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Jun 12

Less is More: Efficient Black-box Attribution via Minimal Interpretable Subset Selection

To develop a trustworthy AI system, which aim to identify the input regions that most influence the models decisions. The primary task of existing attribution methods lies in efficiently and accurately identifying the relationships among input-prediction interactions. Particularly when the input data is discrete, such as images, analyzing the relationship between inputs and outputs poses a significant challenge due to the combinatorial explosion. In this paper, we propose a novel and efficient black-box attribution mechanism, LiMA (Less input is More faithful for Attribution), which reformulates the attribution of important regions as an optimization problem for submodular subset selection. First, to accurately assess interactions, we design a submodular function that quantifies subset importance and effectively captures their impact on decision outcomes. Then, efficiently ranking input sub-regions by their importance for attribution, we improve optimization efficiency through a novel bidirectional greedy search algorithm. LiMA identifies both the most and least important samples while ensuring an optimal attribution boundary that minimizes errors. Extensive experiments on eight foundation models demonstrate that our method provides faithful interpretations with fewer regions and exhibits strong generalization, shows an average improvement of 36.3% in Insertion and 39.6% in Deletion. Our method also outperforms the naive greedy search in attribution efficiency, being 1.6 times faster. Furthermore, when explaining the reasons behind model prediction errors, the average highest confidence achieved by our method is, on average, 86.1% higher than that of state-of-the-art attribution algorithms. The code is available at https://github.com/RuoyuChen10/LIMA.

  • 7 authors
·
Apr 1, 2025

Accelerating Dependency Graph Learning from Heterogeneous Categorical Event Streams via Knowledge Transfer

Dependency graph, as a heterogeneous graph representing the intrinsic relationships between different pairs of system entities, is essential to many data analysis applications, such as root cause diagnosis, intrusion detection, etc. Given a well-trained dependency graph from a source domain and an immature dependency graph from a target domain, how can we extract the entity and dependency knowledge from the source to enhance the target? One way is to directly apply a mature dependency graph learned from a source domain to the target domain. But due to the domain variety problem, directly using the source dependency graph often can not achieve good performance. Traditional transfer learning methods mainly focus on numerical data and are not applicable. In this paper, we propose ACRET, a knowledge transfer based model for accelerating dependency graph learning from heterogeneous categorical event streams. In particular, we first propose an entity estimation model to filter out irrelevant entities from the source domain based on entity embedding and manifold learning. Only the entities with statistically high correlations are transferred to the target domain. On the surviving entities, we propose a dependency construction model for constructing the unbiased dependency relationships by solving a two-constraint optimization problem. The experimental results on synthetic and real-world datasets demonstrate the effectiveness and efficiency of ACRET. We also apply ACRET to a real enterprise security system for intrusion detection. Our method is able to achieve superior detection performance at least 20 days lead lag time in advance with more than 70% accuracy.

  • 5 authors
·
Aug 25, 2017

CORE: A Few-Shot Company Relation Classification Dataset for Robust Domain Adaptation

We introduce CORE, a dataset for few-shot relation classification (RC) focused on company relations and business entities. CORE includes 4,708 instances of 12 relation types with corresponding textual evidence extracted from company Wikipedia pages. Company names and business entities pose a challenge for few-shot RC models due to the rich and diverse information associated with them. For example, a company name may represent the legal entity, products, people, or business divisions depending on the context. Therefore, deriving the relation type between entities is highly dependent on textual context. To evaluate the performance of state-of-the-art RC models on the CORE dataset, we conduct experiments in the few-shot domain adaptation setting. Our results reveal substantial performance gaps, confirming that models trained on different domains struggle to adapt to CORE. Interestingly, we find that models trained on CORE showcase improved out-of-domain performance, which highlights the importance of high-quality data for robust domain adaptation. Specifically, the information richness embedded in business entities allows models to focus on contextual nuances, reducing their reliance on superficial clues such as relation-specific verbs. In addition to the dataset, we provide relevant code snippets to facilitate reproducibility and encourage further research in the field.

  • 5 authors
·
Oct 18, 2023

Budget Sensitive Reannotation of Noisy Relation Classification Data Using Label Hierarchy

Large crowd-sourced datasets are often noisy and relation classification (RC) datasets are no exception. Reannotating the entire dataset is one probable solution however it is not always viable due to time and budget constraints. This paper addresses the problem of efficient reannotation of a large noisy dataset for the RC. Our goal is to catch more annotation errors in the dataset while reannotating fewer instances. Existing work on RC dataset reannotation lacks the flexibility about how much data to reannotate. We introduce the concept of a reannotation budget to overcome this limitation. The immediate follow-up problem is: Given a specific reannotation budget, which subset of the data should we reannotate? To address this problem, we present two strategies to selectively reannotate RC datasets. Our strategies utilize the taxonomic hierarchy of relation labels. The intuition of our work is to rely on the graph distance between actual and predicted relation labels in the label hierarchy graph. We evaluate our reannotation strategies on the well-known TACRED dataset. We design our experiments to answer three specific research questions. First, does our strategy select novel candidates for reannotation? Second, for a given reannotation budget is our reannotation strategy more efficient at catching annotation errors? Third, what is the impact of data reannotation on RC model performance measurement? Experimental results show that our both reannotation strategies are novel and efficient. Our analysis indicates that the current reported performance of RC models on noisy TACRED data is inflated.

  • 3 authors
·
Dec 26, 2021

4DBInfer: A 4D Benchmarking Toolbox for Graph-Centric Predictive Modeling on Relational DBs

Although RDBs store vast amounts of rich, informative data spread across interconnected tables, the progress of predictive machine learning models as applied to such tasks arguably falls well behind advances in other domains such as computer vision or natural language processing. This deficit stems, at least in part, from the lack of established/public RDB benchmarks as needed for training and evaluation purposes. As a result, related model development thus far often defaults to tabular approaches trained on ubiquitous single-table benchmarks, or on the relational side, graph-based alternatives such as GNNs applied to a completely different set of graph datasets devoid of tabular characteristics. To more precisely target RDBs lying at the nexus of these two complementary regimes, we explore a broad class of baseline models predicated on: (i) converting multi-table datasets into graphs using various strategies equipped with efficient subsampling, while preserving tabular characteristics; and (ii) trainable models with well-matched inductive biases that output predictions based on these input subgraphs. Then, to address the dearth of suitable public benchmarks and reduce siloed comparisons, we assemble a diverse collection of (i) large-scale RDB datasets and (ii) coincident predictive tasks. From a delivery standpoint, we operationalize the above four dimensions (4D) of exploration within a unified, scalable open-source toolbox called 4DBInfer. We conclude by presenting evaluations using 4DBInfer, the results of which highlight the importance of considering each such dimension in the design of RDB predictive models, as well as the limitations of more naive approaches such as simply joining adjacent tables. Our source code is released at https://github.com/awslabs/multi-table-benchmark .

  • 20 authors
·
Apr 27, 2024

Name Tagging Under Domain Shift via Metric Learning for Life Sciences

Name tagging is a key component of Information Extraction (IE), particularly in scientific domains such as biomedicine and chemistry, where large language models (LLMs), e.g., ChatGPT, fall short. We investigate the applicability of transfer learning for enhancing a name tagging model trained in the biomedical domain (the source domain) to be used in the chemical domain (the target domain). A common practice for training such a model in a few-shot learning setting is to pretrain the model on the labeled source data, and then, to finetune it on a hand-full of labeled target examples. In our experiments we observed that such a model is prone to mis-labeling the source entities, which can often appear in the text, as the target entities. To alleviate this problem, we propose a model to transfer the knowledge from the source domain to the target domain, however, at the same time, to project the source entities and target entities into separate regions of the feature space. This diminishes the risk of mis-labeling the source entities as the target entities. Our model consists of two stages: 1) entity grouping in the source domain, which incorporates knowledge from annotated events to establish relations between entities, and 2) entity discrimination in the target domain, which relies on pseudo labeling and contrastive learning to enhance discrimination between the entities in the two domains. We carry out our extensive experiments across three source and three target datasets, and demonstrate that our method outperforms the baselines, in some scenarios by 5\% absolute value.

  • 4 authors
·
Jan 18, 2024

MeVer at CheckThat! 2026: Cluster-Aware Hard-Negative Mining for Multilingual Scientific-Source Retrieval

Identifying the scientific source behind a social media claim requires matching short, informal, and often multilingual claims against large collections of scientific publications, where semantically related papers may act as challenging distractors or false negatives during training. We present our submission to CheckThat! 2026 Task 1 on multilingual scientific-source retrieval, focusing on how hard-negative mining should be adapted to multi-stage retrieval pipelines for scientific-source retrieval. We propose cluster-aware hard-negative mining strategies that exploit the semantic structure of retrieved candidate pools in order to construct more informative training negatives for dense retrieval and reranking. Our experiments show that different hard-negative structures induce different retrieval behaviors. Localized cluster negatives tend to favor precision-oriented retrieval, whereas broader non-gold semantic negatives provide stronger candidate coverage and more consistent reranking performance across languages. We further study multiple LLM-based evidence-selection formulations, including direct classification, pairwise comparison, and listwise reranking prompts, and find that constrained classification prompts provide the most reliable final document selection. The final system combines a dense retriever, a multilingual cross-encoder reranker, and a selective LLM-based disagreement resolver, ranking 6th among 37 submissions in the shared task evaluation. Overall, our results suggest that hard-negative mining should be treated as a stage-aware design problem rather than as a single retrieval optimization strategy.

  • 2 authors
·
May 21

From Text to Source: Results in Detecting Large Language Model-Generated Content

The widespread use of Large Language Models (LLMs), celebrated for their ability to generate human-like text, has raised concerns about misinformation and ethical implications. Addressing these concerns necessitates the development of robust methods to detect and attribute text generated by LLMs. This paper investigates "Cross-Model Detection," evaluating whether a classifier trained to distinguish between source LLM-generated and human-written text can also detect text from a target LLM without further training. The study comprehensively explores various LLM sizes and families, and assesses the impact of conversational fine-tuning techniques on classifier generalization. The research also delves into Model Attribution, encompassing source model identification, model family classification, and model size classification. Our results reveal several key findings: a clear inverse relationship between classifier effectiveness and model size, with larger LLMs being more challenging to detect, especially when the classifier is trained on data from smaller models. Training on data from similarly sized LLMs can improve detection performance from larger models but may lead to decreased performance when dealing with smaller models. Additionally, model attribution experiments show promising results in identifying source models and model families, highlighting detectable signatures in LLM-generated text. Overall, our study contributes valuable insights into the interplay of model size, family, and training data in LLM detection and attribution.

  • 3 authors
·
Sep 23, 2023

SemanticCite: Citation Verification with AI-Powered Full-Text Analysis and Evidence-Based Reasoning

Effective scientific communication depends on accurate citations that validate sources and guide readers to supporting evidence. Yet academic literature faces mounting challenges: semantic citation errors that misrepresent sources, AI-generated hallucinated references, and traditional citation formats that point to entire papers without indicating which sections substantiate specific claims. We introduce SemanticCite, an AI-powered system that verifies citation accuracy through full-text source analysis while providing rich contextual information via detailed reasoning and relevant text snippets. Our approach combines multiple retrieval methods with a four-class classification system (Supported, Partially Supported, Unsupported, Uncertain) that captures nuanced claim-source relationships and enables appropriate remedial actions for different error types. Our experiments show that fine-tuned lightweight language models achieve performance comparable to large commercial systems with significantly lower computational requirements, making large-scale citation verification practically feasible. The system provides transparent, evidence-based explanations that support user understanding and trust. We contribute a comprehensive dataset of over 1,000 citations with detailed alignments, functional classifications, semantic annotations, and bibliometric metadata across eight disciplines, alongside fine-tuned models and the complete verification framework as open-source software. SemanticCite addresses critical challenges in research integrity through scalable citation verification, streamlined peer review, and quality control for AI-generated content, providing an open-source foundation for maintaining citation accuracy at scale.

  • 1 authors
·
Nov 20, 2025

BertNet: Harvesting Knowledge Graphs with Arbitrary Relations from Pretrained Language Models

It is crucial to automatically construct knowledge graphs (KGs) of diverse new relations to support knowledge discovery and broad applications. Previous KG construction methods, based on either crowdsourcing or text mining, are often limited to a small predefined set of relations due to manual cost or restrictions in text corpus. Recent research proposed to use pretrained language models (LMs) as implicit knowledge bases that accept knowledge queries with prompts. Yet, the implicit knowledge lacks many desirable properties of a full-scale symbolic KG, such as easy access, navigation, editing, and quality assurance. In this paper, we propose a new approach of harvesting massive KGs of arbitrary relations from pretrained LMs. With minimal input of a relation definition (a prompt and a few shot of example entity pairs), the approach efficiently searches in the vast entity pair space to extract diverse accurate knowledge of the desired relation. We develop an effective search-and-rescore mechanism for improved efficiency and accuracy. We deploy the approach to harvest KGs of over 400 new relations from different LMs. Extensive human and automatic evaluations show our approach manages to extract diverse accurate knowledge, including tuples of complex relations (e.g., "A is capable of but not good at B"). The resulting KGs as a symbolic interpretation of the source LMs also reveal new insights into the LMs' knowledge capacities.

  • 8 authors
·
Jun 28, 2022

Retrieval-Augmented Generation-based Relation Extraction

Information Extraction (IE) is a transformative process that converts unstructured text data into a structured format by employing entity and relation extraction (RE) methodologies. The identification of the relation between a pair of entities plays a crucial role within this framework. Despite the existence of various techniques for relation extraction, their efficacy heavily relies on access to labeled data and substantial computational resources. In addressing these challenges, Large Language Models (LLMs) emerge as promising solutions; however, they might return hallucinating responses due to their own training data. To overcome these limitations, Retrieved-Augmented Generation-based Relation Extraction (RAG4RE) in this work is proposed, offering a pathway to enhance the performance of relation extraction tasks. This work evaluated the effectiveness of our RAG4RE approach utilizing different LLMs. Through the utilization of established benchmarks, such as TACRED, TACREV, Re-TACRED, and SemEval RE datasets, our aim is to comprehensively evaluate the efficacy of our RAG4RE approach. In particularly, we leverage prominent LLMs including Flan T5, Llama2, and Mistral in our investigation. The results of our study demonstrate that our RAG4RE approach surpasses performance of traditional RE approaches based solely on LLMs, particularly evident in the TACRED dataset and its variations. Furthermore, our approach exhibits remarkable performance compared to previous RE methodologies across both TACRED and TACREV datasets, underscoring its efficacy and potential for advancing RE tasks in natural language processing.

  • 2 authors
·
Apr 20, 2024

GRES: Generalized Referring Expression Segmentation

Referring Expression Segmentation (RES) aims to generate a segmentation mask for the object described by a given language expression. Existing classic RES datasets and methods commonly support single-target expressions only, i.e., one expression refers to one target object. Multi-target and no-target expressions are not considered. This limits the usage of RES in practice. In this paper, we introduce a new benchmark called Generalized Referring Expression Segmentation (GRES), which extends the classic RES to allow expressions to refer to an arbitrary number of target objects. Towards this, we construct the first large-scale GRES dataset called gRefCOCO that contains multi-target, no-target, and single-target expressions. GRES and gRefCOCO are designed to be well-compatible with RES, facilitating extensive experiments to study the performance gap of the existing RES methods on the GRES task. In the experimental study, we find that one of the big challenges of GRES is complex relationship modeling. Based on this, we propose a region-based GRES baseline ReLA that adaptively divides the image into regions with sub-instance clues, and explicitly models the region-region and region-language dependencies. The proposed approach ReLA achieves new state-of-the-art performance on the both newly proposed GRES and classic RES tasks. The proposed gRefCOCO dataset and method are available at https://henghuiding.github.io/GRES.

  • 3 authors
·
Jun 1, 2023

Label Drop for Multi-Aspect Relation Modeling in Universal Information Extraction

Universal Information Extraction (UIE) has garnered significant attention due to its ability to address model explosion problems effectively. Extractive UIE can achieve strong performance using a relatively small model, making it widely adopted. Extractive UIEs generally rely on task instructions for different tasks, including single-target instructions and multiple-target instructions. Single-target instruction UIE enables the extraction of only one type of relation at a time, limiting its ability to model correlations between relations and thus restricting its capability to extract complex relations. While multiple-target instruction UIE allows for the extraction of multiple relations simultaneously, the inclusion of irrelevant relations introduces decision complexity and impacts extraction accuracy. Therefore, for multi-relation extraction, we propose LDNet, which incorporates multi-aspect relation modeling and a label drop mechanism. By assigning different relations to different levels for understanding and decision-making, we reduce decision confusion. Additionally, the label drop mechanism effectively mitigates the impact of irrelevant relations. Experiments show that LDNet outperforms or achieves competitive performance with state-of-the-art systems on 9 tasks, 33 datasets, in both single-modal and multi-modal, few-shot and zero-shot settings.https://github.com/Lu-Yang666/LDNet

  • 6 authors
·
Feb 18, 2025

ARM-Net: Adaptive Relation Modeling Network for Structured Data

Relational databases are the de facto standard for storing and querying structured data, and extracting insights from structured data requires advanced analytics. Deep neural networks (DNNs) have achieved super-human prediction performance in particular data types, e.g., images. However, existing DNNs may not produce meaningful results when applied to structured data. The reason is that there are correlations and dependencies across combinations of attribute values in a table, and these do not follow simple additive patterns that can be easily mimicked by a DNN. The number of possible such cross features is combinatorial, making them computationally prohibitive to model. Furthermore, the deployment of learning models in real-world applications has also highlighted the need for interpretability, especially for high-stakes applications, which remains another issue of concern to DNNs. In this paper, we present ARM-Net, an adaptive relation modeling network tailored for structured data, and a lightweight framework ARMOR based on ARM-Net for relational data analytics. The key idea is to model feature interactions with cross features selectively and dynamically, by first transforming the input features into exponential space, and then determining the interaction order and interaction weights adaptively for each cross feature. We propose a novel sparse attention mechanism to dynamically generate the interaction weights given the input tuple, so that we can explicitly model cross features of arbitrary orders with noisy features filtered selectively. Then during model inference, ARM-Net can specify the cross features being used for each prediction for higher accuracy and better interpretability. Our extensive experiments on real-world datasets demonstrate that ARM-Net consistently outperforms existing models and provides more interpretable predictions for data-driven decision making.

  • 6 authors
·
Jul 5, 2021

DETree: DEtecting Human-AI Collaborative Texts via Tree-Structured Hierarchical Representation Learning

Detecting AI-involved text is essential for combating misinformation, plagiarism, and academic misconduct. However, AI text generation includes diverse collaborative processes (AI-written text edited by humans, human-written text edited by AI, and AI-generated text refined by other AI), where various or even new LLMs could be involved. Texts generated through these varied processes exhibit complex characteristics, presenting significant challenges for detection. Current methods model these processes rather crudely, primarily employing binary classification (purely human vs. AI-involved) or multi-classification (treating human-AI collaboration as a new class). We observe that representations of texts generated through different processes exhibit inherent clustering relationships. Therefore, we propose DETree, a novel approach that models the relationships among different processes as a Hierarchical Affinity Tree structure, and introduces a specialized loss function that aligns text representations with this tree. To facilitate this learning, we developed RealBench, a comprehensive benchmark dataset that automatically incorporates a wide spectrum of hybrid texts produced through various human-AI collaboration processes. Our method improves performance in hybrid text detection tasks and significantly enhances robustness and generalization in out-of-distribution scenarios, particularly in few-shot learning conditions, further demonstrating the promise of training-based approaches in OOD settings. Our code and dataset are available at https://github.com/heyongxin233/DETree.

  • 5 authors
·
Oct 20, 2025

Relation Extraction with Fine-Tuned Large Language Models in Retrieval Augmented Generation Frameworks

Information Extraction (IE) is crucial for converting unstructured data into structured formats like Knowledge Graphs (KGs). A key task within IE is Relation Extraction (RE), which identifies relationships between entities in text. Various RE methods exist, including supervised, unsupervised, weakly supervised, and rule-based approaches. Recent studies leveraging pre-trained language models (PLMs) have shown significant success in this area. In the current era dominated by Large Language Models (LLMs), fine-tuning these models can overcome limitations associated with zero-shot LLM prompting-based RE methods, especially regarding domain adaptation challenges and identifying implicit relations between entities in sentences. These implicit relations, which cannot be easily extracted from a sentence's dependency tree, require logical inference for accurate identification. This work explores the performance of fine-tuned LLMs and their integration into the Retrieval Augmented-based (RAG) RE approach to address the challenges of identifying implicit relations at the sentence level, particularly when LLMs act as generators within the RAG framework. Empirical evaluations on the TACRED, TACRED-Revisited (TACREV), Re-TACRED, and SemEVAL datasets show significant performance improvements with fine-tuned LLMs, including Llama2-7B, Mistral-7B, and T5 (Large). Notably, our approach achieves substantial gains on SemEVAL, where implicit relations are common, surpassing previous results on this dataset. Additionally, our method outperforms previous works on TACRED, TACREV, and Re-TACRED, demonstrating exceptional performance across diverse evaluation scenarios.

  • 2 authors
·
Jun 20, 2024

PromptRE: Weakly-Supervised Document-Level Relation Extraction via Prompting-Based Data Programming

Relation extraction aims to classify the relationships between two entities into pre-defined categories. While previous research has mainly focused on sentence-level relation extraction, recent studies have expanded the scope to document-level relation extraction. Traditional relation extraction methods heavily rely on human-annotated training data, which is time-consuming and labor-intensive. To mitigate the need for manual annotation, recent weakly-supervised approaches have been developed for sentence-level relation extraction while limited work has been done on document-level relation extraction. Weakly-supervised document-level relation extraction faces significant challenges due to an imbalanced number "no relation" instances and the failure of directly probing pretrained large language models for document relation extraction. To address these challenges, we propose PromptRE, a novel weakly-supervised document-level relation extraction method that combines prompting-based techniques with data programming. Furthermore, PromptRE incorporates the label distribution and entity types as prior knowledge to improve the performance. By leveraging the strengths of both prompting and data programming, PromptRE achieves improved performance in relation classification and effectively handles the "no relation" problem. Experimental results on ReDocRED, a benchmark dataset for document-level relation extraction, demonstrate the superiority of PromptRE over baseline approaches.

  • 4 authors
·
Oct 13, 2023

Comparison of biomedical relationship extraction methods and models for knowledge graph creation

Biomedical research is growing at such an exponential pace that scientists, researchers, and practitioners are no more able to cope with the amount of published literature in the domain. The knowledge presented in the literature needs to be systematized in such a way that claims and hypotheses can be easily found, accessed, and validated. Knowledge graphs can provide such a framework for semantic knowledge representation from literature. However, in order to build a knowledge graph, it is necessary to extract knowledge as relationships between biomedical entities and normalize both entities and relationship types. In this paper, we present and compare few rule-based and machine learning-based (Naive Bayes, Random Forests as examples of traditional machine learning methods and DistilBERT, PubMedBERT, T5 and SciFive-based models as examples of modern deep learning transformers) methods for scalable relationship extraction from biomedical literature, and for the integration into the knowledge graphs. We examine how resilient are these various methods to unbalanced and fairly small datasets. Our experiments show that transformer-based models handle well both small (due to pre-training on a large dataset) and unbalanced datasets. The best performing model was the PubMedBERT-based model fine-tuned on balanced data, with a reported F1-score of 0.92. DistilBERT-based model followed with F1-score of 0.89, performing faster and with lower resource requirements. BERT-based models performed better then T5-based generative models.

  • 2 authors
·
Jan 5, 2022

MAC: A Conversion Rate Prediction Benchmark Featuring Labels Under Multiple Attribution Mechanisms

Multi-attribution learning (MAL), which enhances model performance by learning from conversion labels yielded by multiple attribution mechanisms, has emerged as a promising learning paradigm for conversion rate (CVR) prediction. However, the conversion labels in public CVR datasets are generated by a single attribution mechanism, hindering the development of MAL approaches. To address this data gap, we establish the Multi-Attribution Benchmark (MAC), the first public CVR dataset featuring labels from multiple attribution mechanisms. Besides, to promote reproducible research on MAL, we develop PyMAL, an open-source library covering a wide array of baseline methods. We conduct comprehensive experimental analyses on MAC and reveal three key insights: (1) MAL brings consistent performance gains across different attribution settings, especially for users featuring long conversion paths. (2) The performance growth scales up with objective complexity in most settings; however, when predicting first-click conversion targets, simply adding auxiliary objectives is counterproductive, underscoring the necessity of careful selection of auxiliary objectives. (3) Two architectural design principles are paramount: first, to fully learn the multi-attribution knowledge, and second, to fully leverage this knowledge to serve the main task. Motivated by these findings, we propose Mixture of Asymmetric Experts (MoAE), an effective MAL approach incorporating multi-attribution knowledge learning and main task-centric knowledge utilization. Experiments on MAC show that MoAE substantially surpasses the existing state-of-the-art MAL method. We believe that our benchmark and insights will foster future research in the MAL field. Our MAC benchmark and the PyMAL algorithm library are publicly available at https://github.com/alimama-tech/PyMAL.

  • 12 authors
·
Mar 1

Peeking inside the Black-Box: Reinforcement Learning for Explainable and Accurate Relation Extraction

This paper introduces a framework for relation extraction (RE) that enhances both accuracy and explainability. The framework has two key components: (i) a reasoning mechanism that formulates relation extraction as a series of text-processing steps inspired by cognitive science, and (ii) an optimization process driven by reinforcement learning (RL) with a novel reward function designed to improve both task accuracy and explanation quality. We call our approach CogRE. Our framework addresses the lack of supervision for language-based explanations in traditional RE by promoting outputs that include important relation keywords. These keywords are drawn from a high-quality dictionary that is automatically constructed using an LLM. We evaluate our approach for the task of one-shot RE using two LLMs and two RE datasets. Our experiments show that CogRE improves explanation quality by addressing two common failure patterns in one-shot RE: poor attention focus and limited one-shot learning capability. For example, our cognitive-structured reasoning with Qwen2.5-15B-Instruct on One-shot NYT29 achieves 24.65% F1, surpassing prior reasoning-based designs. Optimizing this approach with RL using our reward further improves performance by +23.46% (absolute). Finally, human evaluation shows that our best model generates relational keywords closely aligned with gold labels, increasing human explanation quality ratings by 54% (relative).

  • 5 authors
·
Oct 7, 2025

Convolutional 2D Knowledge Graph Embeddings

Link prediction for knowledge graphs is the task of predicting missing relationships between entities. Previous work on link prediction has focused on shallow, fast models which can scale to large knowledge graphs. However, these models learn less expressive features than deep, multi-layer models -- which potentially limits performance. In this work, we introduce ConvE, a multi-layer convolutional network model for link prediction, and report state-of-the-art results for several established datasets. We also show that the model is highly parameter efficient, yielding the same performance as DistMult and R-GCN with 8x and 17x fewer parameters. Analysis of our model suggests that it is particularly effective at modelling nodes with high indegree -- which are common in highly-connected, complex knowledge graphs such as Freebase and YAGO3. In addition, it has been noted that the WN18 and FB15k datasets suffer from test set leakage, due to inverse relations from the training set being present in the test set -- however, the extent of this issue has so far not been quantified. We find this problem to be severe: a simple rule-based model can achieve state-of-the-art results on both WN18 and FB15k. To ensure that models are evaluated on datasets where simply exploiting inverse relations cannot yield competitive results, we investigate and validate several commonly used datasets -- deriving robust variants where necessary. We then perform experiments on these robust datasets for our own and several previously proposed models and find that ConvE achieves state-of-the-art Mean Reciprocal Rank across most datasets.

  • 4 authors
·
Jul 3, 2018

POIROT: Aligning Attack Behavior with Kernel Audit Records for Cyber Threat Hunting

Cyber threat intelligence (CTI) is being used to search for indicators of attacks that might have compromised an enterprise network for a long time without being discovered. To have a more effective analysis, CTI open standards have incorporated descriptive relationships showing how the indicators or observables are related to each other. However, these relationships are either completely overlooked in information gathering or not used for threat hunting. In this paper, we propose a system, called POIROT, which uses these correlations to uncover the steps of a successful attack campaign. We use kernel audits as a reliable source that covers all causal relations and information flows among system entities and model threat hunting as an inexact graph pattern matching problem. Our technical approach is based on a novel similarity metric which assesses an alignment between a query graph constructed out of CTI correlations and a provenance graph constructed out of kernel audit log records. We evaluate POIROT on publicly released real-world incident reports as well as reports of an adversarial engagement designed by DARPA, including ten distinct attack campaigns against different OS platforms such as Linux, FreeBSD, and Windows. Our evaluation results show that POIROT is capable of searching inside graphs containing millions of nodes and pinpoint the attacks in a few minutes, and the results serve to illustrate that CTI correlations could be used as robust and reliable artifacts for threat hunting.

  • 4 authors
·
Sep 30, 2019

How Large Language Models Balance Internal Knowledge with User and Document Assertions

Large language models (LLMs) often need to balance their internal parametric knowledge with external information, such as user beliefs and content from retrieved documents, in real-world scenarios like RAG or chat-based systems. A model's ability to reliably process these sources is key to system safety. Previous studies on knowledge conflict and sycophancy are limited to a binary conflict paradigm, primarily exploring conflicts between parametric knowledge and either a document or a user, but ignoring the interactive environment where all three sources exist simultaneously. To fill this gap, we propose a three-source interaction framework and systematically evaluate 27 LLMs from 3 families on 2 datasets. Our findings reveal general patterns: most models rely more on document assertions than user assertions, and this preference is reinforced by post-training. Furthermore, our behavioral analysis shows that most models are impressionable, unable to effectively discriminate between helpful and harmful external information. To address this, we demonstrate that fine-tuning on diverse source interaction data can significantly increase a model's discrimination abilities. In short, our work paves the way for developing trustworthy LLMs that can effectively and reliably integrate multiple sources of information. Code is available at https://github.com/shuowl/llm-source-balancing.

  • 4 authors
·
Apr 23

Class-relation Knowledge Distillation for Novel Class Discovery

We tackle the problem of novel class discovery, which aims to learn novel classes without supervision based on labeled data from known classes. A key challenge lies in transferring the knowledge in the known-class data to the learning of novel classes. Previous methods mainly focus on building a shared representation space for knowledge transfer and often ignore modeling class relations. To address this, we introduce a class relation representation for the novel classes based on the predicted class distribution of a model trained on known classes. Empirically, we find that such class relation becomes less informative during typical discovery training. To prevent such information loss, we propose a novel knowledge distillation framework, which utilizes our class-relation representation to regularize the learning of novel classes. In addition, to enable a flexible knowledge distillation scheme for each data point in novel classes, we develop a learnable weighting function for the regularization, which adaptively promotes knowledge transfer based on the semantic similarity between the novel and known classes. To validate the effectiveness and generalization of our method, we conduct extensive experiments on multiple benchmarks, including CIFAR100, Stanford Cars, CUB, and FGVC-Aircraft datasets. Our results demonstrate that the proposed method outperforms the previous state-of-the-art methods by a significant margin on almost all benchmarks. Code is available at https://github.com/kleinzcy/Cr-KD-NCD{here}.

  • 4 authors
·
Jul 18, 2023

Hydra-SGG: Hybrid Relation Assignment for One-stage Scene Graph Generation

DETR introduces a simplified one-stage framework for scene graph generation (SGG) but faces challenges of sparse supervision and false negative samples. The former occurs because each image typically contains fewer than 10 relation annotations, while DETR-based SGG models employ over 100 relation queries. Each ground truth relation is assigned to only one query during training. The latter arises when one ground truth relation may have multiple queries with similar matching scores, leading to suboptimally matched queries being treated as negative samples. To address these, we propose Hydra-SGG, a one-stage SGG method featuring a Hybrid Relation Assignment. This approach combines a One-to-One Relation Assignment with an IoU-based One-to-Many Relation Assignment, increasing positive training samples and mitigating sparse supervision. In addition, we empirically demonstrate that removing self-attention between relation queries leads to duplicate predictions, which actually benefits the proposed One-to-Many Relation Assignment. With this insight, we introduce Hydra Branch, an auxiliary decoder without self-attention layers, to further enhance One-to-Many Relation Assignment by promoting different queries to make the same relation prediction. Hydra-SGG achieves state-of-the-art performance on multiple datasets, including VG150 (16.0 mR@50), Open Images V6 (50.1 weighted score), and GQA (12.7 mR@50).

  • 4 authors
·
Sep 16, 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

Engineering Design Knowledge Graphs from Patented Artefact Descriptions for Retrieval-Augmented Generation in the Design Process

Despite significant popularity, Large-language Models (LLMs) require explicit, contextual facts to support domain-specific knowledge-intensive tasks in the design process. The applications built using LLMs should hence adopt Retrieval-Augmented Generation (RAG) to better suit the design process. In this article, we present a data-driven method to identify explicit facts from patent documents that provide standard descriptions of over 8 million artefacts. In our method, we train roBERTa Transformer-based sequence classification models using our dataset of 44,227 sentences and facts. Upon classifying tokens in a sentence as entities or relationships, our method uses another classifier to identify specific relationship tokens for a given pair of entities so that explicit facts of the form head entity :: relationship :: tail entity are identified. In the benchmark approaches for constructing facts, we use linear classifiers and Graph Neural Networks (GNNs) both incorporating BERT Transformer-based token embeddings to predict associations among the entities and relationships. We apply our method to 4,870 fan system related patents and populate a knowledge base of around 3 million facts. Upon retrieving the facts representing generalisable domain knowledge and the knowledge of specific subsystems and issues, we demonstrate how these facts contextualise LLMs for generating text that is more relevant to the design process.

  • 2 authors
·
Jul 13, 2023

EmpiriGraph-Psy: A Dataset and LLM Pipeline for Extracting Empirical Relation Graphs from Psychology Abstracts

Existing scientific relation extraction benchmarks mainly target domains such as computer science, where entities are tasks, methods, datasets, materials, or metrics. This leaves a gap in variable-oriented empirical fields such as psychology, where findings are expressed as relations among constructs, measurements, interventions, and outcomes. We introduce variable-centered empirical graph extraction, the task of mapping scientific abstracts to typed graphs whose nodes are normalized variables and whose edges represent empirical and hierarchical relations. To support this task, we construct EmpiriGraph-Psy, a benchmark of 210 psychology abstracts annotated by domain-trained annotators with normalized variables, concept hierarchies, empirical relation types, and validation states. We evaluate frontier and open-weight LLMs using both direct extraction and a staged graph-construction pipeline that separates variable extraction, normalization, hierarchy construction, evidence selection, relation extraction, and edge validation. The staged pipeline substantially outperforms direct extraction, with the best configuration achieving a macro-F1 of 0.74. Error analysis shows that moderation relations and concept hierarchies remain the most challenging cases, highlighting the difficulty of extracting higher-order empirical claims and implicit abstraction structure from scientific abstracts.

  • 4 authors
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Jun 5 2

Evaluating Explainable AI Attribution Methods in Neural Machine Translation via Attention-Guided Knowledge Distillation

The study of the attribution of input features to the output of neural network models is an active area of research. While numerous Explainable AI (XAI) techniques have been proposed to interpret these models, the systematic and automated evaluation of these methods in sequence-to-sequence (seq2seq) models is less explored. This paper introduces a new approach for evaluating explainability methods in transformer-based seq2seq models. We use teacher-derived attribution maps as a structured side signal to guide a student model, and quantify the utility of different attribution methods through the student's ability to simulate targets. Using the Inseq library, we extract attribution scores over source-target sequence pairs and inject these scores into the attention mechanism of a student transformer model under four composition operators (addition, multiplication, averaging, and replacement). Across three language pairs (de-en, fr-en, ar-en) and attributions from Marian-MT and mBART models, Attention, Value Zeroing, and Layer Gradient times Activation consistently yield the largest gains in BLEU (and corresponding improvements in chrF) relative to baselines. In contrast, other gradient-based methods (Saliency, Integrated Gradients, DeepLIFT, Input times Gradient, GradientShap) lead to smaller and less consistent improvements. These results suggest that different attribution methods capture distinct signals and that attention-derived attributions better capture alignment between source and target representations in seq2seq models. Finally, we introduce an Attributor transformer that, given a source-target pair, learns to reconstruct the teacher's attribution map. Our findings demonstrate that the more accurately the Attributor can reproduce attribution maps, the more useful an injection of those maps is for the downstream task. The source code can be found on GitHub.

  • 4 authors
·
Mar 10

Heterogeneous Graph Representation Learning with Relation Awareness

Representation learning on heterogeneous graphs aims to obtain meaningful node representations to facilitate various downstream tasks, such as node classification and link prediction. Existing heterogeneous graph learning methods are primarily developed by following the propagation mechanism of node representations. There are few efforts on studying the role of relations for improving the learning of more fine-grained node representations. Indeed, it is important to collaboratively learn the semantic representations of relations and discern node representations with respect to different relation types. To this end, in this paper, we propose a novel Relation-aware Heterogeneous Graph Neural Network, namely R-HGNN, to learn node representations on heterogeneous graphs at a fine-grained level by considering relation-aware characteristics. Specifically, a dedicated graph convolution component is first designed to learn unique node representations from each relation-specific graph separately. Then, a cross-relation message passing module is developed to improve the interactions of node representations across different relations. Also, the relation representations are learned in a layer-wise manner to capture relation semantics, which are used to guide the node representation learning process. Moreover, a semantic fusing module is presented to aggregate relation-aware node representations into a compact representation with the learned relation representations. Finally, we conduct extensive experiments on a variety of graph learning tasks, and experimental results demonstrate that our approach consistently outperforms existing methods among all the tasks.

  • 6 authors
·
May 24, 2021

Context Aware Grounded Teacher for Source Free Object Detection

We focus on the Source Free Object Detection (SFOD) problem, when source data is unavailable during adaptation, and the model must adapt to the unlabeled target domain. In medical imaging, several approaches have leveraged a semi-supervised student-teacher architecture to bridge domain discrepancy. Context imbalance in labeled training data and significant domain shifts between domains can lead to biased teacher models that produce inaccurate pseudolabels, degrading the student model's performance and causing a mode collapse. Class imbalance, particularly when one class significantly outnumbers another, leads to contextual bias. To tackle the problem of context bias and the significant performance drop of the student model in the SFOD setting, we introduce Grounded Teacher (GT) as a standard framework. In this study, we model contextual relationships using a dedicated relational context module and leverage it to mitigate inherent biases in the model. This approach enables us to apply augmentations to closely related classes, across and within domains, enhancing the performance of underrepresented classes while keeping the effect on dominant classes minimal. We further improve the quality of predictions by implementing an expert foundational branch to supervise the student model. We validate the effectiveness of our approach in mitigating context bias under the SFOD setting through experiments on three medical datasets supported by comprehensive ablation studies. All relevant resources, including preprocessed data, trained model weights, and code, are publicly available at this https://github.com/Tajamul21/Grounded_Teacher.

  • 5 authors
·
Apr 21, 2025

MultiTACRED: A Multilingual Version of the TAC Relation Extraction Dataset

Relation extraction (RE) is a fundamental task in information extraction, whose extension to multilingual settings has been hindered by the lack of supervised resources comparable in size to large English datasets such as TACRED (Zhang et al., 2017). To address this gap, we introduce the MultiTACRED dataset, covering 12 typologically diverse languages from 9 language families, which is created by machine-translating TACRED instances and automatically projecting their entity annotations. We analyze translation and annotation projection quality, identify error categories, and experimentally evaluate fine-tuned pretrained mono- and multilingual language models in common transfer learning scenarios. Our analyses show that machine translation is a viable strategy to transfer RE instances, with native speakers judging more than 83% of the translated instances to be linguistically and semantically acceptable. We find monolingual RE model performance to be comparable to the English original for many of the target languages, and that multilingual models trained on a combination of English and target language data can outperform their monolingual counterparts. However, we also observe a variety of translation and annotation projection errors, both due to the MT systems and linguistic features of the target languages, such as pronoun-dropping, compounding and inflection, that degrade dataset quality and RE model performance.

  • 3 authors
·
May 8, 2023

Graph-Aware Isomorphic Attention for Adaptive Dynamics in Transformers

We present an approach to modifying Transformer architectures by integrating graph-aware relational reasoning into the attention mechanism, merging concepts from graph neural networks and language modeling. Building on the inherent connection between attention and graph theory, we reformulate the Transformer's attention mechanism as a graph operation and propose Graph-Aware Isomorphic Attention. This method leverages advanced graph modeling strategies, including Graph Isomorphism Networks (GIN) and Principal Neighborhood Aggregation (PNA), to enrich the representation of relational structures. Our approach captures complex dependencies and generalizes across tasks, as evidenced by a reduced generalization gap and improved learning performance. Additionally, we expand the concept of graph-aware attention to introduce Sparse GIN-Attention, a fine-tuning approach that employs sparse GINs. By interpreting attention matrices as sparse adjacency graphs, this technique enhances the adaptability of pre-trained foundational models with minimal computational overhead, endowing them with graph-aware capabilities. Sparse GIN-Attention fine-tuning achieves improved training dynamics and better generalization compared to alternative methods like low-rank adaption (LoRA). We discuss latent graph-like structures within traditional attention mechanisms, offering a new lens through which Transformers can be understood. By evolving Transformers as hierarchical GIN models for relational reasoning. This perspective suggests profound implications for foundational model development, enabling the design of architectures that dynamically adapt to both local and global dependencies. Applications in bioinformatics, materials science, language modeling, and beyond could benefit from this synthesis of relational and sequential data modeling, setting the stage for interpretable and generalizable modeling strategies.

  • 1 authors
·
Jan 4, 2025 2

Improved Active Multi-Task Representation Learning via Lasso

To leverage the copious amount of data from source tasks and overcome the scarcity of the target task samples, representation learning based on multi-task pretraining has become a standard approach in many applications. However, up until now, most existing works design a source task selection strategy from a purely empirical perspective. Recently, chen2022active gave the first active multi-task representation learning (A-MTRL) algorithm which adaptively samples from source tasks and can provably reduce the total sample complexity using the L2-regularized-target-source-relevance parameter nu^2. But their work is theoretically suboptimal in terms of total source sample complexity and is less practical in some real-world scenarios where sparse training source task selection is desired. In this paper, we address both issues. Specifically, we show the strict dominance of the L1-regularized-relevance-based (nu^1-based) strategy by giving a lower bound for the nu^2-based strategy. When nu^1 is unknown, we propose a practical algorithm that uses the LASSO program to estimate nu^1. Our algorithm successfully recovers the optimal result in the known case. In addition to our sample complexity results, we also characterize the potential of our nu^1-based strategy in sample-cost-sensitive settings. Finally, we provide experiments on real-world computer vision datasets to illustrate the effectiveness of our proposed method.

  • 4 authors
·
Jun 4, 2023

Inductive Entity Representations from Text via Link Prediction

Knowledge Graphs (KG) are of vital importance for multiple applications on the web, including information retrieval, recommender systems, and metadata annotation. Regardless of whether they are built manually by domain experts or with automatic pipelines, KGs are often incomplete. Recent work has begun to explore the use of textual descriptions available in knowledge graphs to learn vector representations of entities in order to preform link prediction. However, the extent to which these representations learned for link prediction generalize to other tasks is unclear. This is important given the cost of learning such representations. Ideally, we would prefer representations that do not need to be trained again when transferring to a different task, while retaining reasonable performance. In this work, we propose a holistic evaluation protocol for entity representations learned via a link prediction objective. We consider the inductive link prediction and entity classification tasks, which involve entities not seen during training. We also consider an information retrieval task for entity-oriented search. We evaluate an architecture based on a pretrained language model, that exhibits strong generalization to entities not observed during training, and outperforms related state-of-the-art methods (22% MRR improvement in link prediction on average). We further provide evidence that the learned representations transfer well to other tasks without fine-tuning. In the entity classification task we obtain an average improvement of 16% in accuracy compared with baselines that also employ pre-trained models. In the information retrieval task, we obtain significant improvements of up to 8.8% in NDCG@10 for natural language queries. We thus show that the learned representations are not limited KG-specific tasks, and have greater generalization properties than evaluated in previous work.

  • 3 authors
·
Oct 7, 2020

LowFER: Low-rank Bilinear Pooling for Link Prediction

Knowledge graphs are incomplete by nature, with only a limited number of observed facts from the world knowledge being represented as structured relations between entities. To partly address this issue, an important task in statistical relational learning is that of link prediction or knowledge graph completion. Both linear and non-linear models have been proposed to solve the problem. Bilinear models, while expressive, are prone to overfitting and lead to quadratic growth of parameters in number of relations. Simpler models have become more standard, with certain constraints on bilinear map as relation parameters. In this work, we propose a factorized bilinear pooling model, commonly used in multi-modal learning, for better fusion of entities and relations, leading to an efficient and constraint-free model. We prove that our model is fully expressive, providing bounds on the embedding dimensionality and factorization rank. Our model naturally generalizes Tucker decomposition based TuckER model, which has been shown to generalize other models, as efficient low-rank approximation without substantially compromising the performance. Due to low-rank approximation, the model complexity can be controlled by the factorization rank, avoiding the possible cubic growth of TuckER. Empirically, we evaluate on real-world datasets, reaching on par or state-of-the-art performance. At extreme low-ranks, model preserves the performance while staying parameter efficient.

  • 4 authors
·
Aug 25, 2020

Bias and Fairness in Large Language Models: A Survey

Rapid advancements of large language models (LLMs) have enabled the processing, understanding, and generation of human-like text, with increasing integration into systems that touch our social sphere. Despite this success, these models can learn, perpetuate, and amplify harmful social biases. In this paper, we present a comprehensive survey of bias evaluation and mitigation techniques for LLMs. We first consolidate, formalize, and expand notions of social bias and fairness in natural language processing, defining distinct facets of harm and introducing several desiderata to operationalize fairness for LLMs. We then unify the literature by proposing three intuitive taxonomies, two for bias evaluation, namely metrics and datasets, and one for mitigation. Our first taxonomy of metrics for bias evaluation disambiguates the relationship between metrics and evaluation datasets, and organizes metrics by the different levels at which they operate in a model: embeddings, probabilities, and generated text. Our second taxonomy of datasets for bias evaluation categorizes datasets by their structure as counterfactual inputs or prompts, and identifies the targeted harms and social groups; we also release a consolidation of publicly-available datasets for improved access. Our third taxonomy of techniques for bias mitigation classifies methods by their intervention during pre-processing, in-training, intra-processing, and post-processing, with granular subcategories that elucidate research trends. Finally, we identify open problems and challenges for future work. Synthesizing a wide range of recent research, we aim to provide a clear guide of the existing literature that empowers researchers and practitioners to better understand and prevent the propagation of bias in LLMs.

  • 9 authors
·
Sep 1, 2023

Unveiling the Hidden Agenda: Biases in News Reporting and Consumption

One of the most pressing challenges in the digital media landscape is understanding the impact of biases on the news sources that people rely on for information. Biased news can have significant and far-reaching consequences, influencing our perspectives and shaping the decisions we make, potentially endangering the public and individual well-being. With the advent of the Internet and social media, discussions have moved online, making it easier to disseminate both accurate and inaccurate information. To combat mis- and dis-information, many have begun to evaluate the reliability of news sources, but these assessments often only examine the validity of the news (narrative bias) and neglect other types of biases, such as the deliberate selection of events to favor certain perspectives (selection bias). This paper aims to investigate these biases in various news sources and their correlation with third-party evaluations of reliability, engagement, and online audiences. Using machine learning to classify content, we build a six-year dataset on the Italian vaccine debate and adopt a Bayesian latent space model to identify narrative and selection biases. Our results show that the source classification provided by third-party organizations closely follows the narrative bias dimension, while it is much less accurate in identifying the selection bias. Moreover, we found a nonlinear relationship between biases and engagement, with higher engagement for extreme positions. Lastly, analysis of news consumption on Twitter reveals common audiences among news outlets with similar ideological positions.

  • 5 authors
·
Jan 14, 2023

Relation Extraction in underexplored biomedical domains: A diversity-optimised sampling and synthetic data generation approach

The sparsity of labelled data is an obstacle to the development of Relation Extraction models and the completion of databases in various biomedical areas. While being of high interest in drug-discovery, the natural-products literature, reporting the identification of potential bioactive compounds from organisms, is a concrete example of such an overlooked topic. To mark the start of this new task, we created the first curated evaluation dataset and extracted literature items from the LOTUS database to build training sets. To this end, we developed a new sampler inspired by diversity metrics in ecology, named Greedy Maximum Entropy sampler, or GME-sampler (https://github.com/idiap/gme-sampler). The strategic optimization of both balance and diversity of the selected items in the evaluation set is important given the resource-intensive nature of manual curation. After quantifying the noise in the training set, in the form of discrepancies between the input abstracts text and the expected output labels, we explored different strategies accordingly. Framing the task as an end-to-end Relation Extraction, we evaluated the performance of standard fine-tuning as a generative task and few-shot learning with open Large Language Models (LLaMA 7B-65B). In addition to their evaluation in few-shot settings, we explore the potential of open Large Language Models (Vicuna-13B) as synthetic data generator and propose a new workflow for this purpose. All evaluated models exhibited substantial improvements when fine-tuned on synthetic abstracts rather than the original noisy data. We provide our best performing (f1-score=59.0) BioGPT-Large model for end-to-end RE of natural-products relationships along with all the generated synthetic data and the evaluation dataset. See more details at https://github.com/idiap/abroad-re.

  • 3 authors
·
Nov 10, 2023

KGAT: Knowledge Graph Attention Network for Recommendation

To provide more accurate, diverse, and explainable recommendation, it is compulsory to go beyond modeling user-item interactions and take side information into account. Traditional methods like factorization machine (FM) cast it as a supervised learning problem, which assumes each interaction as an independent instance with side information encoded. Due to the overlook of the relations among instances or items (e.g., the director of a movie is also an actor of another movie), these methods are insufficient to distill the collaborative signal from the collective behaviors of users. In this work, we investigate the utility of knowledge graph (KG), which breaks down the independent interaction assumption by linking items with their attributes. We argue that in such a hybrid structure of KG and user-item graph, high-order relations --- which connect two items with one or multiple linked attributes --- are an essential factor for successful recommendation. We propose a new method named Knowledge Graph Attention Network (KGAT) which explicitly models the high-order connectivities in KG in an end-to-end fashion. It recursively propagates the embeddings from a node's neighbors (which can be users, items, or attributes) to refine the node's embedding, and employs an attention mechanism to discriminate the importance of the neighbors. Our KGAT is conceptually advantageous to existing KG-based recommendation methods, which either exploit high-order relations by extracting paths or implicitly modeling them with regularization. Empirical results on three public benchmarks show that KGAT significantly outperforms state-of-the-art methods like Neural FM and RippleNet. Further studies verify the efficacy of embedding propagation for high-order relation modeling and the interpretability benefits brought by the attention mechanism.

  • 5 authors
·
May 19, 2019