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Sep 14

Progression as Latent Drift: Generative Forecasting of Slow-Evolving Pathologies

Forecasting the future anatomy of slow-evolving neurodegenerative diseases could enable earlier, more targeted intervention and improve clinical trial design, but it remains challenging because true progression signals are subtle in longitudinal MRI. In this low-signal regime, transferring modern generative sequence models directly is unreliable: training is dominated by stable baseline anatomy and confounded by dense, sample-specific nuisance variation. We first provide a theoretical analysis that explains these failures through two modes. Identity collapse occurs when optimization is driven toward reproducing the current anatomy, which prevents the model from learning faint temporal change. The continuous interpolation trap arises when standard smooth networks cannot separate localized biological drift from pervasive noise, which leads to spurious changes that diffuse across the volume. To address both issues, we propose Latent Drift, a progressive generative framework that learns change in a compressed semantic representation rather than synthesizing full-resolution anatomy. This design removes pixel-level identity from the prediction target and concentrates model capacity on progression-relevant dynamics. We further apply Finite Scalar Quantization to the learned change representation, which suppresses small, high-frequency nuisance fluctuations while preserving consistent structural drift. Experiments on longitudinal 3D brain MRI show that Latent Drift improves patient-specific neuro-forecasting over diffusion and autoregressive transformer baselines across generative fidelity and clinically relevant evaluation metrics. Project page: https://cutepkq.github.io/latent-drift{https://cutepkq.github.io/latent-drift}.

  • 10 authors
·
Jul 8

End-To-End Prediction of Knee Osteoarthritis Progression With Multi-Modal Transformers

Knee Osteoarthritis (KOA) is a highly prevalent chronic musculoskeletal condition with no currently available treatment. The manifestation of KOA is heterogeneous and prediction of its progression is challenging. Current literature suggests that the use of multi-modal data and advanced modeling methods, such as the ones based on Deep Learning, has promise in tackling this challenge. To date, however, the evidence on the efficacy of this approach is limited. In this study, we leveraged recent advances in Deep Learning and, using a Transformer approach, developed a unified framework for the multi-modal fusion of knee imaging data. Subsequently, we analyzed its performance across a range of scenarios by investigating multiple progression horizons -- from short-term to long-term. We report our findings using a large cohort (n=2421-3967) derived from the Osteoarthritis Initiative dataset. We show that structural knee MRI allows identifying radiographic KOA progressors on par with multi-modal fusion approaches, achieving an area under the ROC curve (ROC AUC) of 0.70-0.76 and Average Precision (AP) of 0.15-0.54 in 2-8 year horizons. Progression within 1 year was better predicted with a multi-modal method using X-ray, structural, and compositional MR images -- ROC AUC of 0.76(0.04), AP of 0.13(0.04) -- or via clinical data. Our follow-up analysis generally shows that prediction from the imaging data is more accurate for post-traumatic subjects, and we further investigate which subject subgroups may benefit the most. The present study provides novel insights into multi-modal imaging of KOA and brings a unified data-driven framework for studying its progression in an end-to-end manner, providing new tools for the design of more efficient clinical trials. The source code of our framework and the pre-trained models are made publicly available.

  • 4 authors
·
Jul 3, 2023

PIE: Simulating Disease Progression via Progressive Image Editing

Disease progression simulation is a crucial area of research that has significant implications for clinical diagnosis, prognosis, and treatment. One major challenge in this field is the lack of continuous medical imaging monitoring of individual patients over time. To address this issue, we develop a novel framework termed Progressive Image Editing (PIE) that enables controlled manipulation of disease-related image features, facilitating precise and realistic disease progression simulation. Specifically, we leverage recent advancements in text-to-image generative models to simulate disease progression accurately and personalize it for each patient. We theoretically analyze the iterative refining process in our framework as a gradient descent with an exponentially decayed learning rate. To validate our framework, we conduct experiments in three medical imaging domains. Our results demonstrate the superiority of PIE over existing methods such as Stable Diffusion Walk and Style-Based Manifold Extrapolation based on CLIP score (Realism) and Disease Classification Confidence (Alignment). Our user study collected feedback from 35 veteran physicians to assess the generated progressions. Remarkably, 76.2% of the feedback agrees with the fidelity of the generated progressions. To our best knowledge, PIE is the first of its kind to generate disease progression images meeting real-world standards. It is a promising tool for medical research and clinical practice, potentially allowing healthcare providers to model disease trajectories over time, predict future treatment responses, and improve patient outcomes.

  • 6 authors
·
Sep 20, 2023 1

Active Sensing of Knee Osteoarthritis Progression with Reinforcement Learning

Osteoarthritis (OA) is the most common musculoskeletal disease, which has no cure. Knee OA (KOA) is one of the highest causes of disability worldwide, and it costs billions of United States dollars to the global community. Prediction of KOA progression has been of high interest to the community for years, as it can advance treatment development through more efficient clinical trials and improve patient outcomes through more efficient healthcare utilization. Existing approaches for predicting KOA, however, are predominantly static, i.e. consider data from a single time point to predict progression many years into the future, and knee level, i.e. consider progression in a single joint only. Due to these and related reasons, these methods fail to deliver the level of predictive performance, which is sufficient to result in cost savings and better patient outcomes. Collecting extensive data from all patients on a regular basis could address the issue, but it is limited by the high cost at a population level. In this work, we propose to go beyond static prediction models in OA, and bring a novel Active Sensing (AS) approach, designed to dynamically follow up patients with the objective of maximizing the number of informative data acquisitions, while minimizing their total cost over a period of time. Our approach is based on Reinforcement Learning (RL), and it leverages a novel reward function designed specifically for AS of disease progression in more than one part of a human body. Our method is end-to-end, relies on multi-modal Deep Learning, and requires no human input at inference time. Throughout an exhaustive experimental evaluation, we show that using RL can provide a higher monetary benefit when compared to state-of-the-art baselines.

  • 4 authors
·
Aug 5, 2024

Harvard Glaucoma Detection and Progression: A Multimodal Multitask Dataset and Generalization-Reinforced Semi-Supervised Learning

Glaucoma is the number one cause of irreversible blindness globally. A major challenge for accurate glaucoma detection and progression forecasting is the bottleneck of limited labeled patients with the state-of-the-art (SOTA) 3D retinal imaging data of optical coherence tomography (OCT). To address the data scarcity issue, this paper proposes two solutions. First, we develop a novel generalization-reinforced semi-supervised learning (SSL) model called pseudo supervisor to optimally utilize unlabeled data. Compared with SOTA models, the proposed pseudo supervisor optimizes the policy of predicting pseudo labels with unlabeled samples to improve empirical generalization. Our pseudo supervisor model is evaluated with two clinical tasks consisting of glaucoma detection and progression forecasting. The progression forecasting task is evaluated both unimodally and multimodally. Our pseudo supervisor model demonstrates superior performance than SOTA SSL comparison models. Moreover, our model also achieves the best results on the publicly available LAG fundus dataset. Second, we introduce the Harvard Glaucoma Detection and Progression (Harvard-GDP) Dataset, a multimodal multitask dataset that includes data from 1,000 patients with OCT imaging data, as well as labels for glaucoma detection and progression. This is the largest glaucoma detection dataset with 3D OCT imaging data and the first glaucoma progression forecasting dataset that is publicly available. Detailed sex and racial analysis are provided, which can be used by interested researchers for fairness learning studies. Our released dataset is benchmarked with several SOTA supervised CNN and transformer deep learning models. The dataset and code are made publicly available via https://ophai.hms.harvard.edu/datasets/harvard-gdp1000.

  • 5 authors
·
Aug 25, 2023

Age Progression/Regression by Conditional Adversarial Autoencoder

"If I provide you a face image of mine (without telling you the actual age when I took the picture) and a large amount of face images that I crawled (containing labeled faces of different ages but not necessarily paired), can you show me what I would look like when I am 80 or what I was like when I was 5?" The answer is probably a "No." Most existing face aging works attempt to learn the transformation between age groups and thus would require the paired samples as well as the labeled query image. In this paper, we look at the problem from a generative modeling perspective such that no paired samples is required. In addition, given an unlabeled image, the generative model can directly produce the image with desired age attribute. We propose a conditional adversarial autoencoder (CAAE) that learns a face manifold, traversing on which smooth age progression and regression can be realized simultaneously. In CAAE, the face is first mapped to a latent vector through a convolutional encoder, and then the vector is projected to the face manifold conditional on age through a deconvolutional generator. The latent vector preserves personalized face features (i.e., personality) and the age condition controls progression vs. regression. Two adversarial networks are imposed on the encoder and generator, respectively, forcing to generate more photo-realistic faces. Experimental results demonstrate the appealing performance and flexibility of the proposed framework by comparing with the state-of-the-art and ground truth.

  • 3 authors
·
Feb 27, 2017

Brain Latent Progression: Individual-based Spatiotemporal Disease Progression on 3D Brain MRIs via Latent Diffusion

The growing availability of longitudinal Magnetic Resonance Imaging (MRI) datasets has facilitated Artificial Intelligence (AI)-driven modeling of disease progression, making it possible to predict future medical scans for individual patients. However, despite significant advancements in AI, current methods continue to face challenges including achieving patient-specific individualization, ensuring spatiotemporal consistency, efficiently utilizing longitudinal data, and managing the substantial memory demands of 3D scans. To address these challenges, we propose Brain Latent Progression (BrLP), a novel spatiotemporal model designed to predict individual-level disease progression in 3D brain MRIs. The key contributions in BrLP are fourfold: (i) it operates in a small latent space, mitigating the computational challenges posed by high-dimensional imaging data; (ii) it explicitly integrates subject metadata to enhance the individualization of predictions; (iii) it incorporates prior knowledge of disease dynamics through an auxiliary model, facilitating the integration of longitudinal data; and (iv) it introduces the Latent Average Stabilization (LAS) algorithm, which (a) enforces spatiotemporal consistency in the predicted progression at inference time and (b) allows us to derive a measure of the uncertainty for the prediction at the global and voxel level. We train and evaluate BrLP on 11,730 T1-weighted (T1w) brain MRIs from 2,805 subjects and validate its generalizability on an external test set comprising 2,257 MRIs from 962 subjects. Our experiments compare BrLP-generated MRI scans with real follow-up MRIs, demonstrating state-of-the-art accuracy compared to existing methods. The code is publicly available at: https://github.com/LemuelPuglisi/BrLP.

  • 3 authors
·
Feb 12, 2025

ImageFlowNet: Forecasting Multiscale Image-Level Trajectories of Disease Progression with Irregularly-Sampled Longitudinal Medical Images

Advances in medical imaging technologies have enabled the collection of longitudinal images, which involve repeated scanning of the same patients over time, to monitor disease progression. However, predictive modeling of such data remains challenging due to high dimensionality, irregular sampling, and data sparsity. To address these issues, we propose ImageFlowNet, a novel model designed to forecast disease trajectories from initial images while preserving spatial details. ImageFlowNet first learns multiscale joint representation spaces across patients and time points, then optimizes deterministic or stochastic flow fields within these spaces using a position-parameterized neural ODE/SDE framework. The model leverages a UNet architecture to create robust multiscale representations and mitigates data scarcity by combining knowledge from all patients. We provide theoretical insights that support our formulation of ODEs, and motivate our regularizations involving high-level visual features, latent space organization, and trajectory smoothness. We validate ImageFlowNet on three longitudinal medical image datasets depicting progression in geographic atrophy, multiple sclerosis, and glioblastoma, demonstrating its ability to effectively forecast disease progression and outperform existing methods. Our contributions include the development of ImageFlowNet, its theoretical underpinnings, and empirical validation on real-world datasets. The official implementation is available at https://github.com/KrishnaswamyLab/ImageFlowNet.

  • 11 authors
·
Jun 20, 2024

Enhancing Spatiotemporal Disease Progression Models via Latent Diffusion and Prior Knowledge

In this work, we introduce Brain Latent Progression (BrLP), a novel spatiotemporal disease progression model based on latent diffusion. BrLP is designed to predict the evolution of diseases at the individual level on 3D brain MRIs. Existing deep generative models developed for this task are primarily data-driven and face challenges in learning disease progressions. BrLP addresses these challenges by incorporating prior knowledge from disease models to enhance the accuracy of predictions. To implement this, we propose to integrate an auxiliary model that infers volumetric changes in various brain regions. Additionally, we introduce Latent Average Stabilization (LAS), a novel technique to improve spatiotemporal consistency of the predicted progression. BrLP is trained and evaluated on a large dataset comprising 11,730 T1-weighted brain MRIs from 2,805 subjects, collected from three publicly available, longitudinal Alzheimer's Disease (AD) studies. In our experiments, we compare the MRI scans generated by BrLP with the actual follow-up MRIs available from the subjects, in both cross-sectional and longitudinal settings. BrLP demonstrates significant improvements over existing methods, with an increase of 22% in volumetric accuracy across AD-related brain regions and 43% in image similarity to the ground-truth scans. The ability of BrLP to generate conditioned 3D scans at the subject level, along with the novelty of integrating prior knowledge to enhance accuracy, represents a significant advancement in disease progression modeling, opening new avenues for precision medicine. The code of BrLP is available at the following link: https://github.com/LemuelPuglisi/BrLP.

  • 3 authors
·
May 6, 2024

PreScam: A Benchmark for Predicting Scam Progression from Early Conversations

Conversational scams, such as romance and investment scams, are emerging as a major form of online fraud. Unlike one-shot scam lures such as fake lottery or unpaid toll messages, they unfold through multi-turn conversations in which scammers gradually manipulate victims using evolving psychological techniques. However, existing research mainly focuses on static scam detection or synthetic scams, leaving open whether language models can understand how real-world scams progress over time. We introduce PreScam, a benchmark for modeling scam progression from early conversations. Built from user-submitted scam reports, PreScam filters and structures 177,989 raw reports into 11,573 conversational scam instances spanning 20 scam categories. Each instance is hierarchically structured according to the scam lifecycle defined by the proposed scam kill chain, and further annotated at the turn level with scammer psychological actions and victim responses. We benchmark models on two tasks: real-time termination prediction, which estimates whether a conversation is approaching the termination stage, and scammer action prediction, which forecasts the scammer's subsequent actions. Results show a clear gap between surface-level fluency and progression modeling: supervised encoders substantially outperform zero-shot LLMs on real-time termination prediction, while next-action prediction remains only moderately successful even for strong LLMs. Taken together, these results show that current models can capture some scam-related cues, yet still struggle to track how risk escalates and how manipulation unfolds across turns.

LEAP: Layer-skipping Efficiency via Adaptive Progression for Vision Transformer Distillation

Vision Foundation Models (VFMs) with Vision Transformer (ViT) backbones, such as DINOv2, have become essential for downstream tasks like object recognition and semantic segmentation. The immense computational requirements of backbones often necessitate distillation into smaller architectures for edge deployment. Feature-based knowledge distillation (KD) often suffers from the teacher-student gap; the student struggles to imitate teacher's complex feature map due to its limited capacity. To mitigate this bottleneck, we propose LEAP: Layer-skipping Efficiency via Adaptive Progression, a training curriculum for ViT feature-based knowledge distillation. By utilizing the teacher's intermediate feature maps as a sequence of progressively more difficult targets, our curriculum allows the student to build a foundational representation before tackling higher-level abstractions. Our results demonstrate that this paradigm significantly accelerates convergence through adaptive difficulty selection across various student model sizes and dataset scales. With our curriculum, the LEAP-distilled ViT-S achieves 90.1% accuracy on ImageNet-100, a +12.24% improvement compared with baseline. On ImageNet-1K, LEAP achieves +3.84% and +7.75% improvement for the instance retrieval task on the Oxford and Paris datasets, respectively. Furthermore, the curriculum enables 25.1% savings in training FLOPs and 21% savings in training time on ImageNet-100 by implementing early-stopping for teacher inference during the initial stages of training. Code is available at https://github.com/KevinZ0217/LEAP

  • 6 authors
·
Jun 16

Uncertainty-Aware Longitudinal Forecasting of Alzheimer's Disease Progression Using Deep Learning

Longitudinal modelling of Alzheimer's disease progression is clinically useful only if it can describe not just the most likely next diagnosis, but how a patient may evolve over time and how reliable that forecast is. Most deep learning approaches reduce this problem to single-step classification, treating cognitively normal, mild cognitive impairment, and dementia as flat categories while providing limited insight into how uncertainty accumulates across future visits. We propose a probabilistic framework that combines ordinal diagnosis prediction, multi-horizon trajectory generation, and decomposed uncertainty estimation. A Temporal Fusion Transformer encoder is adapted with a CORAL ordinal output layer, asymmetric loss weighting, and converter oversampling to respect disease-stage ordering and improve sensitivity to MCI-to-dementia transitions. Conditioned on the learned patient-context representation, an autoregressive Mixture Density Network generates five-year probabilistic trajectories for diagnosis state, CDR Sum of Boxes, MMSE orientation, and hippocampal volume. On ADNI, the model outperforms linear, recurrent, and transformer baselines for next-visit diagnosis prediction, with the strongest gains on MCI-versus-dementia discrimination. Generated trajectories achieve near-nominal 90% credible interval coverage, widening uncertainty across the forecast horizon, and biomarker dynamics consistent with expected Alzheimer's disease progression. We further separate aleatoric from epistemic uncertainty using analytic mixture variance and a five-member bootstrap ensemble, which provides the strongest encoder diversity and output-level epistemic signal. Epistemic uncertainty is higher for rare progression archetypes, MCI and dementia patients, and under external evaluation on OASIS-3, where it increases alongside prediction error.

  • 3 authors
·
Jun 22

A Self-supervised Multimodal Deep Learning Approach to Differentiate Post-radiotherapy Progression from Pseudoprogression in Glioblastoma

Accurate differentiation of pseudoprogression (PsP) from True Progression (TP) following radiotherapy (RT) in glioblastoma (GBM) patients is crucial for optimal treatment planning. However, this task remains challenging due to the overlapping imaging characteristics of PsP and TP. This study therefore proposes a multimodal deep-learning approach utilizing complementary information from routine anatomical MR images, clinical parameters, and RT treatment planning information for improved predictive accuracy. The approach utilizes a self-supervised Vision Transformer (ViT) to encode multi-sequence MR brain volumes to effectively capture both global and local context from the high dimensional input. The encoder is trained in a self-supervised upstream task on unlabeled glioma MRI datasets from the open BraTS2021, UPenn-GBM, and UCSF-PDGM datasets to generate compact, clinically relevant representations from FLAIR and T1 post-contrast sequences. These encoded MR inputs are then integrated with clinical data and RT treatment planning information through guided cross-modal attention, improving progression classification accuracy. This work was developed using two datasets from different centers: the Burdenko Glioblastoma Progression Dataset (n = 59) for training and validation, and the GlioCMV progression dataset from the University Hospital Erlangen (UKER) (n = 20) for testing. The proposed method achieved an AUC of 75.3%, outperforming the current state-of-the-art data-driven approaches. Importantly, the proposed approach relies on readily available anatomical MRI sequences, clinical data, and RT treatment planning information, enhancing its clinical feasibility. The proposed approach addresses the challenge of limited data availability for PsP and TP differentiation and could allow for improved clinical decision-making and optimized treatment plans for GBM patients.

  • 22 authors
·
Feb 5, 2025

Artificial Intelligence for Personalized Prediction of Alzheimer's Disease Progression: A Survey of Methods, Data Challenges, and Future Directions

Alzheimer's Disease (AD) is marked by significant inter-individual variability in its progression, complicating accurate prognosis and personalized care planning. This heterogeneity underscores the critical need for predictive models capable of forecasting patient-specific disease trajectories. Artificial Intelligence (AI) offers powerful tools to address this challenge by analyzing complex, multi-modal, and longitudinal patient data. This paper provides a comprehensive survey of AI methodologies applied to personalized AD progression prediction. We review key approaches including state-space models for capturing temporal dynamics, deep learning techniques like Recurrent Neural Networks for sequence modeling, Graph Neural Networks (GNNs) for leveraging network structures, and the emerging concept of AI-driven digital twins for individualized simulation. Recognizing that data limitations often impede progress, we examine common challenges such as high dimensionality, missing data, and dataset imbalance. We further discuss AI-driven mitigation strategies, with a specific focus on synthetic data generation using Variational Autoencoders (VAEs) and Generative Adversarial Networks (GANs) to augment and balance datasets. The survey synthesizes the strengths and limitations of current approaches, emphasizing the trend towards multimodal integration and the persistent need for model interpretability and generalizability. Finally, we identify critical open challenges, including robust external validation, clinical integration, and ethical considerations, and outline promising future research directions such as hybrid models, causal inference, and federated learning. This review aims to consolidate current knowledge and guide future efforts in developing clinically relevant AI tools for personalized AD prognostication.

  • 4 authors
·
Apr 29, 2025

MMXU: A Multi-Modal and Multi-X-ray Understanding Dataset for Disease Progression

Large vision-language models (LVLMs) have shown great promise in medical applications, particularly in visual question answering (MedVQA) and diagnosis from medical images. However, existing datasets and models often fail to consider critical aspects of medical diagnostics, such as the integration of historical records and the analysis of disease progression over time. In this paper, we introduce MMXU (Multimodal and MultiX-ray Understanding), a novel dataset for MedVQA that focuses on identifying changes in specific regions between two patient visits. Unlike previous datasets that primarily address single-image questions, MMXU enables multi-image questions, incorporating both current and historical patient data. We demonstrate the limitations of current LVLMs in identifying disease progression on MMXU-test, even those that perform well on traditional benchmarks. To address this, we propose a MedRecord-Augmented Generation (MAG) approach, incorporating both global and regional historical records. Our experiments show that integrating historical records significantly enhances diagnostic accuracy by at least 20\%, bridging the gap between current LVLMs and human expert performance. Additionally, we fine-tune models with MAG on MMXU-dev, which demonstrates notable improvements. We hope this work could illuminate the avenue of advancing the use of LVLMs in medical diagnostics by emphasizing the importance of historical context in interpreting medical images. Our dataset is released at https://github.com/linjiemu/MMXU{https://github.com/linjiemu/MMXU}.

  • 6 authors
·
Feb 17, 2025

Temporal Supervised Contrastive Learning for Modeling Patient Risk Progression

We consider the problem of predicting how the likelihood of an outcome of interest for a patient changes over time as we observe more of the patient data. To solve this problem, we propose a supervised contrastive learning framework that learns an embedding representation for each time step of a patient time series. Our framework learns the embedding space to have the following properties: (1) nearby points in the embedding space have similar predicted class probabilities, (2) adjacent time steps of the same time series map to nearby points in the embedding space, and (3) time steps with very different raw feature vectors map to far apart regions of the embedding space. To achieve property (3), we employ a nearest neighbor pairing mechanism in the raw feature space. This mechanism also serves as an alternative to data augmentation, a key ingredient of contrastive learning, which lacks a standard procedure that is adequately realistic for clinical tabular data, to our knowledge. We demonstrate that our approach outperforms state-of-the-art baselines in predicting mortality of septic patients (MIMIC-III dataset) and tracking progression of cognitive impairment (ADNI dataset). Our method also consistently recovers the correct synthetic dataset embedding structure across experiments, a feat not achieved by baselines. Our ablation experiments show the pivotal role of our nearest neighbor pairing.

AD-BERT: Using Pre-trained contextualized embeddings to Predict the Progression from Mild Cognitive Impairment to Alzheimer's Disease

Objective: We develop a deep learning framework based on the pre-trained Bidirectional Encoder Representations from Transformers (BERT) model using unstructured clinical notes from electronic health records (EHRs) to predict the risk of disease progression from Mild Cognitive Impairment (MCI) to Alzheimer's Disease (AD). Materials and Methods: We identified 3657 patients diagnosed with MCI together with their progress notes from Northwestern Medicine Enterprise Data Warehouse (NMEDW) between 2000-2020. The progress notes no later than the first MCI diagnosis were used for the prediction. We first preprocessed the notes by deidentification, cleaning and splitting, and then pretrained a BERT model for AD (AD-BERT) based on the publicly available Bio+Clinical BERT on the preprocessed notes. The embeddings of all the sections of a patient's notes processed by AD-BERT were combined by MaxPooling to compute the probability of MCI-to-AD progression. For replication, we conducted a similar set of experiments on 2563 MCI patients identified at Weill Cornell Medicine (WCM) during the same timeframe. Results: Compared with the 7 baseline models, the AD-BERT model achieved the best performance on both datasets, with Area Under receiver operating characteristic Curve (AUC) of 0.8170 and F1 score of 0.4178 on NMEDW dataset and AUC of 0.8830 and F1 score of 0.6836 on WCM dataset. Conclusion: We developed a deep learning framework using BERT models which provide an effective solution for prediction of MCI-to-AD progression using clinical note analysis.

  • 12 authors
·
Nov 6, 2022

Identifying the Best Machine Learning Algorithms for Brain Tumor Segmentation, Progression Assessment, and Overall Survival Prediction in the BRATS Challenge

Gliomas are the most common primary brain malignancies, with different degrees of aggressiveness, variable prognosis and various heterogeneous histologic sub-regions, i.e., peritumoral edematous/invaded tissue, necrotic core, active and non-enhancing core. This intrinsic heterogeneity is also portrayed in their radio-phenotype, as their sub-regions are depicted by varying intensity profiles disseminated across multi-parametric magnetic resonance imaging (mpMRI) scans, reflecting varying biological properties. Their heterogeneous shape, extent, and location are some of the factors that make these tumors difficult to resect, and in some cases inoperable. The amount of resected tumor is a factor also considered in longitudinal scans, when evaluating the apparent tumor for potential diagnosis of progression. Furthermore, there is mounting evidence that accurate segmentation of the various tumor sub-regions can offer the basis for quantitative image analysis towards prediction of patient overall survival. This study assesses the state-of-the-art machine learning (ML) methods used for brain tumor image analysis in mpMRI scans, during the last seven instances of the International Brain Tumor Segmentation (BraTS) challenge, i.e., 2012-2018. Specifically, we focus on i) evaluating segmentations of the various glioma sub-regions in pre-operative mpMRI scans, ii) assessing potential tumor progression by virtue of longitudinal growth of tumor sub-regions, beyond use of the RECIST/RANO criteria, and iii) predicting the overall survival from pre-operative mpMRI scans of patients that underwent gross total resection. Finally, we investigate the challenge of identifying the best ML algorithms for each of these tasks, considering that apart from being diverse on each instance of the challenge, the multi-institutional mpMRI BraTS dataset has also been a continuously evolving/growing dataset.

  • 427 authors
·
Apr 22, 2019

Seeing Culture: A Benchmark for Visual Reasoning and Grounding

Multimodal vision-language models (VLMs) have made substantial progress in various tasks that require a combined understanding of visual and textual content, particularly in cultural understanding tasks, with the emergence of new cultural datasets. However, these datasets frequently fall short of providing cultural reasoning while underrepresenting many cultures. In this paper, we introduce the Seeing Culture Benchmark (SCB), focusing on cultural reasoning with a novel approach that requires VLMs to reason on culturally rich images in two stages: i) selecting the correct visual option with multiple-choice visual question answering (VQA), and ii) segmenting the relevant cultural artifact as evidence of reasoning. Visual options in the first stage are systematically organized into three types: those originating from the same country, those from different countries, or a mixed group. Notably, all options are derived from a singular category for each type. Progression to the second stage occurs only after a correct visual option is chosen. The SCB benchmark comprises 1,065 images that capture 138 cultural artifacts across five categories from seven Southeast Asia countries, whose diverse cultures are often overlooked, accompanied by 3,178 questions, of which 1,093 are unique and meticulously curated by human annotators. Our evaluation of various VLMs reveals the complexities involved in cross-modal cultural reasoning and highlights the disparity between visual reasoning and spatial grounding in culturally nuanced scenarios. The SCB serves as a crucial benchmark for identifying these shortcomings, thereby guiding future developments in the field of cultural reasoning. https://github.com/buraksatar/SeeingCulture

  • 7 authors
·
Sep 19, 2025

EXAONE Path 2.5: Pathology Foundation Model with Multi-Omics Alignment

Cancer progression arises from interactions across multiple biological layers, especially beyond morphological and across molecular layers that remain invisible to image-only models. To capture this broader biological landscape, we present EXAONE Path 2.5, a pathology foundation model that jointly models histologic, genomic, epigenetic and transcriptomic modalities, producing an integrated patient representation that reflects tumor biology more comprehensively. Our approach incorporates three key components: (1) multimodal SigLIP loss enabling all-pairwise contrastive learning across heterogeneous modalities, (2) a fragment-aware rotary positional encoding (F-RoPE) module that preserves spatial structure and tissue-fragment topology in WSI, and (3) domain-specialized internal foundation models for both WSI and RNA-seq to provide biologically grounded embeddings for robust multimodal alignment. We evaluate EXAONE Path 2.5 against six leading pathology foundation models across two complementary benchmarks: an internal real-world clinical dataset and the Patho-Bench benchmark covering 80 tasks. Our framework demonstrates high data and parameter efficiency, achieving on-par performance with state-of-the-art foundation models on Patho-Bench while exhibiting the highest adaptability in the internal clinical setting. These results highlight the value of biologically informed multimodal design and underscore the potential of integrated genotype-to-phenotype modeling for next-generation precision oncology.

  • 7 authors
·
Dec 15, 2025

A smartphone application to detection and classification of coffee leaf miner and coffee leaf rust

Generally, the identification and classification of plant diseases and/or pests are performed by an expert . One of the problems facing coffee farmers in Brazil is crop infestation, particularly by leaf rust Hemileia vastatrix and leaf miner Leucoptera coffeella. The progression of the diseases and or pests occurs spatially and temporarily. So, it is very important to automatically identify the degree of severity. The main goal of this article consists on the development of a method and its i implementation as an App that allow the detection of the foliar damages from images of coffee leaf that are captured using a smartphone, and identify whether it is rust or leaf miner, and in turn the calculation of its severity degree. The method consists of identifying a leaf from the image and separates it from the background with the use of a segmentation algorithm. In the segmentation process, various types of backgrounds for the image using the HSV and YCbCr color spaces are tested. In the segmentation of foliar damages, the Otsu algorithm and the iterative threshold algorithm, in the YCgCr color space, have been used and compared to k-means. Next, features of the segmented foliar damages are calculated. For the classification, artificial neural network trained with extreme learning machine have been used. The results obtained shows the feasibility and effectiveness of the approach to identify and classify foliar damages, and the automatic calculation of the severity. The results obtained are very promising according to experts.

  • 4 authors
·
Mar 19, 2019

Empirical Study of Pop and Jazz Mix Ratios for Genre-Adaptive Chord Generation

Chord progression generation is practically important but understudied. Most large-scale symbolic music systems target melody, multi-track arrangement, or audio synthesis, and chord-only models tend to be relegated to conditioning components inside larger pipelines. This paper treats chord generation as a standalone task and addresses a question that arises whenever such a model is adapted across genres: how much old-domain data must be retained during fine-tuning to acquire a new domain without forgetting the old? I study jazz fine-tuning starting from a pop-pretrained 25M-parameter Music Transformer (84.24% top-1 chord accuracy on a held-out pop test set). The available jazz corpus is an order of magnitude smaller than the pop corpus, so every fine-tune run uses all 1,513 jazz training sequences. The swept variable is the volume of pop "rehearsal" data mixed alongside, taking values in {0, 1K, 2.5K, 5K, 10K}. Every fine-tuned model gains 7 to 9 points of jazz top-1. Pop accuracy collapses by 2.14 points under jazz-only fine-tuning, recovers to baseline at approximately 2.5K rehearsal samples (1.65x the jazz volume), and saturates beyond that point. A complementary observation: the metric-best run (F3, 2.5K mix) is not always the perceptually preferred one. The pop-leaning (10K) and jazz-leaning (1K) endpoints carry more committed stylistic identities that the author more often selects as finished output in informal listening. I discuss what this suggests for music co-creation tools but make no perceptual claim, since no formal listening study has been conducted. All six checkpoints are released on the HuggingFace Hub at https://huggingface.co/PearlLeeStudio.

  • 1 authors
·
May 5

Thinking Deeper, Not Longer: Depth-Recurrent Transformers for Compositional Generalization

Standard Transformers have a fixed computational depth, fundamentally limiting their ability to generalize to tasks requiring variable-depth reasoning, such as multi-hop graph traversal or nested logic. We propose a depth-recurrent Transformer that decouples computational depth from parameter count by iteratively applying a shared-weight Transformer block in latent space -- enabling the model to trade recurrence steps for deeper reasoning at inference time. Our architecture incorporates three mechanisms to make deep recurrence (20+ steps) stable: (1) a silent thinking objective that supervises only the final output, forcing genuine multi-step reasoning rather than intermediate heuristic shortcuts; (2) LayerScale initialization to protect fragile reasoning states from untrained layer noise; and (3) an identity-biased recurrence that creates a gradient highway across many steps. We evaluate on three compositional reasoning domains with decreasing inductive biases: graph reachability (strict adjacency masking), nested boolean logic (relative positioning), and unstructured relational text (where sequence position provides no structural hints). Across all tasks, we observe a clear computational frontier -- a boundary where performance transitions from chance to near-perfect as thinking steps scale with task complexity. Moreover, these tasks reveal qualitatively different generalization behaviors: precise but brittle (graph), approximate but robust (logic), and autonomous latent routing without structural hints (text). This progression illuminates how the interplay between a task-invariant recurrent reasoning core and task-specific perceptual interfaces shapes out-of-distribution (OOD) generalization, offering a mechanistic perspective on vertical chain-of-thought that complements the prevailing horizontal token-generation paradigm.

  • 1 authors
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Mar 23

Ultralytics YOLO Evolution: An Overview of YOLO26, YOLO11, YOLOv8 and YOLOv5 Object Detectors for Computer Vision and Pattern Recognition

This paper presents a comprehensive overview of the Ultralytics YOLO(You Only Look Once) family of object detectors, focusing the architectural evolution, benchmarking, deployment perspectives, and future challenges. The review begins with the most recent release, YOLO26 (YOLOv26), which introduces key innovations including Distribution Focal Loss (DFL) removal, native NMS-free inference, Progressive Loss Balancing (ProgLoss), Small-Target-Aware Label Assignment (STAL), and the MuSGD optimizer for stable training. The progression is then traced through YOLO11, with its hybrid task assignment and efficiency-focused modules; YOLOv8, which advanced with a decoupled detection head and anchor-free predictions; and YOLOv5, which established the modular PyTorch foundation that enabled modern YOLO development. Benchmarking on the MS COCO dataset provides a detailed quantitative comparison of YOLOv5, YOLOv8, YOLO11, and YOLO26, alongside cross-comparisons with YOLOv12, YOLOv13, RT-DETR, and DEIM. Metrics including precision, recall, F1 score, mean Average Precision, and inference speed are analyzed to highlight trade-offs between accuracy and efficiency. Deployment and application perspectives are further discussed, covering export formats, quantization strategies, and real-world use in robotics, agriculture, surveillance, and manufacturing. Finally, the paper identifies challenges and future directions, including dense-scene limitations, hybrid CNN-Transformer integration, open-vocabulary detection, and edge-aware training approaches.

  • 2 authors
·
Oct 6, 2025

5C Prompt Contracts: A Minimalist, Creative-Friendly, Token-Efficient Design Framework for Individual and SME LLM Usage

The progression from traditional prompt engineering to a more rigorous discipline of prompt design marks a pivotal shift in human-LLM interaction. As Large Language Models (LLMs) become increasingly embedded in mission-critical applications, there emerges a pressing need for frameworks that are not only explicit and systematic but also minimal enough to remain practical and broadly accessible. While many existing approaches address prompt structuring through elaborate Domain-Specific Languages (DSLs) or multi-layered templates, such methods can impose significant token and cognitive overhead, potentially constraining the model's creative capacity. In this context, we propose the 5C Prompt Contract, a framework that distills prompt design into five intuitive components: Character, Cause, Constraint, Contingency, and Calibration. This minimal cognitive schema explicitly integrates fallback and output optimization directives, fostering reliable, interpretable, and creatively flexible AI interactions. Experimental results demonstrate that the 5C framework consistently achieves superior input token efficiency while maintaining rich and consistent outputs across diverse LLM architectures (OpenAI, Anthropic, DeepSeek, and Gemini), making it particularly suited for individuals and Small-to-Medium Enterprises (SMEs) with limited AI engineering resources.

  • 1 authors
·
Jul 9, 2025

Graphs Meet AI Agents: Taxonomy, Progress, and Future Opportunities

AI agents have experienced a paradigm shift, from early dominance by reinforcement learning (RL) to the rise of agents powered by large language models (LLMs), and now further advancing towards a synergistic fusion of RL and LLM capabilities. This progression has endowed AI agents with increasingly strong abilities. Despite these advances, to accomplish complex real-world tasks, agents are required to plan and execute effectively, maintain reliable memory, and coordinate smoothly with other agents. Achieving these capabilities involves contending with ever-present intricate information, operations, and interactions. In light of this challenge, data structurization can play a promising role by transforming intricate and disorganized data into well-structured forms that agents can more effectively understand and process. In this context, graphs, with their natural advantage in organizing, managing, and harnessing intricate data relationships, present a powerful data paradigm for structurization to support the capabilities demanded by advanced AI agents. To this end, this survey presents a first systematic review of how graphs can empower AI agents. Specifically, we explore the integration of graph techniques with core agent functionalities, highlight notable applications, and identify prospective avenues for future research. By comprehensively surveying this burgeoning intersection, we hope to inspire the development of next-generation AI agents equipped to tackle increasingly sophisticated challenges with graphs. Related resources are collected and continuously updated for the community in the Github link.

  • 13 authors
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Jul 3, 2025

Benchmarking Open-ended Audio Dialogue Understanding for Large Audio-Language Models

Large Audio-Language Models (LALMs) have unclocked audio dialogue capabilities, where audio dialogues are a direct exchange of spoken language between LALMs and humans. Recent advances, such as GPT-4o, have enabled LALMs in back-and-forth audio dialogues with humans. This progression not only underscores the potential of LALMs but also broadens their applicability across a wide range of practical scenarios supported by audio dialogues. However, given these advancements, a comprehensive benchmark to evaluate the performance of LALMs in the open-ended audio dialogue understanding remains absent currently. To address this gap, we propose an Audio Dialogue Understanding Benchmark (ADU-Bench), which consists of 4 benchmark datasets. They assess the open-ended audio dialogue ability for LALMs in 3 general scenarios, 12 skills, 9 multilingual languages, and 4 categories of ambiguity handling. Notably, we firstly propose the evaluation of ambiguity handling in audio dialogues that expresses different intentions beyond the same literal meaning of sentences, e.g., "Really!?" with different intonations. In summary, ADU-Bench includes over 20,000 open-ended audio dialogues for the assessment of LALMs. Through extensive experiments conducted on 13 LALMs, our analysis reveals that there is still considerable room for improvement in the audio dialogue understanding abilities of existing LALMs. In particular, they struggle with mathematical symbols and formulas, understanding human behavior such as roleplay, comprehending multiple languages, and handling audio dialogue ambiguities from different phonetic elements, such as intonations, pause positions, and homophones.

  • 5 authors
·
Dec 6, 2024

Auto-Regressive vs Flow-Matching: a Comparative Study of Modeling Paradigms for Text-to-Music Generation

Recent progress in text-to-music generation has enabled models to synthesize high-quality musical segments, full compositions, and even respond to fine-grained control signals, e.g. chord progressions. State-of-the-art (SOTA) systems differ significantly across many dimensions, such as training datasets, modeling paradigms, and architectural choices. This diversity complicates efforts to evaluate models fairly and pinpoint which design choices most influence performance. While factors like data and architecture are important, in this study we focus exclusively on the modeling paradigm. We conduct a systematic empirical analysis to isolate its effects, offering insights into associated trade-offs and emergent behaviors that can guide future text-to-music generation systems. Specifically, we compare the two arguably most common modeling paradigms: Auto-Regressive decoding and Conditional Flow-Matching. We conduct a controlled comparison by training all models from scratch using identical datasets, training configurations, and similar backbone architectures. Performance is evaluated across multiple axes, including generation quality, robustness to inference configurations, scalability, adherence to both textual and temporally aligned conditioning, and editing capabilities in the form of audio inpainting. This comparative study sheds light on distinct strengths and limitations of each paradigm, providing actionable insights that can inform future architectural and training decisions in the evolving landscape of text-to-music generation. Audio sampled examples are available at: https://huggingface.co/spaces/ortal1602/ARvsFM

  • 3 authors
·
Jun 10, 2025 2

Mechanist: AI as a Scientific Instrument for Discovering the Mechanisms of Intelligence

AI models have achieved remarkable success across diverse domains, yet the mechanisms underlying their capabilities and the risks they may pose remain poorly understood. As AI development becomes faster and increasingly automated, mechanistic exploration remains largely manual, widening the gap between what models can do and our ability to understand and control them. To bridge this gap, we introduce Mechanist, an agentic system that uses AI as a scientific instrument for the autonomous discovery of mechanisms underlying AI intelligence. To support autonomous mechanistic discovery, we construct an interpretability-focused knowledge graph of approximately 13,000 papers and integrate it with a multidisciplinary database of 43 million papers spanning 26 fields. We further curate a library of 32 foundational methods for mechanism analysis, causal intervention, and validation. Compared with Claude Code and existing AI-scientist systems, Mechanist generates more valuable mechanism hypotheses and executes experiments more reliably. Mechanist also demonstrates a progression from discovering model behaviors to explaining and controlling AI models. Specifically, Mechanist first uncovers a counterintuitive safety risk in scientific laboratories, showing that unsafe traits can transfer across modalities through apparently safe training data. Mechanist then develops a mechanism theory of belief, revealing how models represent world knowledge, form beliefs, infer the beliefs of others, and how these mechanisms emerge during pretraining. Finally, Mechanist translates these mechanistic insights into practical interventions that improve model performance across diverse scenarios and steer scientific foundation models toward generating DNA sequences with specified properties.

zjunlp ZJUNLP
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Aug 11 2

Externalization in LLM Agents: A Unified Review of Memory, Skills, Protocols and Harness Engineering

Large language model (LLM) agents are increasingly built less by changing model weights than by reorganizing the runtime around them. Capabilities that earlier systems expected the model to recover internally are now externalized into memory stores, reusable skills, interaction protocols, and the surrounding harness that makes these modules reliable in practice. This paper reviews that shift through the lens of externalization. Drawing on the idea of cognitive artifacts, we argue that agent infrastructure matters not merely because it adds auxiliary components, but because it transforms hard cognitive burdens into forms that the model can solve more reliably. Under this view, memory externalizes state across time, skills externalize procedural expertise, protocols externalize interaction structure, and harness engineering serves as the unification layer that coordinates them into governed execution. We trace a historical progression from weights to context to harness, analyze memory, skills, and protocols as three distinct but coupled forms of externalization, and examine how they interact inside a larger agent system. We further discuss the trade-off between parametric and externalized capability, identify emerging directions such as self-evolving harnesses and shared agent infrastructure, and discuss open challenges in evaluation, governance, and the long-term co-evolution of models and external infrastructure. The result is a systems-level framework for explaining why practical agent progress increasingly depends not only on stronger models, but on better external cognitive infrastructure.

Simulating the Visual World with Artificial Intelligence: A Roadmap

The landscape of video generation is shifting, from a focus on generating visually appealing clips to building virtual environments that support interaction and maintain physical plausibility. These developments point toward the emergence of video foundation models that function not only as visual generators but also as implicit world models, models that simulate the physical dynamics, agent-environment interactions, and task planning that govern real or imagined worlds. This survey provides a systematic overview of this evolution, conceptualizing modern video foundation models as the combination of two core components: an implicit world model and a video renderer. The world model encodes structured knowledge about the world, including physical laws, interaction dynamics, and agent behavior. It serves as a latent simulation engine that enables coherent visual reasoning, long-term temporal consistency, and goal-driven planning. The video renderer transforms this latent simulation into realistic visual observations, effectively producing videos as a "window" into the simulated world. We trace the progression of video generation through four generations, in which the core capabilities advance step by step, ultimately culminating in a world model, built upon a video generation model, that embodies intrinsic physical plausibility, real-time multimodal interaction, and planning capabilities spanning multiple spatiotemporal scales. For each generation, we define its core characteristics, highlight representative works, and examine their application domains such as robotics, autonomous driving, and interactive gaming. Finally, we discuss open challenges and design principles for next-generation world models, including the role of agent intelligence in shaping and evaluating these systems. An up-to-date list of related works is maintained at this link.

  • 6 authors
·
Nov 11, 2025 3

A Survey of Neural Code Intelligence: Paradigms, Advances and Beyond

Neural Code Intelligence -- leveraging deep learning to understand, generate, and optimize code -- holds immense potential for transformative impacts on the whole society. Bridging the gap between Natural Language and Programming Language, this domain has drawn significant attention from researchers in both research communities over the past few years. This survey presents a systematic and chronological review of the advancements in code intelligence, encompassing over 50 representative models and their variants, more than 20 categories of tasks, and an extensive coverage of over 680 related works. We follow the historical progression to trace the paradigm shifts across different research phases (e.g., from modeling code with recurrent neural networks to the era of Large Language Models). Concurrently, we highlight the major technical transitions in models, tasks, and evaluations spanning through different stages. For applications, we also observe a co-evolving shift. It spans from initial endeavors to tackling specific scenarios, through exploring a diverse array of tasks during its rapid expansion, to currently focusing on tackling increasingly complex and varied real-world challenges. Building on our examination of the developmental trajectories, we further investigate the emerging synergies between code intelligence and broader machine intelligence, uncovering new cross-domain opportunities and illustrating the substantial influence of code intelligence across various domains. Finally, we delve into both the opportunities and challenges associated with this field, alongside elucidating our insights on the most promising research directions. An ongoing, dynamically updated project and resources associated with this survey have been released at https://github.com/QiushiSun/NCISurvey.

  • 18 authors
·
Mar 21, 2024

SVI-Bench: A Dynamic Microworld for Strategic Video Intelligence

True video intelligence demands more than recognizing what is visible: it requires reasoning about why events unfold, predicting what would change under different conditions, and deciding what to do next. We refer to this progression, from perception through causal reasoning and simulation to strategic planning, as Strategic Video Intelligence (SVI). No existing benchmark evaluates this capability stack: in-the-wild videos lack verifiable ground truth for causal and strategic questions, while synthetic environments sacrifice the complexity of real multi-agent systems. To bridge this gap, we introduce SVI-Bench, a large-scale benchmark that leverages team sports as a dynamic microworld, combining the complexity of real-world multi-agent interaction (10-22 agents making coordinated decisions under adversarial pressure) with the verifiability of explicit rules and definitive outcomes. SVI-Bench comprises approximately 35K hours of broadcast video, 15M annotated actions, 15K hours of expert commentary, 23K game reports, and 103K structured statistical records across basketball, soccer, and hockey, all constructed via a data engine that transforms raw game data into a dense, cross-referenced corpus. We organize evaluation into 9 tasks spanning a progressive four-pillar hierarchy: Dynamic Scene Understanding, Causal Reasoning, Strategic Simulation, and Agentic Synthesis. Evaluating strong multimodal and agentic baselines, we find a capability cliff: models perform competently on perceptual tasks, achieving approximately 73% on fine-grained action QA, but degrade sharply at each successive cognitive level. Agentic tasks prove hardest: the strongest model achieves only 5% accuracy when required to autonomously gather and integrate evidence across a corpus of 1.8M clips.

The Path Ahead for Agentic AI: Challenges and Opportunities

The evolution of Large Language Models (LLMs) from passive text generators to autonomous, goal-driven systems represents a fundamental shift in artificial intelligence. This chapter examines the emergence of agentic AI systems that integrate planning, memory, tool use, and iterative reasoning to operate autonomously in complex environments. We trace the architectural progression from statistical models to transformer-based systems, identifying capabilities that enable agentic behavior: long-range reasoning, contextual awareness, and adaptive decision-making. The chapter provides three contributions: (1) a synthesis of how LLM capabilities extend toward agency through reasoning-action-reflection loops; (2) an integrative framework describing core components perception, memory, planning, and tool execution that bridge LLMs with autonomous behavior; (3) a critical assessment of applications and persistent challenges in safety, alignment, reliability, and sustainability. Unlike existing surveys, we focus on the architectural transition from language understanding to autonomous action, emphasizing the technical gaps that must be resolved before deployment. We identify critical research priorities, including verifiable planning, scalable multi-agent coordination, persistent memory architectures, and governance frameworks. Responsible advancement requires simultaneous progress in technical robustness, interpretability, and ethical safeguards to realize potential while mitigating risks of misalignment and unintended consequences.

  • 6 authors
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Jan 6

How GPT learns layer by layer

Large Language Models (LLMs) excel at tasks like language processing, strategy games, and reasoning but struggle to build generalizable internal representations essential for adaptive decision-making in agents. For agents to effectively navigate complex environments, they must construct reliable world models. While LLMs perform well on specific benchmarks, they often fail to generalize, leading to brittle representations that limit their real-world effectiveness. Understanding how LLMs build internal world models is key to developing agents capable of consistent, adaptive behavior across tasks. We analyze OthelloGPT, a GPT-based model trained on Othello gameplay, as a controlled testbed for studying representation learning. Despite being trained solely on next-token prediction with random valid moves, OthelloGPT shows meaningful layer-wise progression in understanding board state and gameplay. Early layers capture static attributes like board edges, while deeper layers reflect dynamic tile changes. To interpret these representations, we compare Sparse Autoencoders (SAEs) with linear probes, finding that SAEs offer more robust, disentangled insights into compositional features, whereas linear probes mainly detect features useful for classification. We use SAEs to decode features related to tile color and tile stability, a previously unexamined feature that reflects complex gameplay concepts like board control and long-term planning. We study the progression of linear probe accuracy and tile color using both SAE's and linear probes to compare their effectiveness at capturing what the model is learning. Although we begin with a smaller language model, OthelloGPT, this study establishes a framework for understanding the internal representations learned by GPT models, transformers, and LLMs more broadly. Our code is publicly available: https://github.com/ALT-JS/OthelloSAE.

  • 6 authors
·
Jan 13, 2025

From Individual to Society: A Survey on Social Simulation Driven by Large Language Model-based Agents

Traditional sociological research often relies on human participation, which, though effective, is expensive, challenging to scale, and with ethical concerns. Recent advancements in large language models (LLMs) highlight their potential to simulate human behavior, enabling the replication of individual responses and facilitating studies on many interdisciplinary studies. In this paper, we conduct a comprehensive survey of this field, illustrating the recent progress in simulation driven by LLM-empowered agents. We categorize the simulations into three types: (1) Individual Simulation, which mimics specific individuals or demographic groups; (2) Scenario Simulation, where multiple agents collaborate to achieve goals within specific contexts; and (3) Society Simulation, which models interactions within agent societies to reflect the complexity and variety of real-world dynamics. These simulations follow a progression, ranging from detailed individual modeling to large-scale societal phenomena. We provide a detailed discussion of each simulation type, including the architecture or key components of the simulation, the classification of objectives or scenarios and the evaluation method. Afterward, we summarize commonly used datasets and benchmarks. Finally, we discuss the trends across these three types of simulation. A repository for the related sources is at {https://github.com/FudanDISC/SocialAgent}.

  • 11 authors
·
Dec 4, 2024

Industrial Dexterity Benchmark: A Hardware-Software Benchmarking Platform for Industrial Dexterous Manipulation

Dexterous manipulation remains a critical bottleneck in industrial automation; tasks such as cable routing, connector insertion, and precision assembly still rely heavily on manual labor despite decades of robotics research. This work presents a progression from classical, modular robotics pipelines toward an end-to-end multimodal imitation-learning framework for industrial dexterous manipulation. As a part of this work, we introduce three key contributions: a set of Industrial Dexterity Benchmark (IDB) boards aimed to mimic datacenter cable management, automotive cable harnesses, and gearbox assembly tasks; a scalable imitation learning framework (DAG-ROS); and a multimodal diffusion-based policy framework (AG-iDP3) that creates models fusing RGB images, point clouds, joint positions, and wrist-frame wrench data. Focusing on the datacenter cable manipulation board, we evaluate the performance of a task involving cleaning a single cable over variations of an end-to-end AI policy using 48 trials per configuration. The best performing configuration, a multimodal expansion Diffusion Policy (DP), includes a multi-view RGB image source passed through an R3M encoder and reaches a 78% grasp and insert combined task success rate. This performance marks a significant improvement over the 36% observed from the single-camera RGB DP baseline. Each of the tested configurations requires only approximately 100 teleoperated demonstrations per task phase. These results indicate that the correct learned policy can outperform classical vision and control robotic methods in robustness, generalization, and deployment efficiency, justifying a shift toward scalable robotic automation for high up-time industrial environments.

  • 11 authors
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Jul 14

DeepTumorVQA: A Hierarchical 3D CT Benchmark for Stage-Wise Evaluation of Medical VLMs and Tool-Augmented Agents

Medical vision-language models (VLMs) and AI agents have made significant progress in learning to analyze and reason about clinical images. However, existing medical visual question answering (VQA) benchmarks collapse model capabilities into a single accuracy score, obscuring where and why models fail. We propose DeepTumorVQA, a hierarchical benchmark that follows the multi-stage evidence chain in tumor diagnosis and decomposes 3D CT reasoning into four stages: recognition, measurement, visual reasoning, and medical reasoning. Higher-level questions remain independently scorable, while their ground-truth evidence chains are defined over lower-level primitives. The benchmark contains 476K questions across 42 clinical subtypes on 9,262 3D CT volumes. In addition to a direct reasoning mode for VLMs, DeepTumorVQA provides tool-interaction environments for agent evaluation, where a model can call external tools, including segmentation models, measurement programs, and medical knowledge modules, before answering the question. Evaluating over 30 model configurations, we find that reliable quantitative measurement is the primary bottleneck, making later-stage visual and medical reasoning harder for VLMs, while tool augmentation substantially mitigates this issue. When tools are available, leveraging medical knowledge and tools to reason about medical images becomes a new challenge. We further show that ground-truth step-by-step tool-use traces from DeepTumorVQA can supervise agents and reduce tool-use and reasoning failures. This stage-wise progression from recognition to measurement to visual and medical reasoning provides a concrete roadmap for future medical VLM and AI agent studies. All data and code are released at https://github.com/Schuture/DeepTumorVQA.

  • 10 authors
·
May 9

Advancements in Machine Learning and Deep Learning for Early Detection and Management of Mental Health Disorder

For the early identification, diagnosis, and treatment of mental health illnesses, the integration of deep learning (DL) and machine learning (ML) has started playing a significant role. By evaluating complex data from imaging, genetics, and behavioral assessments, these technologies have the potential to significantly improve clinical outcomes. However, they also present unique challenges related to data integration and ethical issues. This survey reviews the development of ML and DL methods for the early diagnosis and treatment of mental health issues. It examines a range of applications, with a particular emphasis on behavioral assessments, genetic and biomarker analysis, and medical imaging for diagnosing diseases like depression, bipolar disorder, and schizophrenia. Predictive modeling for illness progression is further discussed, focusing on the role of risk prediction models and longitudinal studies. Key findings highlight how ML and DL can improve diagnostic accuracy and treatment outcomes while addressing methodological inconsistencies, data integration challenges, and ethical concerns. The study emphasizes the importance of building real-time monitoring systems for individualized treatment, enhancing data fusion techniques, and fostering interdisciplinary collaboration. Future research should focus on overcoming these obstacles to ensure the valuable and ethical application of ML and DL in mental health services.

  • 6 authors
·
Dec 8, 2024

Show, Don't Tell: Evaluating Large Language Models Beyond Textual Understanding with ChildPlay

We developed a benchmark set to assess the generalization of state-of-the-art large language models on problems beyond linguistic tasks and evaluate it on a systematic progression of GPT models (GPT-3.5, GPT-4, GPT-4o, GPT-4o-mini). Using simple games like Tic-Tac-Toe, Connect Four, Battleship, and a Shape Recognition Game, all encoded in ASCII, we test strategic capabilities and spatial reasoning, core abilities any artificial intelligence would need to master for solving problems in chemistry. To probe generalization, we introduce two new games for spatial logic: LEGO Connect Language (LCL) and Guess-the-SMILES (GtS), a operationally simple chemistry benchmark. Our results show that GPT models provide meaningful responses for several tasks but, generally, perform poorly. A systematic performance progression with increased model capabilities (GPT-3.5, GPT-4, GPT-4o) is only observed for 4 out of the 7 benchmark tasks. All models consistently struggle with Battleship, LCL, and GtS. This suggests that while GPT models can emulate conversational proficiency and basic rule comprehension, they have limited generalization with respect to strategy and spatial reasoning. Particularly poor performance is observed for interpreting molecular graphs when encoded in ASCII. The results provided by our open-source benchmark suite (https://github.com/BlueVelvetSackOfGoldPotatoes/child-play{ChildPlay GitHub Repository}) caution against claims of emergent intelligence in GPT models, which appear more specialized than general.

  • 3 authors
·
Jul 12, 2024

Source Echo Chamber: Exploring the Escalation of Source Bias in User, Data, and Recommender System Feedback Loop

Recently, researchers have uncovered that neural retrieval models prefer AI-generated content (AIGC), called source bias. Compared to active search behavior, recommendation represents another important means of information acquisition, where users are more prone to source bias. Furthermore, delving into the recommendation scenario, as AIGC becomes integrated within the feedback loop involving users, data, and the recommender system, it progressively contaminates the candidate items, the user interaction history, and ultimately, the data used to train the recommendation models. How and to what extent the source bias affects the neural recommendation models within feedback loop remains unknown. In this study, we extend the investigation of source bias into the realm of recommender systems, specifically examining its impact across different phases of the feedback loop. We conceptualize the progression of AIGC integration into the recommendation content ecosystem in three distinct phases-HGC dominate, HGC-AIGC coexist, and AIGC dominance-each representing past, present, and future states, respectively. Through extensive experiments across three datasets from diverse domains, we demonstrate the prevalence of source bias and reveal a potential digital echo chamber with source bias amplification throughout the feedback loop. This trend risks creating a recommender ecosystem with limited information source, such as AIGC, being disproportionately recommended. To counteract this bias and prevent its escalation in the feedback loop, we introduce a black-box debiasing method that maintains model impartiality towards both HGC and AIGC. Our experimental results validate the effectiveness of the proposed debiasing method, confirming its potential to disrupt the feedback loop.

  • 7 authors
·
May 28, 2024

Cost-effectiveness analysis for therapy sequence in advanced cancer: A microsimulation approach with application to metastatic prostate cancer

Purpose. Patients with advanced cancer may undergo multiple lines of treatment, switching therapies as their disease progresses. Motivated by a study of metastatic prostate cancer, we develop a microsimulation framework to study therapy sequence. Methods. We propose a discrete-time state transition model to study two lines of anti-cancer therapy. Based on digitized published progression-free survival (PFS) and overall survival (OS) curves, we infer event types (progression or death), and estimate transition probabilities using cumulative incidence functions with competing risks. Our model incorporates within-patient dependence over time, such that response to first-line therapy informs subsequent event probabilities. Parameters governing the degree of within-patient dependence can be used to calibrate the model-based results to those of a target trial. We demonstrate these methods in a study of two therapy sequences for metastatic prostate cancer, where Docetaxel (DCT) and Abiraterone Acetate (AA) are both appropriate for use in either first or second line treatment. We assess costs, Quality-Adjusted Life Years (QALYs) and Incremental Cost Effectiveness Ratio (ICER) for two treatment strategies: DCT then AA vs AA then DCT. Results. Using digitized survival curves from relevant clinical trials, we identified 8.6-13.9% of PFS times that should be categorized as deaths, allowing for estimation of cumulative incidence functions. Models assuming within-patient independence overestimated OS time, corrected with our calibration approach. Correction resulted in meaningful changes in the difference in QALYs between treatment strategies (0.07 vs 0.15) and the ICER (-\76,836/QALY vs -21,030/QALY). Conclusions. Microsimulation models can be successfully used to study cost-effectiveness of therapy sequences, taking care to account correctly for within-patient dependence.

  • 5 authors
·
Oct 10, 2022

NCP-ArchPreview Technical Report: Moving towards Latent Space Language Models through Next Concept Prediction

We introduce NCP-ArchPreview, a latent-space language model that pushes autoregressive pretraining beyond standard next-token prediction (NTP). Alongside NTP, the model learns through Next Concept Prediction (NCP) to predict discrete concepts that span multiple tokens, introducing an explicit and more challenging concept-level objective while preserving standard token-level autoregressive generation. NCP-ArchPreview builds a latent space by constructing a product-quantized concept vocabulary directly from its hidden states, and subsequently learns to predict future concepts via a dedicated Concept Module. These predicted concepts are then fed back to the token level to guide subsequent generation, with NTP and NCP trained jointly end-to-end. We scale this architecture to 8.9B parameters and train it on 5.73T tokens from the Dolma-3 dataset, marking the largest demonstration of a latent-space language model to date. Remarkably, by consuming only 51.3% of the total training tokens, NCP-ArchPreview achieves the final pretraining loss of OLMo-3-7B. Following full pretraining, it outperforms OLMo-3-7B by 2.45 points on the downstream macro-average, including a notable 5.99-point gain on GSM8K. Controlled experiments isolate a clear progression of performance gains stemming from both the latent architecture and the NCP objective. Furthermore, utilizing only 85% of the standard computation, NCP-ArchPreview approaches the training loss of a strictly parameter-aligned 8.9B baseline. The learned latent space remains highly valuable after the pretraining stage: updating just the 17M-parameter VQ module yields a novel, lightweight interface for domain adaptation, while a simple injection of concept representations into a DFlash2 drafter improves the mean accepted length by 4.17% with negligible overhead.

  • 28 authors
·
Sep 8 3

SmartSearch: Process Reward-Guided Query Refinement for Search Agents

Large language model (LLM)-based search agents have proven promising for addressing knowledge-intensive problems by incorporating information retrieval capabilities. Existing works largely focus on optimizing the reasoning paradigms of search agents, yet the quality of intermediate search queries during reasoning remains overlooked. As a result, the generated queries often remain inaccurate, leading to unexpected retrieval results and ultimately limiting search agents' overall effectiveness. To mitigate this issue, we introduce SmartSearch, a framework built upon two key mechanisms: (1) Process rewards, which provide fine-grained supervision for the quality of each intermediate search query through Dual-Level Credit Assessment. (2) Query refinement, which promotes the optimization of query generation by selectively refining low-quality search queries and regenerating subsequent search rounds based on these refinements. To enable the search agent to progressively internalize the ability to improve query quality under the guidance of process rewards, we design a three-stage curriculum learning framework. This framework guides the agent through a progression from imitation, to alignment, and ultimately to generalization. Experimental results show that SmartSearch consistently surpasses existing baselines, and additional quantitative analyses further confirm its significant gains in both search efficiency and query quality. The code is available at https://github.com/MYVAE/SmartSearch.

  • 3 authors
·
Jan 8 3

Benchmarking Information Retrieval Models on Complex Retrieval Tasks

Large language models (LLMs) are incredible and versatile tools for text-based tasks that have enabled countless, previously unimaginable, applications. Retrieval models, in contrast, have not yet seen such capable general-purpose models emerge. To achieve this goal, retrieval models must be able to perform complex retrieval tasks, where queries contain multiple parts, constraints, or requirements in natural language. These tasks represent a natural progression from the simple, single-aspect queries that are used in the vast majority of existing, commonly used evaluation sets. Complex queries naturally arise as people expect search systems to handle more specific and often ambitious information requests, as is demonstrated by how people use LLM-based information systems. Despite the growing desire for retrieval models to expand their capabilities in complex retrieval tasks, there exist limited resources to assess the ability of retrieval models on a comprehensive set of diverse complex tasks. The few resources that do exist feature a limited scope and often lack realistic settings making it hard to know the true capabilities of retrieval models on complex real-world retrieval tasks. To address this shortcoming and spur innovation in next-generation retrieval models, we construct a diverse and realistic set of complex retrieval tasks and benchmark a representative set of state-of-the-art retrieval models. Additionally, we explore the impact of LLM-based query expansion and rewriting on retrieval quality. Our results show that even the best models struggle to produce high-quality retrieval results with the highest average nDCG@10 of only 0.346 and R@100 of only 0.587 across all tasks. Although LLM augmentation can help weaker models, the strongest model has decreased performance across all metrics with all rewriting techniques.

  • 2 authors
·
Sep 8, 2025 2

Sell More, Play Less: Benchmarking LLM Realistic Selling Skill

Sales dialogues require multi-turn, goal-directed persuasion under asymmetric incentives, which makes them a challenging setting for large language models (LLMs). Yet existing dialogue benchmarks rarely measure deal progression and outcomes. We introduce SalesLLM benchmark, a bilingual (ZH/EN) benchmark derived from realistic applications covering Financial Services and Consumer Goods, built from 30,074 scripted configurations and 1,805 curated multi-turn scenarios with controllable difficulty and personas. We propose a fully automatic evaluation pipeline that combines (i) an LLM judge for sales-process progress, and (ii) fine-tuned BERT classifiers for end-of-dialogue buying intent. To improve simulation fidelity, we train a user model, CustomerLM, with SFT and DPO on 8,000+ crowdworker-involved sales conversations, reducing role inversion from 17.44% (GPT-4o) to 8.8%. SalesLLM benchmark scores correlate strongly with human ratings (average Pearson r=0.86; inter-annotator agreement Krippendorff's alpha=0.86, 500 annotations per model). Across 15 mainstream LLMs, in Chinese the strongest models are competitive with typical (junior-to-intermediate) human salespeople -- not with sales experts -- while weaker ones fall below this baseline, and cross-lingual consistency remains poor. SalesLLM benchmark serves as a scalable benchmark for outcome-oriented sales agents. Our code and data are released at https://github.com/Bairong-Xdynamics/Benchmarking-LLM-Realistic-Selling-Skill

  • 11 authors
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Aug 25

Clinically-Inspired Multi-Agent Transformers for Disease Trajectory Forecasting from Multimodal Data

Deep neural networks are often applied to medical images to automate the problem of medical diagnosis. However, a more clinically relevant question that practitioners usually face is how to predict the future trajectory of a disease. Current methods for prognosis or disease trajectory forecasting often require domain knowledge and are complicated to apply. In this paper, we formulate the prognosis prediction problem as a one-to-many prediction problem. Inspired by a clinical decision-making process with two agents -- a radiologist and a general practitioner -- we predict prognosis with two transformer-based components that share information with each other. The first transformer in this framework aims to analyze the imaging data, and the second one leverages its internal states as inputs, also fusing them with auxiliary clinical data. The temporal nature of the problem is modeled within the transformer states, allowing us to treat the forecasting problem as a multi-task classification, for which we propose a novel loss. We show the effectiveness of our approach in predicting the development of structural knee osteoarthritis changes and forecasting Alzheimer's disease clinical status directly from raw multi-modal data. The proposed method outperforms multiple state-of-the-art baselines with respect to performance and calibration, both of which are needed for real-world applications. An open-source implementation of our method is made publicly available at https://github.com/Oulu-IMEDS/CLIMATv2.

  • 4 authors
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Oct 25, 2022

Observe-R1: Unlocking Reasoning Abilities of MLLMs with Dynamic Progressive Reinforcement Learning

Reinforcement Learning (RL) has shown promise in improving the reasoning abilities of Large Language Models (LLMs). However, the specific challenges of adapting RL to multimodal data and formats remain relatively unexplored. In this work, we present Observe-R1, a novel framework aimed at enhancing the reasoning capabilities of multimodal large language models (MLLMs). We draw inspirations from human learning progression--from simple to complex and easy to difficult, and propose a gradual learning paradigm for MLLMs. To this end, we construct the NeuraLadder dataset, which is organized and sampled according to the difficulty and complexity of data samples for RL training. To tackle multimodal tasks, we introduce a multimodal format constraint that encourages careful observation of images, resulting in enhanced visual abilities and clearer and more structured responses. Additionally, we implement a bonus reward system that favors concise, correct answers within a length constraint, alongside a dynamic weighting mechanism that prioritizes uncertain and medium-difficulty problems, ensuring that more informative samples have a greater impact on training. Our experiments with the Qwen2.5-VL-3B and Qwen2.5-VL-7B models on 20k samples from the NeuraLadder dataset show that Observe-R1 outperforms a series of larger reasoning models on both reasoning and general benchmarks, achieving superior clarity and conciseness in reasoning chains. Ablation studies validate the effectiveness of our strategies, highlighting the robustness and generalization of our approach. The dataset and code will be released at https://github.com/zrguo/Observe-R1.

  • 3 authors
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May 18, 2025

Enhancing End Stage Renal Disease Outcome Prediction: A Multi-Sourced Data-Driven Approach

Objective: To improve prediction of Chronic Kidney Disease (CKD) progression to End Stage Renal Disease (ESRD) using machine learning (ML) and deep learning (DL) models applied to an integrated clinical and claims dataset of varying observation windows, supported by explainable AI (XAI) to enhance interpretability and reduce bias. Materials and Methods: We utilized data about 10,326 CKD patients, combining their clinical and claims information from 2009 to 2018. Following data preprocessing, cohort identification, and feature engineering, we evaluated multiple statistical, ML and DL models using data extracted from five distinct observation windows. Feature importance and Shapley value analysis were employed to understand key predictors. Models were tested for robustness, clinical relevance, misclassification errors and bias issues. Results: Integrated data models outperformed those using single data sources, with the Long Short-Term Memory (LSTM) model achieving the highest AUC (0.93) and F1 score (0.65). A 24-month observation window was identified as optimal for balancing early detection and prediction accuracy. The 2021 eGFR equation improved prediction accuracy and reduced racial bias, notably for African American patients. Discussion: Improved ESRD prediction accuracy, results interpretability and bias mitigation strategies presented in this study have the potential to significantly enhance CKD and ESRD management, support targeted early interventions and reduce healthcare disparities. Conclusion: This study presents a robust framework for predicting ESRD outcomes in CKD patients, improving clinical decision-making and patient care through multi-sourced, integrated data and AI/ML methods. Future research will expand data integration and explore the application of this framework to other chronic diseases.

  • 2 authors
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Oct 1, 2024

Negative Preference Optimization: From Catastrophic Collapse to Effective Unlearning

Large Language Models (LLMs) often memorize sensitive, private, or copyrighted data during pre-training. LLM unlearning aims to eliminate the influence of undesirable data from the pre-trained model while preserving the model's utilities on other tasks. Several practical methods have recently been proposed for LLM unlearning, mostly based on gradient ascent (GA) on the loss of undesirable data. However, on certain unlearning tasks, these methods either fail to effectively unlearn the target data or suffer from catastrophic collapse -- a drastic degradation of the model's utilities. In this paper, we propose Negative Preference Optimization (NPO), a simple alignment-inspired method that could efficiently and effectively unlearn a target dataset. We theoretically show that the progression toward catastrophic collapse by minimizing the NPO loss is exponentially slower than GA. Through experiments on synthetic data and the benchmark TOFU dataset, we demonstrate that NPO-based methods achieve a better balance between unlearning the undesirable data and maintaining the model's utilities. We also observe that NPO-based methods generate more sensible outputs than GA-based methods, whose outputs are often gibberish. Remarkably, on TOFU, NPO-based methods are the first to achieve reasonable unlearning results in forgetting 50% (or more) of the training data, whereas existing methods already struggle with forgetting 10% of training data.

  • 4 authors
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Apr 8, 2024

Individualizing Glioma Radiotherapy Planning by Optimization of Data and Physics-Informed Discrete Loss

Brain tumor growth is unique to each glioma patient and extends beyond what is visible in imaging scans, infiltrating surrounding brain tissue. Understanding these hidden patient-specific progressions is essential for effective therapies. Current treatment plans for brain tumors, such as radiotherapy, typically involve delineating a uniform margin around the visible tumor on pre-treatment scans to target this invisible tumor growth. This "one size fits all" approach is derived from population studies and often fails to account for the nuances of individual patient conditions. We present the GliODIL framework, which infers the full spatial distribution of tumor cell concentration from available multi-modal imaging, leveraging a Fisher-Kolmogorov type physics model to describe tumor growth. This is achieved through the newly introduced method of Optimizing the Discrete Loss (ODIL), where both data and physics-based constraints are softly assimilated into the solution. Our test dataset comprises 152 glioblastoma patients with pre-treatment imaging and post-treatment follow-ups for tumor recurrence monitoring. By blending data-driven techniques with physics-based constraints, GliODIL enhances recurrence prediction in radiotherapy planning, challenging traditional uniform margins and strict adherence to the Fisher-Kolmogorov partial differential equation (PDE) model, which is adapted for complex cases.

  • 10 authors
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Dec 8, 2023

Enhanced Contrastive Learning with Multi-view Longitudinal Data for Chest X-ray Report Generation

Automated radiology report generation offers an effective solution to alleviate radiologists' workload. However, most existing methods focus primarily on single or fixed-view images to model current disease conditions, which limits diagnostic accuracy and overlooks disease progression. Although some approaches utilize longitudinal data to track disease progression, they still rely on single images to analyze current visits. To address these issues, we propose enhanced contrastive learning with Multi-view Longitudinal data to facilitate chest X-ray Report Generation, named MLRG. Specifically, we introduce a multi-view longitudinal contrastive learning method that integrates spatial information from current multi-view images and temporal information from longitudinal data. This method also utilizes the inherent spatiotemporal information of radiology reports to supervise the pre-training of visual and textual representations. Subsequently, we present a tokenized absence encoding technique to flexibly handle missing patient-specific prior knowledge, allowing the model to produce more accurate radiology reports based on available prior knowledge. Extensive experiments on MIMIC-CXR, MIMIC-ABN, and Two-view CXR datasets demonstrate that our MLRG outperforms recent state-of-the-art methods, achieving a 2.3% BLEU-4 improvement on MIMIC-CXR, a 5.5% F1 score improvement on MIMIC-ABN, and a 2.7% F1 RadGraph improvement on Two-view CXR.

  • 7 authors
·
Feb 27, 2025

APTv2: Benchmarking Animal Pose Estimation and Tracking with a Large-scale Dataset and Beyond

Animal Pose Estimation and Tracking (APT) is a critical task in detecting and monitoring the keypoints of animals across a series of video frames, which is essential for understanding animal behavior. Past works relating to animals have primarily focused on either animal tracking or single-frame animal pose estimation only, neglecting the integration of both aspects. The absence of comprehensive APT datasets inhibits the progression and evaluation of animal pose estimation and tracking methods based on videos, thereby constraining their real-world applications. To fill this gap, we introduce APTv2, the pioneering large-scale benchmark for animal pose estimation and tracking. APTv2 comprises 2,749 video clips filtered and collected from 30 distinct animal species. Each video clip includes 15 frames, culminating in a total of 41,235 frames. Following meticulous manual annotation and stringent verification, we provide high-quality keypoint and tracking annotations for a total of 84,611 animal instances, split into easy and hard subsets based on the number of instances that exists in the frame. With APTv2 as the foundation, we establish a simple baseline method named \posetrackmethodname and provide benchmarks for representative models across three tracks: (1) single-frame animal pose estimation track to evaluate both intra- and inter-domain transfer learning performance, (2) low-data transfer and generalization track to evaluate the inter-species domain generalization performance, and (3) animal pose tracking track. Our experimental results deliver key empirical insights, demonstrating that APTv2 serves as a valuable benchmark for animal pose estimation and tracking. It also presents new challenges and opportunities for future research. The code and dataset are released at https://github.com/ViTAE-Transformer/APTv2{https://github.com/ViTAE-Transformer/APTv2}.

  • 4 authors
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Dec 24, 2023

Benchmarking the Pedagogical Knowledge of Large Language Models

Benchmarks like Massive Multitask Language Understanding (MMLU) have played a pivotal role in evaluating AI's knowledge and abilities across diverse domains. However, existing benchmarks predominantly focus on content knowledge, leaving a critical gap in assessing models' understanding of pedagogy - the method and practice of teaching. This paper introduces The Pedagogy Benchmark, a novel dataset designed to evaluate large language models on their Cross-Domain Pedagogical Knowledge (CDPK) and Special Education Needs and Disability (SEND) pedagogical knowledge. These benchmarks are built on a carefully curated set of questions sourced from professional development exams for teachers, which cover a range of pedagogical subdomains such as teaching strategies and assessment methods. Here we outline the methodology and development of these benchmarks. We report results for 97 models, with accuracies spanning a range from 28% to 89% on the pedagogical knowledge questions. We consider the relationship between cost and accuracy and chart the progression of the Pareto value frontier over time. We provide online leaderboards at https://rebrand.ly/pedagogy which are updated with new models and allow interactive exploration and filtering based on various model properties, such as cost per token and open-vs-closed weights, as well as looking at performance in different subjects. LLMs and generative AI have tremendous potential to influence education and help to address the global learning crisis. Education-focused benchmarks are crucial to measure models' capacities to understand pedagogical concepts, respond appropriately to learners' needs, and support effective teaching practices across diverse contexts. They are needed for informing the responsible and evidence-based deployment of LLMs and LLM-based tools in educational settings, and for guiding both development and policy decisions.

  • 10 authors
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Jun 23, 2025

Hippocrates: An Open-Source Framework for Advancing Large Language Models in Healthcare

The integration of Large Language Models (LLMs) into healthcare promises to transform medical diagnostics, research, and patient care. Yet, the progression of medical LLMs faces obstacles such as complex training requirements, rigorous evaluation demands, and the dominance of proprietary models that restrict academic exploration. Transparent, comprehensive access to LLM resources is essential for advancing the field, fostering reproducibility, and encouraging innovation in healthcare AI. We present Hippocrates, an open-source LLM framework specifically developed for the medical domain. In stark contrast to previous efforts, it offers unrestricted access to its training datasets, codebase, checkpoints, and evaluation protocols. This open approach is designed to stimulate collaborative research, allowing the community to build upon, refine, and rigorously evaluate medical LLMs within a transparent ecosystem. Also, we introduce Hippo, a family of 7B models tailored for the medical domain, fine-tuned from Mistral and LLaMA2 through continual pre-training, instruction tuning, and reinforcement learning from human and AI feedback. Our models outperform existing open medical LLMs models by a large-margin, even surpassing models with 70B parameters. Through Hippocrates, we aspire to unlock the full potential of LLMs not just to advance medical knowledge and patient care but also to democratize the benefits of AI research in healthcare, making them available across the globe.

  • 7 authors
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Apr 25, 2024