignment while preserving concept alignment performance, even with significantly lower resource utilization.

  • 4 authors
·
Feb 7, 2024 3

Transforming Engineering Diagrams: A Novel Approach for P&ID Digitization using Transformers

The digitization of complex technical systems, such as Piping and Instrumentation Diagrams (P&IDs), is crucial for efficient maintenance and operation of complex systems in hydraulic and process engineering. Previous approaches often rely on separate modules that analyze diagram elements individually, neglecting the diagram's overall structure. We address this limitation by proposing a novel approach that utilizes the Relationformer, a state-of-the-art deep learning architecture, to extract graphs from P&IDs. Our method leverages the ability of the Relationformer to simultaneously detect objects and their relationships in images, making it suitable for the task of graph extraction from engineering diagrams. We apply our proposed approach to both real-world and synthetically created P&ID datasets, and evaluate its effectiveness by comparing it with a modular digitization approach based on recent literature. We present PID2Graph, the first publicly accessible P&ID dataset featuring comprehensive labels for the graph structure, including symbols, nodes and their connections that is used for evaluation. To understand the effect of patching and stitching of both of the approaches, we compare values before and after merging the patches. For the real-world data, the Relationformer achieves convincing results, outperforming the modular digitization approach for edge detection by more than 25%. Our work provides a comprehensive framework for assessing the performance of P&ID digitization methods and opens up new avenues for research in this area using transformer architectures. The P&ID dataset used for evaluation will be published and publicly available upon acceptance of the paper.

  • 3 authors
·
Nov 21, 2024

Can Knowledge Graphs Make Large Language Models More Trustworthy? An Empirical Study Over Open-ended Question Answering

Recent works integrating Knowledge Graphs (KGs) have led to promising improvements in enhancing the reasoning accuracy of Large Language Models (LLMs). However, current benchmarks focus mainly on closed-ended tasks, leaving a gap in the assessment of more complex real-world scenarios. This gap has also obscured the evaluation of KGs' potential to mitigate the problem of hallucination in LLMs. To fill the gap, we introduce OKGQA, a new benchmark specifically designed to assess LLMs enhanced with KGs under open-ended, real-world question answering scenarios. OKGQA is designed to closely reflect the complexities of practical applications using questions from different types, and incorporates specific metrics to measure both hallucination ratio and the enhancement in reasoning capabilities. To consider the scenario in which KGs may have varying levels of mistakes, we propose another benchmark variant OKGQA-P to assess model performance when the semantics and structure of KGs are deliberately perturbed and contaminated. OKGQA aims to (1) explore whether KGs can make LLMs more trustworthy in an open-ended setting, and (2) conduct a comparative analysis to shed light on method design. We believe that this study can facilitate a more complete performance comparison and encourage continuous improvement in integrating KGs with LLMs to reduce hallucination.

  • 4 authors
·
Oct 10, 2024

P-Aligner: Enabling Pre-Alignment of Language Models via Principled Instruction Synthesis

Large Language Models (LLMs) are expected to produce safe, helpful, and honest content during interaction with human users, but they frequently fail to align with such values when given flawed instructions, e.g., missing context, ambiguous directives, or inappropriate tone, leaving substantial room for improvement along multiple dimensions. A cost-effective yet high-impact way is to pre-align instructions before the model begins decoding. Existing approaches either rely on prohibitive test-time search costs or end-to-end model rewrite, which is powered by a customized training corpus with unclear objectives. In this work, we demonstrate that the goal of efficient and effective preference alignment can be achieved by P-Aligner, a lightweight module generating instructions that preserve the original intents while being expressed in a more human-preferred form. P-Aligner is trained on UltraPrompt, a new dataset synthesized via a proposed principle-guided pipeline using Monte-Carlo Tree Search, which systematically explores the space of candidate instructions that are closely tied to human preference. Experiments across different methods show that P-Aligner generally outperforms strong baselines across various models and benchmarks, including average win-rate gains of 28.35% and 8.69% on GPT-4-turbo and Gemma-2-SimPO, respectively. Further analyses validate its effectiveness and efficiency through multiple perspectives, including data quality, search strategies, iterative deployment, and time overhead.

  • 9 authors
·
Aug 6

p-Laplacian Adaptation for Generative Pre-trained Vision-Language Models

Vision-Language models (VLMs) pre-trained on large corpora have demonstrated notable success across a range of downstream tasks. In light of the rapidly increasing size of pre-trained VLMs, parameter-efficient transfer learning (PETL) has garnered attention as a viable alternative to full fine-tuning. One such approach is the adapter, which introduces a few trainable parameters into the pre-trained models while preserving the original parameters during adaptation. In this paper, we present a novel modeling framework that recasts adapter tuning after attention as a graph message passing process on attention graphs, where the projected query and value features and attention matrix constitute the node features and the graph adjacency matrix, respectively. Within this framework, tuning adapters in VLMs necessitates handling heterophilic graphs, owing to the disparity between the projected query and value space. To address this challenge, we propose a new adapter architecture, p-adapter, which employs p-Laplacian message passing in Graph Neural Networks (GNNs). Specifically, the attention weights are re-normalized based on the features, and the features are then aggregated using the calibrated attention matrix, enabling the dynamic exploitation of information with varying frequencies in the heterophilic attention graphs. We conduct extensive experiments on different pre-trained VLMs and multi-modal tasks, including visual question answering, visual entailment, and image captioning. The experimental results validate our method's significant superiority over other PETL methods.

  • 6 authors
·
Dec 17, 2023

LLM+P: Empowering Large Language Models with Optimal Planning Proficiency

Large language models (LLMs) have demonstrated remarkable zero-shot generalization abilities: state-of-the-art chatbots can provide plausible answers to many common questions that arise in daily life. However, so far, LLMs cannot reliably solve long-horizon planning problems. By contrast, classical planners, once a problem is given in a formatted way, can use efficient search algorithms to quickly identify correct, or even optimal, plans. In an effort to get the best of both worlds, this paper introduces LLM+P, the first framework that incorporates the strengths of classical planners into LLMs. LLM+P takes in a natural language description of a planning problem, then returns a correct (or optimal) plan for solving that problem in natural language. LLM+P does so by first converting the language description into a file written in the planning domain definition language (PDDL), then leveraging classical planners to quickly find a solution, and then translating the found solution back into natural language. Along with LLM+P, we define a diverse set of different benchmark problems taken from common planning scenarios. Via a comprehensive set of experiments on these benchmark problems, we find that LLM+P is able to provide optimal solutions for most problems, while LLMs fail to provide even feasible plans for most problems.\footnote{The code and results are publicly available at https://github.com/Cranial-XIX/llm-pddl.git.

  • 7 authors
·
Apr 22, 2023 2

Forecasting S&P 500 Using LSTM Models

With the volatile and complex nature of financial data influenced by external factors, forecasting the stock market is challenging. Traditional models such as ARIMA and GARCH perform well with linear data but struggle with non-linear dependencies. Machine learning and deep learning models, particularly Long Short-Term Memory (LSTM) networks, address these challenges by capturing intricate patterns and long-term dependencies. This report compares ARIMA and LSTM models in predicting the S&P 500 index, a major financial benchmark. Using historical price data and technical indicators, we evaluated these models using Mean Absolute Error (MAE) and Root Mean Squared Error (RMSE). The ARIMA model showed reasonable performance with an MAE of 462.1, RMSE of 614, and 89.8 percent accuracy, effectively capturing short-term trends but limited by its linear assumptions. The LSTM model, leveraging sequential processing capabilities, outperformed ARIMA with an MAE of 369.32, RMSE of 412.84, and 92.46 percent accuracy, capturing both short- and long-term dependencies. Notably, the LSTM model without additional features performed best, achieving an MAE of 175.9, RMSE of 207.34, and 96.41 percent accuracy, showcasing its ability to handle market data efficiently. Accurately predicting stock movements is crucial for investment strategies, risk assessments, and market stability. Our findings confirm the potential of deep learning models in handling volatile financial data compared to traditional ones. The results highlight the effectiveness of LSTM and suggest avenues for further improvements. This study provides insights into financial forecasting, offering a comparative analysis of ARIMA and LSTM while outlining their strengths and limitations.

  • 2 authors
·
Jan 28

The Limited Impact of Medical Adaptation of Large Language and Vision-Language Models

Several recent works seek to develop foundation models specifically for medical applications, adapting general-purpose large language models (LLMs) and vision-language models (VLMs) via continued pretraining on publicly available biomedical corpora. These works typically claim that such domain-adaptive pretraining (DAPT) improves performance on downstream medical tasks, such as answering medical licensing exam questions. In this paper, we compare ten public "medical" LLMs and two VLMs against their corresponding base models, arriving at a different conclusion: all medical VLMs and nearly all medical LLMs fail to consistently improve over their base models in the zero-/few-shot prompting and supervised fine-tuning regimes for medical question-answering (QA). For instance, across all tasks and model pairs we consider in the 3-shot setting, medical LLMs only outperform their base models in 22.7% of cases, reach a (statistical) tie in 36.8% of cases, and are significantly worse than their base models in the remaining 40.5% of cases. Our conclusions are based on (i) comparing each medical model head-to-head, directly against the corresponding base model; (ii) optimizing the prompts for each model separately in zero-/few-shot prompting; and (iii) accounting for statistical uncertainty in comparisons. While these basic practices are not consistently adopted in the literature, our ablations show that they substantially impact conclusions. Meanwhile, we find that after fine-tuning on specific QA tasks, medical LLMs can show performance improvements, but the benefits do not carry over to tasks based on clinical notes. Our findings suggest that state-of-the-art general-domain models may already exhibit strong medical knowledge and reasoning capabilities, and offer recommendations to strengthen the conclusions of future studies.

  • 5 authors
·
Nov 13, 2024

Medical Adaptation of Large Language and Vision-Language Models: Are We Making Progress?

Several recent works seek to develop foundation models specifically for medical applications, adapting general-purpose large language models (LLMs) and vision-language models (VLMs) via continued pretraining on publicly available biomedical corpora. These works typically claim that such domain-adaptive pretraining (DAPT) improves performance on downstream medical tasks, such as answering medical licensing exam questions. In this paper, we compare seven public "medical" LLMs and two VLMs against their corresponding base models, arriving at a different conclusion: all medical VLMs and nearly all medical LLMs fail to consistently improve over their base models in the zero-/few-shot prompting regime for medical question-answering (QA) tasks. For instance, across the tasks and model pairs we consider in the 3-shot setting, medical LLMs only outperform their base models in 12.1% of cases, reach a (statistical) tie in 49.8% of cases, and are significantly worse than their base models in the remaining 38.2% of cases. Our conclusions are based on (i) comparing each medical model head-to-head, directly against the corresponding base model; (ii) optimizing the prompts for each model separately; and (iii) accounting for statistical uncertainty in comparisons. While these basic practices are not consistently adopted in the literature, our ablations show that they substantially impact conclusions. Our findings suggest that state-of-the-art general-domain models may already exhibit strong medical knowledge and reasoning capabilities, and offer recommendations to strengthen the conclusions of future studies.

  • 4 authors
·
Nov 6, 2024

Synthetic Light Curves and Spectra for the Photospheric Phase of a 3D Stripped-Envelope Supernova Explosion Model

We present synthetic light curves and spectra from three-dimensional (3D) Monte Carlo radiative transfer simulations based on a 3D core-collapse supernova explosion model of an ultra-stripped 3.5,M_{odot} progenitor. Our calculations predict a fast and faint transient with Delta m_{15} sim 1- 2,mag and peak bolometric luminosity between -15.3,mag and -16.4,mag. Due to a large-scale unipolar asymmetry in the distribution of ^{56}Ni, there is a pronounced viewing-angle dependence with about 1,mag difference between the directions of highest and lowest luminosity. The predicted spectra for this rare class of explosions do not yet match any observed counterpart. They are dominated by prominent Mg~II lines, but features from O, C, Si, and Ca are also found. In particular, the O~I line at 7{774} appears as a blended feature together with Mg~II emission. Our model is not only faster and fainter than the observed Ib/c supernova population, but also shows a correlation between higher peak luminosity and larger Delta m_{15} that is not present in observational samples. A possible explanation is that the unusually small ejecta mass of our model accentuates the viewing-angle dependence of the photometry. We suggest that the viewing-angle dependence of the photometry may be used to constrain asymmetries in explosion models of more typical stripped-envelope supernova progenitors in future.

  • 5 authors
·
Oct 28, 2024

Generative agent-based modeling with actions grounded in physical, social, or digital space using Concordia

Agent-based modeling has been around for decades, and applied widely across the social and natural sciences. The scope of this research method is now poised to grow dramatically as it absorbs the new affordances provided by Large Language Models (LLM)s. Generative Agent-Based Models (GABM) are not just classic Agent-Based Models (ABM)s where the agents talk to one another. Rather, GABMs are constructed using an LLM to apply common sense to situations, act "reasonably", recall common semantic knowledge, produce API calls to control digital technologies like apps, and communicate both within the simulation and to researchers viewing it from the outside. Here we present Concordia, a library to facilitate constructing and working with GABMs. Concordia makes it easy to construct language-mediated simulations of physically- or digitally-grounded environments. Concordia agents produce their behavior using a flexible component system which mediates between two fundamental operations: LLM calls and associative memory retrieval. A special agent called the Game Master (GM), which was inspired by tabletop role-playing games, is responsible for simulating the environment where the agents interact. Agents take actions by describing what they want to do in natural language. The GM then translates their actions into appropriate implementations. In a simulated physical world, the GM checks the physical plausibility of agent actions and describes their effects. In digital environments simulating technologies such as apps and services, the GM may handle API calls to integrate with external tools such as general AI assistants (e.g., Bard, ChatGPT), and digital apps (e.g., Calendar, Email, Search, etc.). Concordia was designed to support a wide array of applications both in scientific research and for evaluating performance of real digital services by simulating users and/or generating synthetic data.

  • 10 authors
·
Dec 6, 2023

Extracting Accurate Materials Data from Research Papers with Conversational Language Models and Prompt Engineering

There has been a growing effort to replace hand extraction of data from research papers with automated data extraction based on natural language processing, language models, and recently, large language models (LLMs). Although these methods enable efficient extraction of data from large sets of research papers, they require a significant amount of up-front effort, expertise, and coding. In this work we propose the ChatExtract method that can fully automate very accurate data extraction with minimal initial effort and background, using an advanced conversational LLM. ChatExtract consists of a set of engineered prompts applied to a conversational LLM that both identify sentences with data, extract that data, and assure the data's correctness through a series of follow-up questions. These follow-up questions largely overcome known issues with LLMs providing factually inaccurate responses. ChatExtract can be applied with any conversational LLMs and yields very high quality data extraction. In tests on materials data we find precision and recall both close to 90% from the best conversational LLMs, like ChatGPT-4. We demonstrate that the exceptional performance is enabled by the information retention in a conversational model combined with purposeful redundancy and introducing uncertainty through follow-up prompts. These results suggest that approaches similar to ChatExtract, due to their simplicity, transferability, and accuracy are likely to become powerful tools for data extraction in the near future. Finally, databases for critical cooling rates of metallic glasses and yield strengths of high entropy alloys are developed using ChatExtract.

  • 2 authors
·
Mar 7, 2023

EIDT-V: Exploiting Intersections in Diffusion Trajectories for Model-Agnostic, Zero-Shot, Training-Free Text-to-Video Generation

Zero-shot, training-free, image-based text-to-video generation is an emerging area that aims to generate videos using existing image-based diffusion models. Current methods in this space require specific architectural changes to image generation models, which limit their adaptability and scalability. In contrast to such methods, we provide a model-agnostic approach. We use intersections in diffusion trajectories, working only with the latent values. We could not obtain localized frame-wise coherence and diversity using only the intersection of trajectories. Thus, we instead use a grid-based approach. An in-context trained LLM is used to generate coherent frame-wise prompts; another is used to identify differences between frames. Based on these, we obtain a CLIP-based attention mask that controls the timing of switching the prompts for each grid cell. Earlier switching results in higher variance, while later switching results in more coherence. Therefore, our approach can ensure appropriate control between coherence and variance for the frames. Our approach results in state-of-the-art performance while being more flexible when working with diverse image-generation models. The empirical analysis using quantitative metrics and user studies confirms our model's superior temporal consistency, visual fidelity and user satisfaction, thus providing a novel way to obtain training-free, image-based text-to-video generation.

  • 3 authors
·
Apr 9

Adapting Pre-Trained Vision Models for Novel Instance Detection and Segmentation

Novel Instance Detection and Segmentation (NIDS) aims at detecting and segmenting novel object instances given a few examples of each instance. We propose a unified, simple, yet effective framework (NIDS-Net) comprising object proposal generation, embedding creation for both instance templates and proposal regions, and embedding matching for instance label assignment. Leveraging recent advancements in large vision methods, we utilize Grounding DINO and Segment Anything Model (SAM) to obtain object proposals with accurate bounding boxes and masks. Central to our approach is the generation of high-quality instance embeddings. We utilized foreground feature averages of patch embeddings from the DINOv2 ViT backbone, followed by refinement through a weight adapter mechanism that we introduce. We show experimentally that our weight adapter can adjust the embeddings locally within their feature space and effectively limit overfitting in the few-shot setting. Furthermore, the weight adapter optimizes weights to enhance the distinctiveness of instance embeddings during similarity computation. This methodology enables a straightforward matching strategy that results in significant performance gains. Our framework surpasses current state-of-the-art methods, demonstrating notable improvements in four detection datasets. In the segmentation tasks on seven core datasets of the BOP challenge, our method outperforms the leading published RGB methods and remains competitive with the best RGB-D method. We have also verified our method using real-world images from a Fetch robot and a RealSense camera. Project Page: https://irvlutd.github.io/NIDSNet/

  • 5 authors
·
May 28, 2024

Bio-inspired computational memory model of the Hippocampus: an approach to a neuromorphic spike-based Content-Addressable Memory

The brain has computational capabilities that surpass those of modern systems, being able to solve complex problems efficiently in a simple way. Neuromorphic engineering aims to mimic biology in order to develop new systems capable of incorporating such capabilities. Bio-inspired learning systems continue to be a challenge that must be solved, and much work needs to be done in this regard. Among all brain regions, the hippocampus stands out as an autoassociative short-term memory with the capacity to learn and recall memories from any fragment of them. These characteristics make the hippocampus an ideal candidate for developing bio-inspired learning systems that, in addition, resemble content-addressable memories. Therefore, in this work we propose a bio-inspired spiking content-addressable memory model based on the CA3 region of the hippocampus with the ability to learn, forget and recall memories, both orthogonal and non-orthogonal, from any fragment of them. The model was implemented on the SpiNNaker hardware platform using Spiking Neural Networks. A set of experiments based on functional, stress and applicability tests were performed to demonstrate its correct functioning. This work presents the first hardware implementation of a fully-functional bio-inspired spiking hippocampal content-addressable memory model, paving the way for the development of future more complex neuromorphic systems.

  • 5 authors
·
Oct 9, 2023

Large-Scale Multi-omic Biosequence Transformers for Modeling Peptide-Nucleotide Interactions

The transformer architecture has revolutionized bioinformatics and driven progress in the understanding and prediction of the properties of biomolecules. Almost all research on large-scale biosequence transformers has focused on one domain at a time (single-omic), usually nucleotides or peptides. These models have seen incredible success in downstream tasks in each domain and have achieved particularly noteworthy breakthroughs in sequences of peptides and structural modeling. However, these single-omic models are naturally incapable of modeling multi-omic tasks, one of the most biologically critical being nucleotide-peptide interactions. We present our work training the first multi-omic nucleotide-peptide foundation models. We show that these multi-omic models (MOMs) can learn joint representations between various single-omic distributions that are emergently consistent with the Central Dogma of molecular biology, despite only being trained on unlabeled biosequences. We further demonstrate that MOMs can be fine-tuned to achieve state-of-the-art results on peptide-nucleotide interaction tasks, namely predicting the change in Gibbs free energy ({\Delta}G) of the binding interaction between a given oligonucleotide and peptide, as well as the effect on this binding interaction due to mutations in the oligonucleotide sequence ({\Delta}{\Delta}G). Remarkably, we show that multi-omic biosequence transformers emergently learn useful structural information without any prior structural training, allowing us to predict which peptide residues are most involved in the peptide-nucleotide binding interaction. Lastly, we provide evidence that multi-omic biosequence models are non-inferior to foundation models trained on single-omics distributions, suggesting a more generalized or foundational approach to building these models.

  • 5 authors
·
Aug 28, 2024 1

Granite Embedding R2 Models

We introduce the Granite Embedding R2 models, a comprehensive family of high-performance English encoder-based embedding models engineered for enterprise-scale dense retrieval applications. Building upon our first-generation release, these models deliver substantial improvements, including 16x expanded context length (8,192 tokens), state-of-the-art performance across diverse retrieval domains - text, code, long-document search, multi-turn conversational, and tabular data - and measurable speed advantages of 19-44\% over leading competitors while maintaining superior accuracy. Our release encompasses both bi-encoder and cross-encoder architectures, featuring a highly effective 22-layer retriever model and its efficient 12-layer counterpart, alongside a high-quality reranker model, all trained exclusively on enterprise-appropriate data with comprehensive governance oversight. The models demonstrate exceptional versatility across standard benchmarks, IBM-developed evaluation suites, and real-world enterprise use cases, establishing new performance standards for open-source embedding models. In an era where retrieval speed and accuracy are paramount for competitive advantage, the Granite R2 models deliver a compelling combination of cutting-edge performance, enterprise-ready licensing, and transparent data provenance that organizations require for mission-critical deployments. All models are publicly available under the Apache 2.0 license at https://huggingface.co/collections/ibm-granite, enabling unrestricted research and commercial use.

  • 20 authors
·
Aug 26

Scaling up self-supervised learning for improved surgical foundation models

Foundation models have revolutionized computer vision by achieving vastly superior performance across diverse tasks through large-scale pretraining on extensive datasets. However, their application in surgical computer vision has been limited. This study addresses this gap by introducing SurgeNetXL, a novel surgical foundation model that sets a new benchmark in surgical computer vision. Trained on the largest reported surgical dataset to date, comprising over 4.7 million video frames, SurgeNetXL achieves consistent top-tier performance across six datasets spanning four surgical procedures and three tasks, including semantic segmentation, phase recognition, and critical view of safety (CVS) classification. Compared with the best-performing surgical foundation models, SurgeNetXL shows mean improvements of 2.4, 9.0, and 12.6 percent for semantic segmentation, phase recognition, and CVS classification, respectively. Additionally, SurgeNetXL outperforms the best-performing ImageNet-based variants by 14.4, 4.0, and 1.6 percent in the respective tasks. In addition to advancing model performance, this study provides key insights into scaling pretraining datasets, extending training durations, and optimizing model architectures specifically for surgical computer vision. These findings pave the way for improved generalizability and robustness in data-scarce scenarios, offering a comprehensive framework for future research in this domain. All models and a subset of the SurgeNetXL dataset, including over 2 million video frames, are publicly available at: https://github.com/TimJaspers0801/SurgeNet.

  • 15 authors
·
Jan 16

Exploring Multimodal Large Language Models for Radiology Report Error-checking

This paper proposes one of the first clinical applications of multimodal large language models (LLMs) as an assistant for radiologists to check errors in their reports. We created an evaluation dataset from two real-world radiology datasets (MIMIC-CXR and IU-Xray), with 1,000 subsampled reports each. A subset of original reports was modified to contain synthetic errors by introducing various type of mistakes. The evaluation contained two difficulty levels: SIMPLE for binary error-checking and COMPLEX for identifying error types. LLaVA (Large Language and Visual Assistant) variant models, including our instruction-tuned model, were used for the evaluation. Additionally, a domain expert evaluation was conducted on a small test set. At the SIMPLE level, the LLaVA v1.5 model outperformed other publicly available models. Instruction tuning significantly enhanced performance by 47.4% and 25.4% on MIMIC-CXR and IU-Xray data, respectively. The model also surpassed the domain experts accuracy in the MIMIC-CXR dataset by 1.67%. Notably, among the subsets (N=21) of the test set where a clinician did not achieve the correct conclusion, the LLaVA ensemble mode correctly identified 71.4% of these cases. This study marks a promising step toward utilizing multi-modal LLMs to enhance diagnostic accuracy in radiology. The ensemble model demonstrated comparable performance to clinicians, even capturing errors overlooked by humans. Nevertheless, future work is needed to improve the model ability to identify the types of inconsistency.

  • 10 authors
·
Dec 20, 2023

A Model Generalization Study in Localizing Indoor Cows with COw LOcalization (COLO) dataset

Precision livestock farming (PLF) increasingly relies on advanced object localization techniques to monitor livestock health and optimize resource management. This study investigates the generalization capabilities of YOLOv8 and YOLOv9 models for cow detection in indoor free-stall barn settings, focusing on varying training data characteristics such as view angles and lighting, and model complexities. Leveraging the newly released public dataset, COws LOcalization (COLO) dataset, we explore three key hypotheses: (1) Model generalization is equally influenced by changes in lighting conditions and camera angles; (2) Higher model complexity guarantees better generalization performance; (3) Fine-tuning with custom initial weights trained on relevant tasks always brings advantages to detection tasks. Our findings reveal considerable challenges in detecting cows in images taken from side views and underscore the importance of including diverse camera angles in building a detection model. Furthermore, our results emphasize that higher model complexity does not necessarily lead to better performance. The optimal model configuration heavily depends on the specific task and dataset. Lastly, while fine-tuning with custom initial weights trained on relevant tasks offers advantages to detection tasks, simpler models do not benefit similarly from this approach. It is more efficient to train a simple model with pre-trained weights without relying on prior relevant information, which can require intensive labor efforts. Future work should focus on adaptive methods and advanced data augmentation to improve generalization and robustness. This study provides practical guidelines for PLF researchers on deploying computer vision models from existing studies, highlights generalization issues, and contributes the COLO dataset containing 1254 images and 11818 cow instances for further research.

  • 3 authors
·
Jul 29, 2024

Specialist vision-language models for clinical ophthalmology

Clinicians spend a significant amount of time reviewing medical images and transcribing their findings regarding patient diagnosis, referral and treatment in text form. Vision-language models (VLMs), which automatically interpret images and summarize their findings as text, have enormous potential to alleviate clinical workloads and increase patient access to high-quality medical care. While foundational models have stirred considerable interest in the medical community, it is unclear whether their general capabilities translate to real-world clinical utility. In this work, we show that foundation VLMs markedly underperform compared to practicing ophthalmologists on specialist tasks crucial to the care of patients with age-related macular degeneration (AMD). To address this, we initially identified the essential capabilities required for image-based clinical decision-making, and then developed a curriculum to selectively train VLMs in these skills. The resulting model, RetinaVLM, can be instructed to write reports that significantly outperform those written by leading foundation medical VLMs in disease staging (F1 score of 0.63 vs. 0.11) and patient referral (0.67 vs. 0.39), and approaches the diagnostic performance of junior ophthalmologists (who achieve 0.77 and 0.78 on the respective tasks). Furthermore, in a reader study involving two senior ophthalmologists with up to 32 years of experience, RetinaVLM's reports were found to be similarly correct (78.6% vs. 82.1%) and complete (both 78.6%) as reports written by junior ophthalmologists with up to 10 years of experience. These results demonstrate that our curriculum-based approach provides a blueprint for specializing generalist foundation medical VLMs to handle real-world clinical tasks.

  • 16 authors
·
Jul 11, 2024

Generative Marginalization Models

We introduce marginalization models (MaMs), a new family of generative models for high-dimensional discrete data. They offer scalable and flexible generative modeling with tractable likelihoods by explicitly modeling all induced marginal distributions. Marginalization models enable fast evaluation of arbitrary marginal probabilities with a single forward pass of the neural network, which overcomes a major limitation of methods with exact marginal inference, such as autoregressive models (ARMs). We propose scalable methods for learning the marginals, grounded in the concept of "marginalization self-consistency". Unlike previous methods, MaMs support scalable training of any-order generative models for high-dimensional problems under the setting of energy-based training, where the goal is to match the learned distribution to a given desired probability (specified by an unnormalized (log) probability function such as energy function or reward function). We demonstrate the effectiveness of the proposed model on a variety of discrete data distributions, including binary images, language, physical systems, and molecules, for maximum likelihood and energy-based training settings. MaMs achieve orders of magnitude speedup in evaluating the marginal probabilities on both settings. For energy-based training tasks, MaMs enable any-order generative modeling of high-dimensional problems beyond the capability of previous methods. Code is at https://github.com/PrincetonLIPS/MaM.

  • 3 authors
·
Oct 19, 2023

Less is More: Reducing Task and Model Complexity for 3D Point Cloud Semantic Segmentation

Whilst the availability of 3D LiDAR point cloud data has significantly grown in recent years, annotation remains expensive and time-consuming, leading to a demand for semi-supervised semantic segmentation methods with application domains such as autonomous driving. Existing work very often employs relatively large segmentation backbone networks to improve segmentation accuracy, at the expense of computational costs. In addition, many use uniform sampling to reduce ground truth data requirements for learning needed, often resulting in sub-optimal performance. To address these issues, we propose a new pipeline that employs a smaller architecture, requiring fewer ground-truth annotations to achieve superior segmentation accuracy compared to contemporary approaches. This is facilitated via a novel Sparse Depthwise Separable Convolution module that significantly reduces the network parameter count while retaining overall task performance. To effectively sub-sample our training data, we propose a new Spatio-Temporal Redundant Frame Downsampling (ST-RFD) method that leverages knowledge of sensor motion within the environment to extract a more diverse subset of training data frame samples. To leverage the use of limited annotated data samples, we further propose a soft pseudo-label method informed by LiDAR reflectivity. Our method outperforms contemporary semi-supervised work in terms of mIoU, using less labeled data, on the SemanticKITTI (59.5@5%) and ScribbleKITTI (58.1@5%) benchmark datasets, based on a 2.3x reduction in model parameters and 641x fewer multiply-add operations whilst also demonstrating significant performance improvement on limited training data (i.e., Less is More).

  • 3 authors
·
Mar 20, 2023

LQ-LoRA: Low-rank Plus Quantized Matrix Decomposition for Efficient Language Model Finetuning

We propose a simple approach for memory-efficient adaptation of pretrained language models. Our approach uses an iterative algorithm to decompose each pretrained matrix into a high-precision low-rank component and a memory-efficient quantized component. During finetuning, the quantized component remains fixed and only the low-rank component is updated. We present an integer linear programming formulation of the quantization component which enables dynamic configuration of quantization parameters (e.g., bit-width, block size) for each matrix given an overall target memory budget. We further explore a data-aware version of the algorithm which uses an approximation of the Fisher information matrix to weight the reconstruction objective during matrix decomposition. Experiments on adapting RoBERTa and LLaMA-2 (7B and 70B) demonstrate that our low-rank plus quantized matrix decomposition approach (LQ-LoRA) outperforms strong QLoRA and GPTQ-LoRA baselines and moreover enables more aggressive quantization. For example, on the OpenAssistant benchmark LQ-LoRA is able to learn a 2.5-bit LLaMA-2 model that is competitive with a model finetuned with 4-bit QLoRA. When finetuned on a language modeling calibration dataset, LQ-LoRA can also be used for model compression; in this setting our 2.75-bit LLaMA-2-70B model (which has 2.85 bits on average when including the low-rank components and requires 27GB of GPU memory) is competitive with the original model in full precision.

  • 4 authors
·
Nov 20, 2023

RoentGen: Vision-Language Foundation Model for Chest X-ray Generation

Multimodal models trained on large natural image-text pair datasets have exhibited astounding abilities in generating high-quality images. Medical imaging data is fundamentally different to natural images, and the language used to succinctly capture relevant details in medical data uses a different, narrow but semantically rich, domain-specific vocabulary. Not surprisingly, multi-modal models trained on natural image-text pairs do not tend to generalize well to the medical domain. Developing generative imaging models faithfully representing medical concepts while providing compositional diversity could mitigate the existing paucity of high-quality, annotated medical imaging datasets. In this work, we develop a strategy to overcome the large natural-medical distributional shift by adapting a pre-trained latent diffusion model on a corpus of publicly available chest x-rays (CXR) and their corresponding radiology (text) reports. We investigate the model's ability to generate high-fidelity, diverse synthetic CXR conditioned on text prompts. We assess the model outputs quantitatively using image quality metrics, and evaluate image quality and text-image alignment by human domain experts. We present evidence that the resulting model (RoentGen) is able to create visually convincing, diverse synthetic CXR images, and that the output can be controlled to a new extent by using free-form text prompts including radiology-specific language. Fine-tuning this model on a fixed training set and using it as a data augmentation method, we measure a 5% improvement of a classifier trained jointly on synthetic and real images, and a 3% improvement when trained on a larger but purely synthetic training set. Finally, we observe that this fine-tuning distills in-domain knowledge in the text-encoder and can improve its representation capabilities of certain diseases like pneumothorax by 25%.

  • 10 authors
·
Nov 23, 2022

Score-Based Generative Modeling through Stochastic Differential Equations

Creating noise from data is easy; creating data from noise is generative modeling. We present a stochastic differential equation (SDE) that smoothly transforms a complex data distribution to a known prior distribution by slowly injecting noise, and a corresponding reverse-time SDE that transforms the prior distribution back into the data distribution by slowly removing the noise. Crucially, the reverse-time SDE depends only on the time-dependent gradient field (\aka, score) of the perturbed data distribution. By leveraging advances in score-based generative modeling, we can accurately estimate these scores with neural networks, and use numerical SDE solvers to generate samples. We show that this framework encapsulates previous approaches in score-based generative modeling and diffusion probabilistic modeling, allowing for new sampling procedures and new modeling capabilities. In particular, we introduce a predictor-corrector framework to correct errors in the evolution of the discretized reverse-time SDE. We also derive an equivalent neural ODE that samples from the same distribution as the SDE, but additionally enables exact likelihood computation, and improved sampling efficiency. In addition, we provide a new way to solve inverse problems with score-based models, as demonstrated with experiments on class-conditional generation, image inpainting, and colorization. Combined with multiple architectural improvements, we achieve record-breaking performance for unconditional image generation on CIFAR-10 with an Inception score of 9.89 and FID of 2.20, a competitive likelihood of 2.99 bits/dim, and demonstrate high fidelity generation of 1024 x 1024 images for the first time from a score-based generative model.

  • 6 authors
·
Nov 26, 2020

Diffusion Sequence Models for Enhanced Protein Representation and Generation

Proteins are fundamental to biology, executing diverse functions through complex physicochemical interactions, and they hold transformative potential across medicine, materials science, and environmental applications. Protein Language Models (pLMs) aim to unlock insights from the vast space of unlabeled protein sequences by learning rich, semantic representations from primary sequences via masked language modeling. However, these models typically exhibit limited generative capacity. In this work, we introduce the Diffusion Sequence Model (DSM), a novel pLM trained with masked diffusion to enable both high-quality representation learning and generative protein design. DSM builds upon the ESM2 architecture by incorporating a masked forward diffusion process inspired by the LLaDA framework. After training, DSM is capable of generating diverse, biomimetic sequences that align with expected amino acid compositions, secondary structures, and predicted functions, even with 90\% token corruption. Furthermore, DSM's learned representations match or exceed those of similarly sized pLMs on downstream tasks. We also introduce DSM(ppi), a variant fine-tuned to generate protein binders by attending to target sequences. We demonstrate DSM(ppi)'s effectiveness on the challenging Bench-tested Binder Benchmark (BenchBB), where both DSM and DSM(ppi) produce candidates with superior predicted binding affinity compared to known binders. Our results establish masked diffusion as a powerful paradigm for unifying protein representation and generation in a single framework.

  • 4 authors
·
Jun 9

Transformers to SSMs: Distilling Quadratic Knowledge to Subquadratic Models

Transformer architectures have become a dominant paradigm for domains like language modeling but suffer in many inference settings due to their quadratic-time self-attention. Recently proposed subquadratic architectures, such as Mamba, have shown promise, but have been pretrained with substantially less computational resources than the strongest Transformer models. In this work, we present a method that is able to distill a pretrained Transformer architecture into alternative architectures such as state space models (SSMs). The key idea to our approach is that we can view both Transformers and SSMs as applying different forms of mixing matrices over the token sequences. We can thus progressively distill the Transformer architecture by matching different degrees of granularity in the SSM: first matching the mixing matrices themselves, then the hidden units at each block, and finally the end-to-end predictions. Our method, called MOHAWK, is able to distill a Mamba-2 variant based on the Phi-1.5 architecture (Phi-Mamba) using only 3B tokens and a hybrid version (Hybrid Phi-Mamba) using 5B tokens. Despite using less than 1% of the training data typically used to train models from scratch, Phi-Mamba boasts substantially stronger performance compared to all past open-source non-Transformer models. MOHAWK allows models like SSMs to leverage computational resources invested in training Transformer-based architectures, highlighting a new avenue for building such models.

  • 5 authors
·
Aug 19, 2024

xMEN: A Modular Toolkit for Cross-Lingual Medical Entity Normalization

Objective: To improve performance of medical entity normalization across many languages, especially when fewer language resources are available compared to English. Materials and Methods: We introduce xMEN, a modular system for cross-lingual medical entity normalization, which performs well in both low- and high-resource scenarios. When synonyms in the target language are scarce for a given terminology, we leverage English aliases via cross-lingual candidate generation. For candidate ranking, we incorporate a trainable cross-encoder model if annotations for the target task are available. We also evaluate cross-encoders trained in a weakly supervised manner based on machine-translated datasets from a high resource domain. Our system is publicly available as an extensible Python toolkit. Results: xMEN improves the state-of-the-art performance across a wide range of multilingual benchmark datasets. Weakly supervised cross-encoders are effective when no training data is available for the target task. Through the compatibility of xMEN with the BigBIO framework, it can be easily used with existing and prospective datasets. Discussion: Our experiments show the importance of balancing the output of general-purpose candidate generators with subsequent trainable re-rankers, which we achieve through a rank regularization term in the loss function of the cross-encoder. However, error analysis reveals that multi-word expressions and other complex entities are still challenging. Conclusion: xMEN exhibits strong performance for medical entity normalization in multiple languages, even when no labeled data and few terminology aliases for the target language are available. Its configuration system and evaluation modules enable reproducible benchmarks. Models and code are available online at the following URL: https://github.com/hpi-dhc/xmen

  • 5 authors
·
Oct 17, 2023

Concept-Centric Transformers: Enhancing Model Interpretability through Object-Centric Concept Learning within a Shared Global Workspace

Many interpretable AI approaches have been proposed to provide plausible explanations for a model's decision-making. However, configuring an explainable model that effectively communicates among computational modules has received less attention. A recently proposed shared global workspace theory showed that networks of distributed modules can benefit from sharing information with a bottlenecked memory because the communication constraints encourage specialization, compositionality, and synchronization among the modules. Inspired by this, we propose Concept-Centric Transformers, a simple yet effective configuration of the shared global workspace for interpretability, consisting of: i) an object-centric-based memory module for extracting semantic concepts from input features, ii) a cross-attention mechanism between the learned concept and input embeddings, and iii) standard classification and explanation losses to allow human analysts to directly assess an explanation for the model's classification reasoning. We test our approach against other existing concept-based methods on classification tasks for various datasets, including CIFAR100, CUB-200-2011, and ImageNet, and we show that our model achieves better classification accuracy than all baselines across all problems but also generates more consistent concept-based explanations of classification output.

  • 3 authors
·
May 25, 2023

Increasing Liquid State Machine Performance with Edge-of-Chaos Dynamics Organized by Astrocyte-modulated Plasticity

The liquid state machine (LSM) combines low training complexity and biological plausibility, which has made it an attractive machine learning framework for edge and neuromorphic computing paradigms. Originally proposed as a model of brain computation, the LSM tunes its internal weights without backpropagation of gradients, which results in lower performance compared to multi-layer neural networks. Recent findings in neuroscience suggest that astrocytes, a long-neglected non-neuronal brain cell, modulate synaptic plasticity and brain dynamics, tuning brain networks to the vicinity of the computationally optimal critical phase transition between order and chaos. Inspired by this disruptive understanding of how brain networks self-tune, we propose the neuron-astrocyte liquid state machine (NALSM) that addresses under-performance through self-organized near-critical dynamics. Similar to its biological counterpart, the astrocyte model integrates neuronal activity and provides global feedback to spike-timing-dependent plasticity (STDP), which self-organizes NALSM dynamics around a critical branching factor that is associated with the edge-of-chaos. We demonstrate that NALSM achieves state-of-the-art accuracy versus comparable LSM methods, without the need for data-specific hand-tuning. With a top accuracy of 97.61% on MNIST, 97.51% on N-MNIST, and 85.84% on Fashion-MNIST, NALSM achieved comparable performance to current fully-connected multi-layer spiking neural networks trained via backpropagation. Our findings suggest that the further development of brain-inspired machine learning methods has the potential to reach the performance of deep learning, with the added benefits of supporting robust and energy-efficient neuromorphic computing on the edge.

  • 2 authors
·
Oct 26, 2021

JWST observations of photodissociation regions III. Dust modelling at the illuminated edge of the Horsehead PDR

Carbonaceous nano-grains are a significant component of interstellar dust and dominate the mid-infrared emission of photodissociation regions (PDRs). We study the evolution of nano-grains across the illuminated edge of the Horsehead PDR, especially their abundance and size properties. This work is part of the Physics and Chemistry of PDR Fronts program studying dust and gas in PDRs with JWST. We use NIRCam+MIRI photometric bands and NIRSpec+MRS spectroscopy to map the illuminated edge. We model dust emission using the THEMIS dust model with the SOC radiative transfer code. Detailed modeling of high angular resolution JWST data allows us to obtain constraints on nano-grain properties. We find that diffuse ISM dust cannot account for the observed data, requiring evolved grains. A sharp density increase is observed at the illuminated edge, consistent with ALMA observations revealing a sharp transition between molecular and ionized gas. Although the PDR length could not be directly determined, we estimate an upper limit of approximately 0.015 pc. This implies a lower limit on small grain abundance (greater than 0.003), showing small grains are not depleted at the Horsehead edge, unlike in the Orion Bar. Our findings indicate a high-density environment and less steep size distribution for nano-grains at the illuminated edge versus the diffuse ISM. This implies nano-grain destruction mechanisms might be less efficient in the Horsehead's moderate-UV field than in more intense PDRs. These results support a model where nano-grain population recovery is slower in moderate-UV environments, leading to a unique dust size distribution at the edge of the Horsehead Nebula.

  • 22 authors
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Oct 28

Hubble: a Model Suite to Advance the Study of LLM Memorization

We present Hubble, a suite of fully open-source large language models (LLMs) for the scientific study of LLM memorization. Hubble models come in standard and perturbed variants: standard models are pretrained on a large English corpus, and perturbed models are trained in the same way but with controlled insertion of text (e.g., book passages, biographies, and test sets) designed to emulate key memorization risks. Our core release includes 8 models -- standard and perturbed models with 1B or 8B parameters, pretrained on 100B or 500B tokens -- establishing that memorization risks are determined by the frequency of sensitive data relative to size of the training corpus (i.e., a password appearing once in a smaller corpus is memorized better than the same password in a larger corpus). Our release also includes 6 perturbed models with text inserted at different pretraining phases, showing that sensitive data without continued exposure can be forgotten. These findings suggest two best practices for addressing memorization risks: to dilute sensitive data by increasing the size of the training corpus, and to order sensitive data to appear earlier in training. Beyond these general empirical findings, Hubble enables a broad range of memorization research; for example, analyzing the biographies reveals how readily different types of private information are memorized. We also demonstrate that the randomized insertions in Hubble make it an ideal testbed for membership inference and machine unlearning, and invite the community to further explore, benchmark, and build upon our work.

  • 10 authors
·
Oct 22

Sensing Cardiac Health Across Scenarios and Devices: A Multi-Modal Foundation Model Pretrained on Heterogeneous Data from 1.7 Million Individuals

Cardiac biosignals, such as electrocardiograms (ECG) and photoplethysmograms (PPG), are of paramount importance for the diagnosis, prevention, and management of cardiovascular diseases, and have been extensively used in a variety of clinical tasks. Conventional deep learning approaches for analyzing these signals typically rely on homogeneous datasets and static bespoke models, limiting their robustness and generalizability across diverse clinical settings and acquisition protocols. In this study, we present a cardiac sensing foundation model (CSFM) that leverages advanced transformer architectures and a generative, masked pretraining strategy to learn unified representations from vast, heterogeneous health records. Our model is pretrained on an innovative multi-modal integration of data from multiple large-scale datasets (including MIMIC-III-WDB, MIMIC-IV-ECG, and CODE), comprising cardiac signals and the corresponding clinical or machine-generated text reports from approximately 1.7 million individuals. We demonstrate that the embeddings derived from our CSFM not only serve as effective feature extractors across diverse cardiac sensing scenarios, but also enable seamless transfer learning across varying input configurations and sensor modalities. Extensive evaluations across diagnostic tasks, demographic information recognition, vital sign measurement, clinical outcome prediction, and ECG question answering reveal that CSFM consistently outperforms traditional one-modal-one-task approaches. Notably, CSFM exhibits robust performance across multiple ECG lead configurations from standard 12-lead systems to single-lead setups, and in scenarios where only ECG, only PPG, or a combination thereof is available. These findings highlight the potential of CSFM as a versatile and scalable solution, for comprehensive cardiac monitoring.

  • 13 authors
·
Jun 23

The Traitors: Deception and Trust in Multi-Agent Language Model Simulations

As AI systems increasingly assume roles where trust and alignment with human values are essential, understanding when and why they engage in deception has become a critical research priority. We introduce The Traitors, a multi-agent simulation framework inspired by social deduction games, designed to probe deception, trust formation, and strategic communication among large language model (LLM) agents under asymmetric information. A minority of agents the traitors seek to mislead the majority, while the faithful must infer hidden identities through dialogue and reasoning. Our contributions are: (1) we ground the environment in formal frameworks from game theory, behavioral economics, and social cognition; (2) we develop a suite of evaluation metrics capturing deception success, trust dynamics, and collective inference quality; (3) we implement a fully autonomous simulation platform where LLMs reason over persistent memory and evolving social dynamics, with support for heterogeneous agent populations, specialized traits, and adaptive behaviors. Our initial experiments across DeepSeek-V3, GPT-4o-mini, and GPT-4o (10 runs per model) reveal a notable asymmetry: advanced models like GPT-4o demonstrate superior deceptive capabilities yet exhibit disproportionate vulnerability to others' falsehoods. This suggests deception skills may scale faster than detection abilities. Overall, The Traitors provides a focused, configurable testbed for investigating LLM behavior in socially nuanced interactions. We position this work as a contribution toward more rigorous research on deception mechanisms, alignment challenges, and the broader social reliability of AI systems.

  • 1 authors
·
May 19

Synthetic Modelling of Polarized Dust Emission in Intermediate-Mass YSOs: I: Constraining the Role of Iron Inclusions and Inelastic Relaxation on Grain Alignment with ALMA Polarization

Iron inclusions embedded inside dust grains play a crucial role in both internal alignment (IA) via Barnett relaxation and external alignment via the MAgnetically Enhanced RAdiative Torque (MRAT) mechanism. Moreover, inelastic relaxation is predicted to dominate over Barnett relaxation in driving the IA of micron-sized and very large grains above 10mu m (VLGs). Yet, a detailed modeling of polarized thermal dust emission from Class 0/I Young Stellar Objects (YSOs) taking into account these effects and their observational constraints is still lacking. In this paper, we update the POLARIS code and use it to perform synthetic dust polarization modeling for MHD simulations of an intermediate-mass YSO. Results will be post-processed with CASA to confront ALMA polarimetric observations. We found that to reproduce the high polarization degree of p sim 5-30% observed in protostellar envelopes by ALMA, micron-sized and VLGs must contain iron inclusions with N_{rm cl} sim 5 - 10^{3} iron atoms per cluster, assuming 30% of iron abundance locked inside dust grains under the cluster form. Inside the inner sim 500 au region, inelastic relaxation must participate in driving the grain internal alignment, and grains must contain larger iron inclusions of N_{rm cl} sim 10^{2}-10^{4} and grow beyond geq 10mu m to reproduce sim 3-10% of dust polarization observed by ALMA. But given such a combination, the internal alignment and MRAT efficiency acting on VLGs still decrease toward the center, inducing the decrease of p(%) with increasing gas density, reaching p sim 1% inside the disk.

  • 5 authors
·
Jul 14, 2024

REAL: Resilience and Adaptation using Large Language Models on Autonomous Aerial Robots

Large Language Models (LLMs) pre-trained on internet-scale datasets have shown impressive capabilities in code understanding, synthesis, and general purpose question-and-answering. Key to their performance is the substantial prior knowledge acquired during training and their ability to reason over extended sequences of symbols, often presented in natural language. In this work, we aim to harness the extensive long-term reasoning, natural language comprehension, and the available prior knowledge of LLMs for increased resilience and adaptation in autonomous mobile robots. We introduce REAL, an approach for REsilience and Adaptation using LLMs. REAL provides a strategy to employ LLMs as a part of the mission planning and control framework of an autonomous robot. The LLM employed by REAL provides (i) a source of prior knowledge to increase resilience for challenging scenarios that the system had not been explicitly designed for; (ii) a way to interpret natural-language and other log/diagnostic information available in the autonomy stack, for mission planning; (iii) a way to adapt the control inputs using minimal user-provided prior knowledge about the dynamics/kinematics of the robot. We integrate REAL in the autonomy stack of a real multirotor, querying onboard an offboard LLM at 0.1-1.0 Hz as part the robot's mission planning and control feedback loops. We demonstrate in real-world experiments the ability of the LLM to reduce the position tracking errors of a multirotor under the presence of (i) errors in the parameters of the controller and (ii) unmodeled dynamics. We also show (iii) decision making to avoid potentially dangerous scenarios (e.g., robot oscillates) that had not been explicitly accounted for in the initial prompt design.

  • 6 authors
·
Nov 2, 2023

Generalization in diffusion models arises from geometry-adaptive harmonic representations

Deep neural networks (DNNs) trained for image denoising are able to generate high-quality samples with score-based reverse diffusion algorithms. These impressive capabilities seem to imply an escape from the curse of dimensionality, but recent reports of memorization of the training set raise the question of whether these networks are learning the "true" continuous density of the data. Here, we show that two DNNs trained on non-overlapping subsets of a dataset learn nearly the same score function, and thus the same density, when the number of training images is large enough. In this regime of strong generalization, diffusion-generated images are distinct from the training set, and are of high visual quality, suggesting that the inductive biases of the DNNs are well-aligned with the data density. We analyze the learned denoising functions and show that the inductive biases give rise to a shrinkage operation in a basis adapted to the underlying image. Examination of these bases reveals oscillating harmonic structures along contours and in homogeneous regions. We demonstrate that trained denoisers are inductively biased towards these geometry-adaptive harmonic bases since they arise not only when the network is trained on photographic images, but also when it is trained on image classes supported on low-dimensional manifolds for which the harmonic basis is suboptimal. Finally, we show that when trained on regular image classes for which the optimal basis is known to be geometry-adaptive and harmonic, the denoising performance of the networks is near-optimal.

  • 4 authors
·
Oct 3, 2023

REDAffectiveLM: Leveraging Affect Enriched Embedding and Transformer-based Neural Language Model for Readers' Emotion Detection

Technological advancements in web platforms allow people to express and share emotions towards textual write-ups written and shared by others. This brings about different interesting domains for analysis; emotion expressed by the writer and emotion elicited from the readers. In this paper, we propose a novel approach for Readers' Emotion Detection from short-text documents using a deep learning model called REDAffectiveLM. Within state-of-the-art NLP tasks, it is well understood that utilizing context-specific representations from transformer-based pre-trained language models helps achieve improved performance. Within this affective computing task, we explore how incorporating affective information can further enhance performance. Towards this, we leverage context-specific and affect enriched representations by using a transformer-based pre-trained language model in tandem with affect enriched Bi-LSTM+Attention. For empirical evaluation, we procure a new dataset REN-20k, besides using RENh-4k and SemEval-2007. We evaluate the performance of our REDAffectiveLM rigorously across these datasets, against a vast set of state-of-the-art baselines, where our model consistently outperforms baselines and obtains statistically significant results. Our results establish that utilizing affect enriched representation along with context-specific representation within a neural architecture can considerably enhance readers' emotion detection. Since the impact of affect enrichment specifically in readers' emotion detection isn't well explored, we conduct a detailed analysis over affect enriched Bi-LSTM+Attention using qualitative and quantitative model behavior evaluation techniques. We observe that compared to conventional semantic embedding, affect enriched embedding increases ability of the network to effectively identify and assign weightage to key terms responsible for readers' emotion detection.

  • 5 authors
·
Jan 21, 2023

AfroLM: A Self-Active Learning-based Multilingual Pretrained Language Model for 23 African Languages

In recent years, multilingual pre-trained language models have gained prominence due to their remarkable performance on numerous downstream Natural Language Processing tasks (NLP). However, pre-training these large multilingual language models requires a lot of training data, which is not available for African Languages. Active learning is a semi-supervised learning algorithm, in which a model consistently and dynamically learns to identify the most beneficial samples to train itself on, in order to achieve better optimization and performance on downstream tasks. Furthermore, active learning effectively and practically addresses real-world data scarcity. Despite all its benefits, active learning, in the context of NLP and especially multilingual language models pretraining, has received little consideration. In this paper, we present AfroLM, a multilingual language model pretrained from scratch on 23 African languages (the largest effort to date) using our novel self-active learning framework. Pretrained on a dataset significantly (14x) smaller than existing baselines, AfroLM outperforms many multilingual pretrained language models (AfriBERTa, XLMR-base, mBERT) on various NLP downstream tasks (NER, text classification, and sentiment analysis). Additional out-of-domain sentiment analysis experiments show that AfroLM is able to generalize well across various domains. We release the code source, and our datasets used in our framework at https://github.com/bonaventuredossou/MLM_AL.

  • 8 authors
·
Nov 6, 2022

On Distillation of Guided Diffusion Models

Classifier-free guided diffusion models have recently been shown to be highly effective at high-resolution image generation, and they have been widely used in large-scale diffusion frameworks including DALLE-2, Stable Diffusion and Imagen. However, a downside of classifier-free guided diffusion models is that they are computationally expensive at inference time since they require evaluating two diffusion models, a class-conditional model and an unconditional model, tens to hundreds of times. To deal with this limitation, we propose an approach to distilling classifier-free guided diffusion models into models that are fast to sample from: Given a pre-trained classifier-free guided model, we first learn a single model to match the output of the combined conditional and unconditional models, and then we progressively distill that model to a diffusion model that requires much fewer sampling steps. For standard diffusion models trained on the pixel-space, our approach is able to generate images visually comparable to that of the original model using as few as 4 sampling steps on ImageNet 64x64 and CIFAR-10, achieving FID/IS scores comparable to that of the original model while being up to 256 times faster to sample from. For diffusion models trained on the latent-space (e.g., Stable Diffusion), our approach is able to generate high-fidelity images using as few as 1 to 4 denoising steps, accelerating inference by at least 10-fold compared to existing methods on ImageNet 256x256 and LAION datasets. We further demonstrate the effectiveness of our approach on text-guided image editing and inpainting, where our distilled model is able to generate high-quality results using as few as 2-4 denoising steps.

  • 7 authors
·
Oct 6, 2022