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Dec 30

Table Foundation Models: on knowledge pre-training for tabular learning

Table foundation models bring high hopes to data science: pre-trained on tabular data to embark knowledge or priors, they should facilitate downstream tasks on tables. One specific challenge is that of data semantics: numerical entries take their meaning from context, e.g., column name. Pre-trained neural networks that jointly model column names and table entries have recently boosted prediction accuracy. While these models outline the promises of world knowledge to interpret table values, they lack the convenience of popular foundation models in text or vision. Indeed, they must be fine-tuned to bring benefits, come with sizeable computation costs, and cannot easily be reused or combined with other architectures. Here we introduce TARTE, a foundation model that transforms tables to knowledge-enhanced vector representations using the string to capture semantics. Pre-trained on large relational data, TARTE yields representations that facilitate subsequent learning with little additional cost. These representations can be fine-tuned or combined with other learners, giving models that push the state-of-the-art prediction performance and improve the prediction/computation performance trade-off. Specialized to a task or a domain, TARTE gives domain-specific representations that facilitate further learning. Our study demonstrates an effective approach to knowledge pre-training for tabular learning.

  • 5 authors
·
May 20

Domain-specific optimization and diverse evaluation of self-supervised models for histopathology

Task-specific deep learning models in histopathology offer promising opportunities for improving diagnosis, clinical research, and precision medicine. However, development of such models is often limited by availability of high-quality data. Foundation models in histopathology that learn general representations across a wide range of tissue types, diagnoses, and magnifications offer the potential to reduce the data, compute, and technical expertise necessary to develop task-specific deep learning models with the required level of model performance. In this work, we describe the development and evaluation of foundation models for histopathology via self-supervised learning (SSL). We first establish a diverse set of benchmark tasks involving 17 unique tissue types and 12 unique cancer types and spanning different optimal magnifications and task types. Next, we use this benchmark to explore and evaluate histopathology-specific SSL methods followed by further evaluation on held out patch-level and weakly supervised tasks. We found that standard SSL methods thoughtfully applied to histopathology images are performant across our benchmark tasks and that domain-specific methodological improvements can further increase performance. Our findings reinforce the value of using domain-specific SSL methods in pathology, and establish a set of high quality foundation models to enable further research across diverse applications.

  • 16 authors
·
Oct 19, 2023

Biomedical and Clinical Language Models for Spanish: On the Benefits of Domain-Specific Pretraining in a Mid-Resource Scenario

This work presents biomedical and clinical language models for Spanish by experimenting with different pretraining choices, such as masking at word and subword level, varying the vocabulary size and testing with domain data, looking for better language representations. Interestingly, in the absence of enough clinical data to train a model from scratch, we applied mixed-domain pretraining and cross-domain transfer approaches to generate a performant bio-clinical model suitable for real-world clinical data. We evaluated our models on Named Entity Recognition (NER) tasks for biomedical documents and challenging hospital discharge reports. When compared against the competitive mBERT and BETO models, we outperform them in all NER tasks by a significant margin. Finally, we studied the impact of the model's vocabulary on the NER performances by offering an interesting vocabulary-centric analysis. The results confirm that domain-specific pretraining is fundamental to achieving higher performances in downstream NER tasks, even within a mid-resource scenario. To the best of our knowledge, we provide the first biomedical and clinical transformer-based pretrained language models for Spanish, intending to boost native Spanish NLP applications in biomedicine. Our best models are freely available in the HuggingFace hub: https://huggingface.co/BSC-TeMU.

  • 7 authors
·
Sep 8, 2021

X-Cross: Dynamic Integration of Language Models for Cross-Domain Sequential Recommendation

As new products are emerging daily, recommendation systems are required to quickly adapt to possible new domains without needing extensive retraining. This work presents ``X-Cross'' -- a novel cross-domain sequential-recommendation model that recommends products in new domains by integrating several domain-specific language models; each model is fine-tuned with low-rank adapters (LoRA). Given a recommendation prompt, operating layer by layer, X-Cross dynamically refines the representation of each source language model by integrating knowledge from all other models. These refined representations are propagated from one layer to the next, leveraging the activations from each domain adapter to ensure domain-specific nuances are preserved while enabling adaptability across domains. Using Amazon datasets for sequential recommendation, X-Cross achieves performance comparable to a model that is fine-tuned with LoRA, while using only 25% of the additional parameters. In cross-domain tasks, such as adapting from Toys domain to Tools, Electronics or Sports, X-Cross demonstrates robust performance, while requiring about 50%-75% less fine-tuning data than LoRA to make fine-tuning effective. Furthermore, X-Cross achieves significant improvement in accuracy over alternative cross-domain baselines. Overall, X-Cross enables scalable and adaptive cross-domain recommendations, reducing computational overhead and providing an efficient solution for data-constrained environments.

  • 5 authors
·
Apr 29 3

Learning high-level visual representations from a child's perspective without strong inductive biases

Young children develop sophisticated internal models of the world based on their visual experience. Can such models be learned from a child's visual experience without strong inductive biases? To investigate this, we train state-of-the-art neural networks on a realistic proxy of a child's visual experience without any explicit supervision or domain-specific inductive biases. Specifically, we train both embedding models and generative models on 200 hours of headcam video from a single child collected over two years and comprehensively evaluate their performance in downstream tasks using various reference models as yardsticks. On average, the best embedding models perform at a respectable 70% of a high-performance ImageNet-trained model, despite substantial differences in training data. They also learn broad semantic categories and object localization capabilities without explicit supervision, but they are less object-centric than models trained on all of ImageNet. Generative models trained with the same data successfully extrapolate simple properties of partially masked objects, like their rough outline, texture, color, or orientation, but struggle with finer object details. We replicate our experiments with two other children and find remarkably consistent results. Broadly useful high-level visual representations are thus robustly learnable from a representative sample of a child's visual experience without strong inductive biases.

  • 2 authors
·
May 24, 2023

Towards domain-invariant Self-Supervised Learning with Batch Styles Standardization

In Self-Supervised Learning (SSL), models are typically pretrained, fine-tuned, and evaluated on the same domains. However, they tend to perform poorly when evaluated on unseen domains, a challenge that Unsupervised Domain Generalization (UDG) seeks to address. Current UDG methods rely on domain labels, which are often challenging to collect, and domain-specific architectures that lack scalability when confronted with numerous domains, making the current methodology impractical and rigid. Inspired by contrastive-based UDG methods that mitigate spurious correlations by restricting comparisons to examples from the same domain, we hypothesize that eliminating style variability within a batch could provide a more convenient and flexible way to reduce spurious correlations without requiring domain labels. To verify this hypothesis, we introduce Batch Styles Standardization (BSS), a relatively simple yet powerful Fourier-based method to standardize the style of images in a batch specifically designed for integration with SSL methods to tackle UDG. Combining BSS with existing SSL methods offers serious advantages over prior UDG methods: (1) It eliminates the need for domain labels or domain-specific network components to enhance domain-invariance in SSL representations, and (2) offers flexibility as BSS can be seamlessly integrated with diverse contrastive-based but also non-contrastive-based SSL methods. Experiments on several UDG datasets demonstrate that it significantly improves downstream task performances on unseen domains, often outperforming or rivaling with UDG methods. Finally, this work clarifies the underlying mechanisms contributing to BSS's effectiveness in improving domain-invariance in SSL representations and performances on unseen domain.

  • 3 authors
·
Mar 10, 2023

Vector representations of text data in deep learning

In this dissertation we report results of our research on dense distributed representations of text data. We propose two novel neural models for learning such representations. The first model learns representations at the document level, while the second model learns word-level representations. For document-level representations we propose Binary Paragraph Vector: a neural network models for learning binary representations of text documents, which can be used for fast document retrieval. We provide a thorough evaluation of these models and demonstrate that they outperform the seminal method in the field in the information retrieval task. We also report strong results in transfer learning settings, where our models are trained on a generic text corpus and then used to infer codes for documents from a domain-specific dataset. In contrast to previously proposed approaches, Binary Paragraph Vector models learn embeddings directly from raw text data. For word-level representations we propose Disambiguated Skip-gram: a neural network model for learning multi-sense word embeddings. Representations learned by this model can be used in downstream tasks, like part-of-speech tagging or identification of semantic relations. In the word sense induction task Disambiguated Skip-gram outperforms state-of-the-art models on three out of four benchmarks datasets. Our model has an elegant probabilistic interpretation. Furthermore, unlike previous models of this kind, it is differentiable with respect to all its parameters and can be trained with backpropagation. In addition to quantitative results, we present qualitative evaluation of Disambiguated Skip-gram, including two-dimensional visualisations of selected word-sense embeddings.

  • 1 authors
·
Jan 7, 2019

SPEAR: A Unified SSL Framework for Learning Speech and Audio Representations

Self-Supervised Learning (SSL) excels at learning generic representations of acoustic signals, yet prevailing methods remain domain-specific, tailored to either speech or general audio, hindering the development of a unified representation model with a comprehensive capability over both domains. To address this, we present SPEAR (SPEech and Audio Representations), the first SSL framework to successfully learn unified speech and audio representations from a mixture of speech and audio data. SPEAR proposes a unified pre-training objective based on masked prediction of fine-grained discrete tokens for both speech and general audio. These tokens are derived from continuous speech and audio representations using a Multi-codebook Vector Quantisation (MVQ) method, retaining rich acoustic detail essential for modelling both speech and complex audio events. SPEAR is applied to pre-train both single-domain and unified speech-and-audio SSL models. Our speech-domain model establishes a new state-of-the-art on the SUPERB benchmark, a speech processing benchmark for SSL models, matching or surpassing the highly competitive WavLM Large on 12 out of 15 tasks with the same pre-training corpora and a similar model size. Crucially, our unified model learns complementary features and demonstrates comprehensive capabilities across two major benchmarks, SUPERB and HEAR, for evaluating audio representations. By further scaling up the model size and pre-training data, we present a unified model with 600M parameters that excels in both domains, establishing it as one of the most powerful and versatile open-source SSL models for auditory understanding. The inference code and pre-trained models will be made publicly available.

  • 8 authors
·
Oct 29

Self-supervised Learning of Echocardiographic Video Representations via Online Cluster Distillation

Self-supervised learning (SSL) has achieved major advances in natural images and video understanding, but challenges remain in domains like echocardiography (heart ultrasound) due to subtle anatomical structures, complex temporal dynamics, and the current lack of domain-specific pre-trained models. Existing SSL approaches such as contrastive, masked modeling, and clustering-based methods struggle with high intersample similarity, sensitivity to low PSNR inputs common in ultrasound, or aggressive augmentations that distort clinically relevant features. We present DISCOVR (Distilled Image Supervision for Cross Modal Video Representation), a self-supervised dual branch framework for cardiac ultrasound video representation learning. DISCOVR combines a clustering-based video encoder that models temporal dynamics with an online image encoder that extracts fine-grained spatial semantics. These branches are connected through a semantic cluster distillation loss that transfers anatomical knowledge from the evolving image encoder to the video encoder, enabling temporally coherent representations enriched with fine-grained semantic understanding. Evaluated on six echocardiography datasets spanning fetal, pediatric, and adult populations, DISCOVR outperforms both specialized video anomaly detection methods and state-of-the-art video-SSL baselines in zero-shot and linear probing setups, and achieves superior segmentation transfer.

  • 7 authors
·
Jun 13

Efficient and Scalable Estimation of Tool Representations in Vector Space

Recent advancements in function calling and tool use have significantly enhanced the capabilities of large language models (LLMs) by enabling them to interact with external information sources and execute complex tasks. However, the limited context window of LLMs presents challenges when a large number of tools are available, necessitating efficient methods to manage prompt length and maintain accuracy. Existing approaches, such as fine-tuning LLMs or leveraging their reasoning capabilities, either require frequent retraining or incur significant latency overhead. A more efficient solution involves training smaller models to retrieve the most relevant tools for a given query, although this requires high quality, domain-specific data. To address those challenges, we present a novel framework for generating synthetic data for tool retrieval applications and an efficient data-driven tool retrieval strategy using small encoder models. Empowered by LLMs, we create ToolBank, a new tool retrieval dataset that reflects real human user usages. For tool retrieval methodologies, we propose novel approaches: (1) Tool2Vec: usage-driven tool embedding generation for tool retrieval, (2) ToolRefiner: a staged retrieval method that iteratively improves the quality of retrieved tools, and (3) MLC: framing tool retrieval as a multi-label classification problem. With these new methods, we achieve improvements of up to 27.28 in Recall@K on the ToolBench dataset and 30.5 in Recall@K on ToolBank. Additionally, we present further experimental results to rigorously validate our methods. Our code is available at https://github.com/SqueezeAILab/Tool2Vec

  • 7 authors
·
Sep 2, 2024

GAPrune: Gradient-Alignment Pruning for Domain-Aware Embeddings

Domain-specific embedding models have shown promise for applications that require specialized semantic understanding, such as coding agents and financial retrieval systems, often achieving higher performance gains than general models. However, state-of-the-art embedding models are typically based on LLMs, which contain billions of parameters, making deployment challenging in resource-constrained environments. Model compression through pruning offers a promising solution, but existing pruning methods treat all parameters uniformly, failing to distinguish between general semantic representations and domain-specific patterns, leading to suboptimal pruning decisions. Thus, we propose GAPrune, a pruning framework that addresses this challenge by considering both domain importance and preserving general linguistic foundation. Our method uses Fisher Information to measure importance and general-domain gradient alignment to assess parameter behavior, then combines these signals using our Domain Alignment Importance (DAI) scoring. Lower DAI scores indicate that the parameter is either less important for the domain task or creates conflicts between domain and general objectives. Experiments on two domain benchmarks, FinMTEB and ChemTEB, show that GAPrune maintains performance within 2.5% of dense models in one-shot pruning at 50% sparsity, while outperforming all baselines. With retraining in 100 steps, GAPrune achieves +4.51% improvement on FinMTEB and +1.73% on ChemTEB, demonstrating that our pruning strategy not only preserves but enhances domain-specific capabilities. Our findings demonstrate that principled pruning strategies can achieve model compression and enhanced domain specialization, providing the research community with a new approach for development.

  • 2 authors
·
Sep 13 2

Ag2Manip: Learning Novel Manipulation Skills with Agent-Agnostic Visual and Action Representations

Autonomous robotic systems capable of learning novel manipulation tasks are poised to transform industries from manufacturing to service automation. However, modern methods (e.g., VIP and R3M) still face significant hurdles, notably the domain gap among robotic embodiments and the sparsity of successful task executions within specific action spaces, resulting in misaligned and ambiguous task representations. We introduce Ag2Manip (Agent-Agnostic representations for Manipulation), a framework aimed at surmounting these challenges through two key innovations: a novel agent-agnostic visual representation derived from human manipulation videos, with the specifics of embodiments obscured to enhance generalizability; and an agent-agnostic action representation abstracting a robot's kinematics to a universal agent proxy, emphasizing crucial interactions between end-effector and object. Ag2Manip's empirical validation across simulated benchmarks like FrankaKitchen, ManiSkill, and PartManip shows a 325% increase in performance, achieved without domain-specific demonstrations. Ablation studies underline the essential contributions of the visual and action representations to this success. Extending our evaluations to the real world, Ag2Manip significantly improves imitation learning success rates from 50% to 77.5%, demonstrating its effectiveness and generalizability across both simulated and physical environments.

  • 9 authors
·
Apr 26, 2024 1

Visual Diffusion Models are Geometric Solvers

In this paper we show that visual diffusion models can serve as effective geometric solvers: they can directly reason about geometric problems by working in pixel space. We first demonstrate this on the Inscribed Square Problem, a long-standing problem in geometry that asks whether every Jordan curve contains four points forming a square. We then extend the approach to two other well-known hard geometric problems: the Steiner Tree Problem and the Simple Polygon Problem. Our method treats each problem instance as an image and trains a standard visual diffusion model that transforms Gaussian noise into an image representing a valid approximate solution that closely matches the exact one. The model learns to transform noisy geometric structures into correct configurations, effectively recasting geometric reasoning as image generation. Unlike prior work that necessitates specialized architectures and domain-specific adaptations when applying diffusion to parametric geometric representations, we employ a standard visual diffusion model that operates on the visual representation of the problem. This simplicity highlights a surprising bridge between generative modeling and geometric problem solving. Beyond the specific problems studied here, our results point toward a broader paradigm: operating in image space provides a general and practical framework for approximating notoriously hard problems, and opens the door to tackling a far wider class of challenging geometric tasks.

  • 6 authors
·
Oct 24 1

BioBERT: a pre-trained biomedical language representation model for biomedical text mining

Biomedical text mining is becoming increasingly important as the number of biomedical documents rapidly grows. With the progress in natural language processing (NLP), extracting valuable information from biomedical literature has gained popularity among researchers, and deep learning has boosted the development of effective biomedical text mining models. However, directly applying the advancements in NLP to biomedical text mining often yields unsatisfactory results due to a word distribution shift from general domain corpora to biomedical corpora. In this article, we investigate how the recently introduced pre-trained language model BERT can be adapted for biomedical corpora. We introduce BioBERT (Bidirectional Encoder Representations from Transformers for Biomedical Text Mining), which is a domain-specific language representation model pre-trained on large-scale biomedical corpora. With almost the same architecture across tasks, BioBERT largely outperforms BERT and previous state-of-the-art models in a variety of biomedical text mining tasks when pre-trained on biomedical corpora. While BERT obtains performance comparable to that of previous state-of-the-art models, BioBERT significantly outperforms them on the following three representative biomedical text mining tasks: biomedical named entity recognition (0.62% F1 score improvement), biomedical relation extraction (2.80% F1 score improvement) and biomedical question answering (12.24% MRR improvement). Our analysis results show that pre-training BERT on biomedical corpora helps it to understand complex biomedical texts. We make the pre-trained weights of BioBERT freely available at https://github.com/naver/biobert-pretrained, and the source code for fine-tuning BioBERT available at https://github.com/dmis-lab/biobert.

  • 7 authors
·
Jan 25, 2019

Cascade Prompt Learning for Vision-Language Model Adaptation

Prompt learning has surfaced as an effective approach to enhance the performance of Vision-Language Models (VLMs) like CLIP when applied to downstream tasks. However, current learnable prompt tokens are primarily used for the single phase of adapting to tasks (i.e., adapting prompt), easily leading to overfitting risks. In this work, we propose a novel Cascade Prompt Learning CasPL framework to enable prompt learning to serve both generic and specific expertise (i.e., boosting and adapting prompt) simultaneously. Specifically, CasPL is a new learning paradigm comprising two distinct phases of learnable prompts: the first boosting prompt is crafted to extract domain-general knowledge from a senior larger CLIP teacher model by aligning their predicted logits using extensive unlabeled domain images. The second adapting prompt is then cascaded with the frozen first set to fine-tune the downstream tasks, following the approaches employed in prior research. In this manner, CasPL can effectively capture both domain-general and task-specific representations into explicitly different gradual groups of prompts, thus potentially alleviating overfitting issues in the target domain. It's worth noting that CasPL serves as a plug-and-play module that can seamlessly integrate into any existing prompt learning approach. CasPL achieves a significantly better balance between performance and inference speed, which is especially beneficial for deploying smaller VLM models in resource-constrained environments. Compared to the previous state-of-the-art method PromptSRC, CasPL shows an average improvement of 1.85% for base classes, 3.44% for novel classes, and 2.72% for the harmonic mean over 11 image classification datasets. Code is publicly available at: https://github.com/megvii-research/CasPL.

  • 7 authors
·
Sep 26, 2024

A Disease-Centric Vision-Language Foundation Model for Precision Oncology in Kidney Cancer

The non-invasive assessment of increasingly incidentally discovered renal masses is a critical challenge in urologic oncology, where diagnostic uncertainty frequently leads to the overtreatment of benign or indolent tumors. In this study, we developed and validated RenalCLIP using a dataset of 27,866 CT scans from 8,809 patients across nine Chinese medical centers and the public TCIA cohort, a visual-language foundation model for characterization, diagnosis and prognosis of renal mass. The model was developed via a two-stage pre-training strategy that first enhances the image and text encoders with domain-specific knowledge before aligning them through a contrastive learning objective, to create robust representations for superior generalization and diagnostic precision. RenalCLIP achieved better performance and superior generalizability across 10 core tasks spanning the full clinical workflow of kidney cancer, including anatomical assessment, diagnostic classification, and survival prediction, compared with other state-of-the-art general-purpose CT foundation models. Especially, for complicated task like recurrence-free survival prediction in the TCIA cohort, RenalCLIP achieved a C-index of 0.726, representing a substantial improvement of approximately 20% over the leading baselines. Furthermore, RenalCLIP's pre-training imparted remarkable data efficiency; in the diagnostic classification task, it only needs 20% training data to achieve the peak performance of all baseline models even after they were fully fine-tuned on 100% of the data. Additionally, it achieved superior performance in report generation, image-text retrieval and zero-shot diagnosis tasks. Our findings establish that RenalCLIP provides a robust tool with the potential to enhance diagnostic accuracy, refine prognostic stratification, and personalize the management of patients with kidney cancer.

  • 20 authors
·
Aug 22

ActionBert: Leveraging User Actions for Semantic Understanding of User Interfaces

As mobile devices are becoming ubiquitous, regularly interacting with a variety of user interfaces (UIs) is a common aspect of daily life for many people. To improve the accessibility of these devices and to enable their usage in a variety of settings, building models that can assist users and accomplish tasks through the UI is vitally important. However, there are several challenges to achieve this. First, UI components of similar appearance can have different functionalities, making understanding their function more important than just analyzing their appearance. Second, domain-specific features like Document Object Model (DOM) in web pages and View Hierarchy (VH) in mobile applications provide important signals about the semantics of UI elements, but these features are not in a natural language format. Third, owing to a large diversity in UIs and absence of standard DOM or VH representations, building a UI understanding model with high coverage requires large amounts of training data. Inspired by the success of pre-training based approaches in NLP for tackling a variety of problems in a data-efficient way, we introduce a new pre-trained UI representation model called ActionBert. Our methodology is designed to leverage visual, linguistic and domain-specific features in user interaction traces to pre-train generic feature representations of UIs and their components. Our key intuition is that user actions, e.g., a sequence of clicks on different UI components, reveals important information about their functionality. We evaluate the proposed model on a wide variety of downstream tasks, ranging from icon classification to UI component retrieval based on its natural language description. Experiments show that the proposed ActionBert model outperforms multi-modal baselines across all downstream tasks by up to 15.5%.

  • 10 authors
·
Dec 22, 2020

Contrastive learning of global and local features for medical image segmentation with limited annotations

A key requirement for the success of supervised deep learning is a large labeled dataset - a condition that is difficult to meet in medical image analysis. Self-supervised learning (SSL) can help in this regard by providing a strategy to pre-train a neural network with unlabeled data, followed by fine-tuning for a downstream task with limited annotations. Contrastive learning, a particular variant of SSL, is a powerful technique for learning image-level representations. In this work, we propose strategies for extending the contrastive learning framework for segmentation of volumetric medical images in the semi-supervised setting with limited annotations, by leveraging domain-specific and problem-specific cues. Specifically, we propose (1) novel contrasting strategies that leverage structural similarity across volumetric medical images (domain-specific cue) and (2) a local version of the contrastive loss to learn distinctive representations of local regions that are useful for per-pixel segmentation (problem-specific cue). We carry out an extensive evaluation on three Magnetic Resonance Imaging (MRI) datasets. In the limited annotation setting, the proposed method yields substantial improvements compared to other self-supervision and semi-supervised learning techniques. When combined with a simple data augmentation technique, the proposed method reaches within 8% of benchmark performance using only two labeled MRI volumes for training, corresponding to only 4% (for ACDC) of the training data used to train the benchmark. The code is made public at https://github.com/krishnabits001/domain_specific_cl.

  • 4 authors
·
Jun 18, 2020

Optimizing Retrieval Strategies for Financial Question Answering Documents in Retrieval-Augmented Generation Systems

Retrieval-Augmented Generation (RAG) has emerged as a promising framework to mitigate hallucinations in Large Language Models (LLMs), yet its overall performance is dependent on the underlying retrieval system. In the finance domain, documents such as 10-K reports pose distinct challenges due to domain-specific vocabulary and multi-hierarchical tabular data. In this work, we introduce an efficient, end-to-end RAG pipeline that enhances retrieval for financial documents through a three-phase approach: pre-retrieval, retrieval, and post-retrieval. In the pre-retrieval phase, various query and corpus preprocessing techniques are employed to enrich input data. During the retrieval phase, we fine-tuned state-of-the-art (SOTA) embedding models with domain-specific knowledge and implemented a hybrid retrieval strategy that combines dense and sparse representations. Finally, the post-retrieval phase leverages Direct Preference Optimization (DPO) training and document selection methods to further refine the results. Evaluations on seven financial question answering datasets-FinDER, FinQABench, FinanceBench, TATQA, FinQA, ConvFinQA, and MultiHiertt-demonstrate substantial improvements in retrieval performance, leading to more accurate and contextually appropriate generation. These findings highlight the critical role of tailored retrieval techniques in advancing the effectiveness of RAG systems for financial applications. A fully replicable pipeline is available on GitHub: https://github.com/seohyunwoo-0407/GAR.

  • 4 authors
·
Mar 19

Rethinking Multi-view Representation Learning via Distilled Disentangling

Multi-view representation learning aims to derive robust representations that are both view-consistent and view-specific from diverse data sources. This paper presents an in-depth analysis of existing approaches in this domain, highlighting a commonly overlooked aspect: the redundancy between view-consistent and view-specific representations. To this end, we propose an innovative framework for multi-view representation learning, which incorporates a technique we term 'distilled disentangling'. Our method introduces the concept of masked cross-view prediction, enabling the extraction of compact, high-quality view-consistent representations from various sources without incurring extra computational overhead. Additionally, we develop a distilled disentangling module that efficiently filters out consistency-related information from multi-view representations, resulting in purer view-specific representations. This approach significantly reduces redundancy between view-consistent and view-specific representations, enhancing the overall efficiency of the learning process. Our empirical evaluations reveal that higher mask ratios substantially improve the quality of view-consistent representations. Moreover, we find that reducing the dimensionality of view-consistent representations relative to that of view-specific representations further refines the quality of the combined representations. Our code is accessible at: https://github.com/Guanzhou-Ke/MRDD.

  • 4 authors
·
Mar 16, 2024

Q-Former Autoencoder: A Modern Framework for Medical Anomaly Detection

Anomaly detection in medical images is an important yet challenging task due to the diversity of possible anomalies and the practical impossibility of collecting comprehensively annotated data sets. In this work, we tackle unsupervised medical anomaly detection proposing a modernized autoencoder-based framework, the Q-Former Autoencoder, that leverages state-of-the-art pretrained vision foundation models, such as DINO, DINOv2 and Masked Autoencoder. Instead of training encoders from scratch, we directly utilize frozen vision foundation models as feature extractors, enabling rich, multi-stage, high-level representations without domain-specific fine-tuning. We propose the usage of the Q-Former architecture as the bottleneck, which enables the control of the length of the reconstruction sequence, while efficiently aggregating multiscale features. Additionally, we incorporate a perceptual loss computed using features from a pretrained Masked Autoencoder, guiding the reconstruction towards semantically meaningful structures. Our framework is evaluated on four diverse medical anomaly detection benchmarks, achieving state-of-the-art results on BraTS2021, RESC, and RSNA. Our results highlight the potential of vision foundation model encoders, pretrained on natural images, to generalize effectively to medical image analysis tasks without further fine-tuning. We release the code and models at https://github.com/emirhanbayar/QFAE.

  • 4 authors
·
Jul 24

Unmasking the Reality of PII Masking Models: Performance Gaps and the Call for Accountability

Privacy Masking is a critical concept under data privacy involving anonymization and de-anonymization of personally identifiable information (PII). Privacy masking techniques rely on Named Entity Recognition (NER) approaches under NLP support in identifying and classifying named entities in each text. NER approaches, however, have several limitations including (a) content sensitivity including ambiguous, polysemic, context dependent or domain specific content, (b) phrasing variabilities including nicknames and alias, informal expressions, alternative representations, emerging expressions, evolving naming conventions and (c) formats or syntax variations, typos, misspellings. However, there are a couple of PII datasets that have been widely used by researchers and the open-source community to train models on PII detection or masking. These datasets have been used to train models including Piiranha and Starpii, which have been downloaded over 300k and 580k times on HuggingFace. We examine the quality of the PII masking by these models given the limitations of the datasets and of the NER approaches. We curate a dataset of 17K unique, semi-synthetic sentences containing 16 types of PII by compiling information from across multiple jurisdictions including India, U.K and U.S. We generate sentences (using language models) containing these PII at five different NER detection feature dimensions - (1) Basic Entity Recognition, (2) Contextual Entity Disambiguation, (3) NER in Noisy & Real-World Data, (4) Evolving & Novel Entities Detection and (5) Cross-Lingual or multi-lingual NER) and 1 in adversarial context. We present the results and exhibit the privacy exposure caused by such model use (considering the extent of lifetime downloads of these models). We conclude by highlighting the gaps in measuring performance of the models and the need for contextual disclosure in model cards for such models.

  • 2 authors
·
Apr 5

MUGC: Machine Generated versus User Generated Content Detection

As advanced modern systems like deep neural networks (DNNs) and generative AI continue to enhance their capabilities in producing convincing and realistic content, the need to distinguish between user-generated and machine generated content is becoming increasingly evident. In this research, we undertake a comparative evaluation of eight traditional machine-learning algorithms to distinguish between machine-generated and human-generated data across three diverse datasets: Poems, Abstracts, and Essays. Our results indicate that traditional methods demonstrate a high level of accuracy in identifying machine-generated data, reflecting the documented effectiveness of popular pre-trained models like RoBERT. We note that machine-generated texts tend to be shorter and exhibit less word variety compared to human-generated content. While specific domain-related keywords commonly utilized by humans, albeit disregarded by current LLMs (Large Language Models), may contribute to this high detection accuracy, we show that deeper word representations like word2vec can capture subtle semantic variances. Furthermore, readability, bias, moral, and affect comparisons reveal a discernible contrast between machine-generated and human generated content. There are variations in expression styles and potentially underlying biases in the data sources (human and machine-generated). This study provides valuable insights into the advancing capacities and challenges associated with machine-generated content across various domains.

  • 6 authors
·
Mar 28, 2024

GAITGen: Disentangled Motion-Pathology Impaired Gait Generative Model -- Bringing Motion Generation to the Clinical Domain

Gait analysis is crucial for the diagnosis and monitoring of movement disorders like Parkinson's Disease. While computer vision models have shown potential for objectively evaluating parkinsonian gait, their effectiveness is limited by scarce clinical datasets and the challenge of collecting large and well-labelled data, impacting model accuracy and risk of bias. To address these gaps, we propose GAITGen, a novel framework that generates realistic gait sequences conditioned on specified pathology severity levels. GAITGen employs a Conditional Residual Vector Quantized Variational Autoencoder to learn disentangled representations of motion dynamics and pathology-specific factors, coupled with Mask and Residual Transformers for conditioned sequence generation. GAITGen generates realistic, diverse gait sequences across severity levels, enriching datasets and enabling large-scale model training in parkinsonian gait analysis. Experiments on our new PD-GaM (real) dataset demonstrate that GAITGen outperforms adapted state-of-the-art models in both reconstruction fidelity and generation quality, accurately capturing critical pathology-specific gait features. A clinical user study confirms the realism and clinical relevance of our generated sequences. Moreover, incorporating GAITGen-generated data into downstream tasks improves parkinsonian gait severity estimation, highlighting its potential for advancing clinical gait analysis.

  • 9 authors
·
Mar 28

Source-free Domain Adaptive Human Pose Estimation

Human Pose Estimation (HPE) is widely used in various fields, including motion analysis, healthcare, and virtual reality. However, the great expenses of labeled real-world datasets present a significant challenge for HPE. To overcome this, one approach is to train HPE models on synthetic datasets and then perform domain adaptation (DA) on real-world data. Unfortunately, existing DA methods for HPE neglect data privacy and security by using both source and target data in the adaptation process. To this end, we propose a new task, named source-free domain adaptive HPE, which aims to address the challenges of cross-domain learning of HPE without access to source data during the adaptation process. We further propose a novel framework that consists of three models: source model, intermediate model, and target model, which explores the task from both source-protect and target-relevant perspectives. The source-protect module preserves source information more effectively while resisting noise, and the target-relevant module reduces the sparsity of spatial representations by building a novel spatial probability space, and pose-specific contrastive learning and information maximization are proposed on the basis of this space. Comprehensive experiments on several domain adaptive HPE benchmarks show that the proposed method outperforms existing approaches by a considerable margin. The codes are available at https://github.com/davidpengucf/SFDAHPE.

  • 3 authors
·
Aug 6, 2023

Pre-training technique to localize medical BERT and enhance biomedical BERT

Pre-training large-scale neural language models on raw texts has made a significant contribution to improving transfer learning in natural language processing (NLP). With the introduction of transformer-based language models, such as bidirectional encoder representations from transformers (BERT), the performance of information extraction from a free text by NLP has significantly improved for both the general domain and medical domain; however, it is difficult to train specific BERT models that perform well for domains in which there are few publicly available databases of high quality and large size. We hypothesized that this problem can be addressed by up-sampling a domain-specific corpus and using it for pre-training with a larger corpus in a balanced manner. Our proposed method consists of a single intervention with one option: simultaneous pre-training after up-sampling and amplified vocabulary. We conducted three experiments and evaluated the resulting products. We confirmed that our Japanese medical BERT outperformed conventional baselines and the other BERT models in terms of the medical document classification task and that our English BERT pre-trained using both the general and medical-domain corpora performed sufficiently well for practical use in terms of the biomedical language understanding evaluation (BLUE) benchmark. Moreover, our enhanced biomedical BERT model, in which clinical notes were not used during pre-training, showed that both the clinical and biomedical scores of the BLUE benchmark were 0.3 points above that of the ablation model trained without our proposed method. Well-balanced pre-training by up-sampling instances derived from a corpus appropriate for the target task allows us to construct a high-performance BERT model.

  • 6 authors
·
May 14, 2020

OccRWKV: Rethinking Efficient 3D Semantic Occupancy Prediction with Linear Complexity

3D semantic occupancy prediction networks have demonstrated remarkable capabilities in reconstructing the geometric and semantic structure of 3D scenes, providing crucial information for robot navigation and autonomous driving systems. However, due to their large overhead from dense network structure designs, existing networks face challenges balancing accuracy and latency. In this paper, we introduce OccRWKV, an efficient semantic occupancy network inspired by Receptance Weighted Key Value (RWKV). OccRWKV separates semantics, occupancy prediction, and feature fusion into distinct branches, each incorporating Sem-RWKV and Geo-RWKV blocks. These blocks are designed to capture long-range dependencies, enabling the network to learn domain-specific representation (i.e., semantics and geometry), which enhances prediction accuracy. Leveraging the sparse nature of real-world 3D occupancy, we reduce computational overhead by projecting features into the bird's-eye view (BEV) space and propose a BEV-RWKV block for efficient feature enhancement and fusion. This enables real-time inference at 22.2 FPS without compromising performance. Experiments demonstrate that OccRWKV outperforms the state-of-the-art methods on the SemanticKITTI dataset, achieving a mIoU of 25.1 while being 20 times faster than the best baseline, Co-Occ, making it suitable for real-time deployment on robots to enhance autonomous navigation efficiency. Code and video are available on our project page: https://jmwang0117.github.io/OccRWKV/.

  • 7 authors
·
Sep 30, 2024

UrFound: Towards Universal Retinal Foundation Models via Knowledge-Guided Masked Modeling

Retinal foundation models aim to learn generalizable representations from diverse retinal images, facilitating label-efficient model adaptation across various ophthalmic tasks. Despite their success, current retinal foundation models are generally restricted to a single imaging modality, such as Color Fundus Photography (CFP) or Optical Coherence Tomography (OCT), limiting their versatility. Moreover, these models may struggle to fully leverage expert annotations and overlook the valuable domain knowledge essential for domain-specific representation learning. To overcome these limitations, we introduce UrFound, a retinal foundation model designed to learn universal representations from both multimodal retinal images and domain knowledge. UrFound is equipped with a modality-agnostic image encoder and accepts either CFP or OCT images as inputs. To integrate domain knowledge into representation learning, we encode expert annotation in text supervision and propose a knowledge-guided masked modeling strategy for model pre-training. It involves reconstructing randomly masked patches of retinal images while predicting masked text tokens conditioned on the corresponding retinal image. This approach aligns multimodal images and textual expert annotations within a unified latent space, facilitating generalizable and domain-specific representation learning. Experimental results demonstrate that UrFound exhibits strong generalization ability and data efficiency when adapting to various tasks in retinal image analysis. By training on ~180k retinal images, UrFound significantly outperforms the state-of-the-art retinal foundation model trained on up to 1.6 million unlabelled images across 8 public retinal datasets. Our code and data are available at https://github.com/yukkai/UrFound.

  • 8 authors
·
Aug 10, 2024

Contrastive Learning and Mixture of Experts Enables Precise Vector Embeddings

The advancement of transformer neural networks has significantly elevated the capabilities of sentence similarity models, particularly in creating effective vector representations of natural language inputs. However, these models face notable challenges in domain-specific contexts, especially in highly specialized scientific sub-fields. Traditional methods often struggle in this regime, either overgeneralizing similarities within a niche or being overly sensitive to minor differences, resulting in inaccurate text classification and subpar vector representation. In an era where retrieval augmentation and search are increasingly crucial, precise and concise numerical representations are essential. In this paper, we target this issue by assembling niche datasets using co-citations as a similarity metric, focusing on biomedical domains. We employ two key strategies for fine-tuning state-of-the-art models: 1. Domain-specific Fine-Tuning, which tailors pretrained models to a single domain, and 2. Universal Applicability with Mixture of Experts (MoE), adapting pretrained models with enforced routing for multiple domains simultaneously. Our training approach emphasizes the use of abstracts for faster training, incorporating Multiple Negative Rankings loss for efficient contrastive learning. Notably, our MoE variants, equipped with N experts, achieve the efficacy of N individual models, heralding a new era of versatile, One-Size-Fits-All transformer networks for various tasks. This methodology marks significant advancements in scientific text classification metrics and holds promise for enhancing vector database search and compilation.

  • 4 authors
·
Jan 28, 2024

Emphasising Structured Information: Integrating Abstract Meaning Representation into LLMs for Enhanced Open-Domain Dialogue Evaluation

Automatic open-domain dialogue evaluation has attracted increasing attention. Trainable evaluation metrics, typically trained with true positive and randomly selected negative responses, tend to assign higher scores to responses that share greater content similarity with a given context. However, adversarial negative responses, despite possessing high content similarity with the contexts, are semantically different. Consequently, existing evaluation metrics are not robust enough to evaluate such responses, resulting in low correlations with human judgments. While recent studies have demonstrated the effectiveness of Large Language Models (LLMs) for open-domain dialogue evaluation, they still face challenges in effectively handling adversarial negative examples. In this paper, we propose an effective framework for open-domain dialogue evaluation, which combines domain-specific language models (SLMs) enhanced with Abstract Meaning Representation (AMR) knowledge with LLMs. The SLMs can explicitly incorporate AMR graph information of the dialogue through a gating mechanism for enhanced dialogue semantic representation learning. Both the evaluation result from the SLMs and the AMR graph information are incorporated into the LLM's prompt for enhanced evaluation performance. Experimental results on open-domain dialogue evaluation tasks demonstrate the superiority of our method compared to a wide range of state-of-the-art baselines, especially in discriminating adversarial negative responses. Our code and data are publicly available at https://github.com/Bernard-Yang/SIMAMR.

  • 6 authors
·
Apr 1, 2024

Domain-Specific Pruning of Large Mixture-of-Experts Models with Few-shot Demonstrations

Mixture-of-Experts (MoE) models achieve a favorable trade-off between performance and inference efficiency by activating only a subset of experts. However, the memory overhead of storing all experts remains a major limitation, especially in large-scale MoE models such as DeepSeek-R1(671B). In this study, we investigate domain specialization and expert redundancy in large-scale MoE models and uncover a consistent behavior we term few-shot expert localization, with only a few in-domain demonstrations, the model consistently activates a sparse and stable subset of experts on tasks within the same domain. Building on this observation, we propose a simple yet effective pruning framework, EASY-EP, that leverages a few domain-specific demonstrations to identify and retain only the most relevant experts. EASY-EP comprises two key components: output-aware expert importance assessment and expert-level token contribution estimation. The former evaluates the importance of each expert for the current token by considering the gating scores and L2 norm of the outputs of activated experts, while the latter assesses the contribution of tokens based on representation similarities before and after routed experts. Experiments on DeepSeek-R1 and DeepSeek-V3-0324 show that our method can achieve comparable performances and 2.99times throughput under the same memory budget with full model with only half the experts.

  • 7 authors
·
Apr 9

More Than Catastrophic Forgetting: Integrating General Capabilities For Domain-Specific LLMs

The performance on general tasks decreases after Large Language Models (LLMs) are fine-tuned on domain-specific tasks, the phenomenon is known as Catastrophic Forgetting (CF). However, this paper presents a further challenge for real application of domain-specific LLMs beyond CF, called General Capabilities Integration (GCI), which necessitates the integration of both the general capabilities and domain knowledge within a single instance. The objective of GCI is not merely to retain previously acquired general capabilities alongside new domain knowledge, but to harmonize and utilize both sets of skills in a cohesive manner to enhance performance on domain-specific tasks. Taking legal domain as an example, we carefully design three groups of training and testing tasks without lacking practicability, and construct the corresponding datasets. To better incorporate general capabilities across domain-specific scenarios, we introduce ALoRA, which utilizes a multi-head attention module upon LoRA, facilitating direct information transfer from preceding tokens to the current one. This enhancement permits the representation to dynamically switch between domain-specific knowledge and general competencies according to the attention. Extensive experiments are conducted on the proposed tasks. The results exhibit the significance of our setting, and the effectiveness of our method.

  • 8 authors
·
May 28, 2024

Learning Without Augmenting: Unsupervised Time Series Representation Learning via Frame Projections

Self-supervised learning (SSL) has emerged as a powerful paradigm for learning representations without labeled data. Most SSL approaches rely on strong, well-established, handcrafted data augmentations to generate diverse views for representation learning. However, designing such augmentations requires domain-specific knowledge and implicitly imposes representational invariances on the model, which can limit generalization. In this work, we propose an unsupervised representation learning method that replaces augmentations by generating views using orthonormal bases and overcomplete frames. We show that embeddings learned from orthonormal and overcomplete spaces reside on distinct manifolds, shaped by the geometric biases introduced by representing samples in different spaces. By jointly leveraging the complementary geometry of these distinct manifolds, our approach achieves superior performance without artificially increasing data diversity through strong augmentations. We demonstrate the effectiveness of our method on nine datasets across five temporal sequence tasks, where signal-specific characteristics make data augmentations particularly challenging. Without relying on augmentation-induced diversity, our method achieves performance gains of up to 15--20\% over existing self-supervised approaches. Source code: https://github.com/eth-siplab/Learning-with-FrameProjections

  • 2 authors
·
Oct 26

Particle Trajectory Representation Learning with Masked Point Modeling

Effective self-supervised learning (SSL) techniques have been key to unlocking large datasets for representation learning. While many promising methods have been developed using online corpora and captioned photographs, their application to scientific domains, where data encodes highly specialized knowledge, remains a challenge. Liquid Argon Time Projection Chambers (LArTPCs) provide high-resolution 3D imaging for fundamental physics, but analysis of their sparse, complex point cloud data often relies on supervised methods trained on large simulations, introducing potential biases. We introduce the Point-based Liquid Argon Masked Autoencoder (PoLAr-MAE), applying masked point modeling to unlabeled LArTPC images using domain-specific volumetric tokenization and energy prediction. We show this SSL approach learns physically meaningful trajectory representations directly from data. This yields remarkable data efficiency: fine-tuning on just 100 labeled events achieves track/shower semantic segmentation performance comparable to the state-of-the-art supervised baseline trained on >100,000 events. Furthermore, internal attention maps exhibit emergent instance segmentation of particle trajectories. While challenges remain, particularly for fine-grained features, we make concrete SSL's potential for building a foundation model for LArTPC image analysis capable of serving as a common base for all data reconstruction tasks. To facilitate further progress, we release PILArNet-M, a large dataset of 1M LArTPC events. Project site: https://youngsm.com/polarmae.

  • 3 authors
·
Feb 4

Zero-Shot Code Representation Learning via Prompt Tuning

Learning code representations has been the core prerequisite of many software engineering tasks such as code clone detection and code generation. State-of-the-art program representation techniques mainly utilize pre-trained language models (PLMs) such as CodeBERT. A Transformer encoder is firstly pre-trained on a large-scale code corpus to acquire general knowledge about source code. The pre-trained model is then fine-tuned on specific tasks using an amount of labeled data. However, gathering training samples for the downstream tasks can be prohibitively expensive and impractical for domain-specific languages or project-specific tasks. Besides, pre-training and downstream tasks are usually heterogeneous, which makes it difficult to fully explore the knowledge learned during pre-training. In this paper, we propose Zecoler, a zero-shot approach for learning code representations. Zecoler is built upon a pre-trained programming language model. In order to elicit knowledge from the PLMs efficiently, Zecoler casts the downstream tasks to the same form of pre-training objectives by inserting train-able prompts into the original input. These prompts can guide PLMs on how to generate better results. Subsequently, we employ the prompt tuning technique to search for the optimal prompts for PLMs automatically. This enables the representation model to efficiently fit the downstream tasks through fine-tuning on the dataset in source language domain and then reuse the pre-trained knowledge for the target domain in a zero-shot style. We evaluate Zecoler in five code intelligence tasks including code clone detection, code search, method name prediction, code summarization, and code generation. The results show that our approach significantly outperforms baseline models under the zero-shot setting.

  • 3 authors
·
Apr 13, 2024

A Unified Data Augmentation Framework for Low-Resource Multi-Domain Dialogue Generation

Current state-of-the-art dialogue systems heavily rely on extensive training datasets. However, challenges arise in domains where domain-specific training datasets are insufficient or entirely absent. To tackle this challenge, we propose a novel data Augmentation framework for Multi-Domain Dialogue Generation, referred to as AMD^2G. The AMD^2G framework consists of a data augmentation process and a two-stage training approach: domain-agnostic training and domain adaptation training. We posit that domain corpora are a blend of domain-agnostic and domain-specific features, with certain representation patterns shared among diverse domains. Domain-agnostic training aims to enable models to learn these common expressive patterns. To construct domain-agnostic dialogue corpora, we employ a \textbf{de-domaining} data processing technique used to remove domain-specific features. By mitigating the effects of domain-specific features, the model trained on the de-domained corpora can effectively learn common expression patterns in different domains. Subsequently, we adapt the learned domain-agnostic features to the target domain through domain adaptation training. We conduct experiments on Chinese dialogue datasets from five different domains and show that AMD^2G achieves superior performance compared to both direct training on the target domain corpus and collective training on all five domain corpora. Our work underscores AMD^2G as a viable alternative solution for low-resource multi-domain dialogue generation. Code and data associated with our work are available on GitHub repository^{text 1}.

  • 8 authors
·
Jun 14, 2024

Structured Spectral Graph Representation Learning for Multi-label Abnormality Analysis from 3D CT Scans

With the growing volume of CT examinations, there is an increasing demand for automated tools such as organ segmentation, abnormality detection, and report generation to support radiologists in managing their clinical workload. Multi-label classification of 3D Chest CT scans remains a critical yet challenging problem due to the complex spatial relationships inherent in volumetric data and the wide variability of abnormalities. Existing methods based on 3D convolutional neural networks struggle to capture long-range dependencies, while Vision Transformers often require extensive pre-training on large-scale, domain-specific datasets to perform competitively. In this work of academic research, we propose a 2.5D alternative by introducing a new graph-based framework that represents 3D CT volumes as structured graphs, where axial slice triplets serve as nodes processed through spectral graph convolution, enabling the model to reason over inter-slice dependencies while maintaining complexity compatible with clinical deployment. Our method, trained and evaluated on 3 datasets from independent institutions, achieves strong cross-dataset generalization, and shows competitive performance compared to state-of-the-art visual encoders. We further conduct comprehensive ablation studies to evaluate the impact of various aggregation strategies, edge-weighting schemes, and graph connectivity patterns. Additionally, we demonstrate the broader applicability of our approach through transfer experiments on automated radiology report generation and abdominal CT data.

  • 4 authors
·
Oct 12

Enhancing Environmental Robustness in Few-shot Learning via Conditional Representation Learning

Few-shot learning (FSL) has recently been extensively utilized to overcome the scarcity of training data in domain-specific visual recognition. In real-world scenarios, environmental factors such as complex backgrounds, varying lighting conditions, long-distance shooting, and moving targets often cause test images to exhibit numerous incomplete targets or noise disruptions. However, current research on evaluation datasets and methodologies has largely ignored the concept of "environmental robustness", which refers to maintaining consistent performance in complex and diverse physical environments. This neglect has led to a notable decline in the performance of FSL models during practical testing compared to their training performance. To bridge this gap, we introduce a new real-world multi-domain few-shot learning (RD-FSL) benchmark, which includes four domains and six evaluation datasets. The test images in this benchmark feature various challenging elements, such as camouflaged objects, small targets, and blurriness. Our evaluation experiments reveal that existing methods struggle to utilize training images effectively to generate accurate feature representations for challenging test images. To address this problem, we propose a novel conditional representation learning network (CRLNet) that integrates the interactions between training and testing images as conditional information in their respective representation processes. The main goal is to reduce intra-class variance or enhance inter-class variance at the feature representation level. Finally, comparative experiments reveal that CRLNet surpasses the current state-of-the-art methods, achieving performance improvements ranging from 6.83% to 16.98% across diverse settings and backbones. The source code and dataset are available at https://github.com/guoqianyu-alberta/Conditional-Representation-Learning.

  • 6 authors
·
Feb 3

Transferable Tactile Transformers for Representation Learning Across Diverse Sensors and Tasks

This paper presents T3: Transferable Tactile Transformers, a framework for tactile representation learning that scales across multi-sensors and multi-tasks. T3 is designed to overcome the contemporary issue that camera-based tactile sensing is extremely heterogeneous, i.e. sensors are built into different form factors, and existing datasets were collected for disparate tasks. T3 captures the shared latent information across different sensor-task pairings by constructing a shared trunk transformer with sensor-specific encoders and task-specific decoders. The pre-training of T3 utilizes a novel Foundation Tactile (FoTa) dataset, which is aggregated from several open-sourced datasets and it contains over 3 million data points gathered from 13 sensors and 11 tasks. FoTa is the largest and most diverse dataset in tactile sensing to date and it is made publicly available in a unified format. Across various sensors and tasks, experiments show that T3 pre-trained with FoTa achieved zero-shot transferability in certain sensor-task pairings, can be further fine-tuned with small amounts of domain-specific data, and its performance scales with bigger network sizes. T3 is also effective as a tactile encoder for long horizon contact-rich manipulation. Results from sub-millimeter multi-pin electronics insertion tasks show that T3 achieved a task success rate 25% higher than that of policies trained with tactile encoders trained from scratch, or 53% higher than without tactile sensing. Data, code, and model checkpoints are open-sourced at https://t3.alanz.info.

  • 4 authors
·
Jun 19, 2024

POND: Multi-Source Time Series Domain Adaptation with Information-Aware Prompt Tuning

Time series domain adaptation stands as a pivotal and intricate challenge with diverse applications, including but not limited to human activity recognition, sleep stage classification, and machine fault diagnosis. Despite the numerous domain adaptation techniques proposed to tackle this complex problem, they primarily focus on domain adaptation from a single source domain. Yet, it is more crucial to investigate domain adaptation from multiple domains due to the potential for greater improvements. To address this, three important challenges need to be overcome: 1). The lack of exploration to utilize domain-specific information for domain adaptation, 2). The difficulty to learn domain-specific information that changes over time, and 3). The difficulty to evaluate learned domain-specific information. In order to tackle these challenges simultaneously, in this paper, we introduce PrOmpt-based domaiN Discrimination (POND), the first framework to utilize prompts for time series domain adaptation. Specifically, to address Challenge 1, we extend the idea of prompt tuning to time series analysis and learn prompts to capture common and domain-specific information from all source domains. To handle Challenge 2, we introduce a conditional module for each source domain to generate prompts from time series input data. For Challenge 3, we propose two criteria to select good prompts, which are used to choose the most suitable source domain for domain adaptation. The efficacy and robustness of our proposed POND model are extensively validated through experiments across 50 scenarios encompassing four datasets. Experimental results demonstrate that our proposed POND model outperforms all state-of-the-art comparison methods by up to 66% on the F1-score.

  • 6 authors
·
Dec 19, 2023

OG-RAG: Ontology-Grounded Retrieval-Augmented Generation For Large Language Models

This paper presents OG-RAG, an Ontology-Grounded Retrieval Augmented Generation method designed to enhance LLM-generated responses by anchoring retrieval processes in domain-specific ontologies. While LLMs are widely used for tasks like question answering and search, they struggle to adapt to specialized knowledge, such as industrial workflows or knowledge work, without expensive fine-tuning or sub-optimal retrieval methods. Existing retrieval-augmented models, such as RAG, offer improvements but fail to account for structured domain knowledge, leading to suboptimal context generation. Ontologies, which conceptually organize domain knowledge by defining entities and their interrelationships, offer a structured representation to address this gap. OG-RAG constructs a hypergraph representation of domain documents, where each hyperedge encapsulates clusters of factual knowledge grounded using domain-specific ontology. An optimization algorithm then retrieves the minimal set of hyperedges that constructs a precise, conceptually grounded context for the LLM. This method enables efficient retrieval while preserving the complex relationships between entities. OG-RAG applies to domains where fact-based reasoning is essential, particularly in tasks that require workflows or decision-making steps to follow predefined rules and procedures. These include industrial workflows in healthcare, legal, and agricultural sectors, as well as knowledge-driven tasks such as news journalism, investigative research, consulting and more. Our evaluations demonstrate that OG-RAG increases the recall of accurate facts by 55% and improves response correctness by 40% across four different LLMs. Additionally, OG-RAG enables 30% faster attribution of responses to context and boosts fact-based reasoning accuracy by 27% compared to baseline methods.

  • 3 authors
·
Dec 11, 2024

Contrast Everything: A Hierarchical Contrastive Framework for Medical Time-Series

Contrastive representation learning is crucial in medical time series analysis as it alleviates dependency on labor-intensive, domain-specific, and scarce expert annotations. However, existing contrastive learning methods primarily focus on one single data level, which fails to fully exploit the intricate nature of medical time series. To address this issue, we present COMET, an innovative hierarchical framework that leverages data consistencies at all inherent levels in medical time series. Our meticulously designed model systematically captures data consistency from four potential levels: observation, sample, trial, and patient levels. By developing contrastive loss at multiple levels, we can learn effective representations that preserve comprehensive data consistency, maximizing information utilization in a self-supervised manner. We conduct experiments in the challenging patient-independent setting. We compare COMET against six baselines using three diverse datasets, which include ECG signals for myocardial infarction and EEG signals for Alzheimer's and Parkinson's diseases. The results demonstrate that COMET consistently outperforms all baselines, particularly in setup with 10% and 1% labeled data fractions across all datasets. These results underscore the significant impact of our framework in advancing contrastive representation learning techniques for medical time series. The source code is available at https://github.com/DL4mHealth/COMET.

  • 4 authors
·
Oct 21, 2023

Code generation and runtime techniques for enabling data-efficient deep learning training on GPUs

As deep learning models scale, their training cost has surged significantly. Due to both hardware advancements and limitations in current software stacks, the need for data efficiency has risen. Data efficiency refers to the effective hiding of data access latency and the avoidance of unnecessary data movements. Major challenges arise from the growing disparity between GPU memory bandwidth and computational throughput, imminent GPU memory capacity limitations, and inefficiencies in the PyTorch software stack, including a lack of device-specific PCIe transfer optimizations and high-level domain-specific abstractions. To effectively mitigate these data inefficiencies for deep learning training, this dissertation analyzes data inefficiency in representative deep training tasks, specifically in graph neural networks (GNNs) and large language models (LLMs). It then proposes novel runtime and code generation techniques to mitigate these challenges and implements these optimizations seamlessly within the PyTorch stack while maintaining strong programmability and interoperability. First, PyTorch-Direct is devised to incorporate the GPU-centric PCIe data transfer paradigm in PyTorch for GNN training. Next, Hector intermediate representation (IR) and its code generator are proposed to introduce domain-specific high-level abstraction and systematically address memory-intensive performance challenges for relational GNNs. Finally, in LLM training, the throughput has been increasingly constrained by GPU memory capacity. To mitigate this, the SSDTrain offloading framework is designed and implemented. Together, these contributions show that code generation and runtime techniques can systematically mitigate the data management bottlenecks in deep learning training, which stem from the data-intensive nature of workloads and the oversimplification inherent in the deep learning training software stack.

  • 1 authors
·
Dec 5, 2024

ChartGemma: Visual Instruction-tuning for Chart Reasoning in the Wild

Given the ubiquity of charts as a data analysis, visualization, and decision-making tool across industries and sciences, there has been a growing interest in developing pre-trained foundation models as well as general purpose instruction-tuned models for chart understanding and reasoning. However, existing methods suffer crucial drawbacks across two critical axes affecting the performance of chart representation models: they are trained on data generated from underlying data tables of the charts, ignoring the visual trends and patterns in chart images, and use weakly aligned vision-language backbone models for domain-specific training, limiting their generalizability when encountering charts in the wild. We address these important drawbacks and introduce ChartGemma, a novel chart understanding and reasoning model developed over PaliGemma. Rather than relying on underlying data tables, ChartGemma is trained on instruction-tuning data generated directly from chart images, thus capturing both high-level trends and low-level visual information from a diverse set of charts. Our simple approach achieves state-of-the-art results across 5 benchmarks spanning chart summarization, question answering, and fact-checking, and our elaborate qualitative studies on real-world charts show that ChartGemma generates more realistic and factually correct summaries compared to its contemporaries. We release the code, model checkpoints, dataset, and demos at https://github.com/vis-nlp/ChartGemma.

  • 6 authors
·
Jul 4, 2024 6

AnalogGenie: A Generative Engine for Automatic Discovery of Analog Circuit Topologies

The massive and large-scale design of foundational semiconductor integrated circuits (ICs) is crucial to sustaining the advancement of many emerging and future technologies, such as generative AI, 5G/6G, and quantum computing. Excitingly, recent studies have shown the great capabilities of foundational models in expediting the design of digital ICs. Yet, applying generative AI techniques to accelerate the design of analog ICs remains a significant challenge due to critical domain-specific issues, such as the lack of a comprehensive dataset and effective representation methods for analog circuits. This paper proposes, AnalogGenie, a textbf{Gen}erattextbf{i}ve textbf{e}ngine for automatic design/discovery of textbf{Analog} circuit topologies--the most challenging and creative task in the conventional manual design flow of analog ICs. AnalogGenie addresses two key gaps in the field: building a foundational comprehensive dataset of analog circuit topology and developing a scalable sequence-based graph representation universal to analog circuits. Experimental results show the remarkable generation performance of AnalogGenie in broadening the variety of analog ICs, increasing the number of devices within a single design, and discovering unseen circuit topologies far beyond any prior arts. Our work paves the way to transform the longstanding time-consuming manual design flow of analog ICs to an automatic and massive manner powered by generative AI. Our source code is available at https://github.com/xz-group/AnalogGenie.

  • 4 authors
·
Feb 28

Domain-Adversarial Training of Neural Networks

We introduce a new representation learning approach for domain adaptation, in which data at training and test time come from similar but different distributions. Our approach is directly inspired by the theory on domain adaptation suggesting that, for effective domain transfer to be achieved, predictions must be made based on features that cannot discriminate between the training (source) and test (target) domains. The approach implements this idea in the context of neural network architectures that are trained on labeled data from the source domain and unlabeled data from the target domain (no labeled target-domain data is necessary). As the training progresses, the approach promotes the emergence of features that are (i) discriminative for the main learning task on the source domain and (ii) indiscriminate with respect to the shift between the domains. We show that this adaptation behaviour can be achieved in almost any feed-forward model by augmenting it with few standard layers and a new gradient reversal layer. The resulting augmented architecture can be trained using standard backpropagation and stochastic gradient descent, and can thus be implemented with little effort using any of the deep learning packages. We demonstrate the success of our approach for two distinct classification problems (document sentiment analysis and image classification), where state-of-the-art domain adaptation performance on standard benchmarks is achieved. We also validate the approach for descriptor learning task in the context of person re-identification application.

  • 8 authors
·
May 28, 2015

Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing

Pretraining large neural language models, such as BERT, has led to impressive gains on many natural language processing (NLP) tasks. However, most pretraining efforts focus on general domain corpora, such as newswire and Web. A prevailing assumption is that even domain-specific pretraining can benefit by starting from general-domain language models. In this paper, we challenge this assumption by showing that for domains with abundant unlabeled text, such as biomedicine, pretraining language models from scratch results in substantial gains over continual pretraining of general-domain language models. To facilitate this investigation, we compile a comprehensive biomedical NLP benchmark from publicly-available datasets. Our experiments show that domain-specific pretraining serves as a solid foundation for a wide range of biomedical NLP tasks, leading to new state-of-the-art results across the board. Further, in conducting a thorough evaluation of modeling choices, both for pretraining and task-specific fine-tuning, we discover that some common practices are unnecessary with BERT models, such as using complex tagging schemes in named entity recognition (NER). To help accelerate research in biomedical NLP, we have released our state-of-the-art pretrained and task-specific models for the community, and created a leaderboard featuring our BLURB benchmark (short for Biomedical Language Understanding & Reasoning Benchmark) at https://aka.ms/BLURB.

  • 9 authors
·
Jul 30, 2020 1