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Nov 18

Reshaping Free-Text Radiology Notes Into Structured Reports With Generative Transformers

BACKGROUND: Radiology reports are typically written in a free-text format, making clinical information difficult to extract and use. Recently the adoption of structured reporting (SR) has been recommended by various medical societies thanks to the advantages it offers, e.g. standardization, completeness and information retrieval. We propose a pipeline to extract information from free-text radiology reports, that fits with the items of the reference SR registry proposed by a national society of interventional and medical radiology, focusing on CT staging of patients with lymphoma. METHODS: Our work aims to leverage the potential of Natural Language Processing (NLP) and Transformer-based models to deal with automatic SR registry filling. With the availability of 174 radiology reports, we investigate a rule-free generative Question Answering approach based on a domain-specific version of T5 (IT5). Two strategies (batch-truncation and ex-post combination) are implemented to comply with the model's context length limitations. Performance is evaluated in terms of strict accuracy, F1, and format accuracy, and compared with the widely used GPT-3.5 Large Language Model. A 5-point Likert scale questionnaire is used to collect human-expert feedback on the similarity between medical annotations and generated answers. RESULTS: The combination of fine-tuning and batch splitting allows IT5 to achieve notable results; it performs on par with GPT-3.5 albeit its size being a thousand times smaller in terms of parameters. Human-based assessment scores show a high correlation (Spearman's correlation coefficients>0.88, p-values<0.001) with AI performance metrics (F1) and confirm the superior ability of LLMs (i.e., GPT-3.5, 175B of parameters) in generating plausible human-like statements.

  • 8 authors
·
Mar 27, 2024

Preference-free Alignment Learning with Regularized Relevance Reward

Learning from human preference has been considered key to aligning Large Language Models (LLMs) with human values. However, contrary to popular belief, our preliminary study reveals that reward models trained on human preference datasets tend to give higher scores to long off-topic responses than short on-topic ones. Motivated by this observation, we explore a preference-free approach utilizing `relevance' as a key objective for alignment. On our first attempt, we find that the relevance score obtained by a retriever alone is vulnerable to reward hacking, i.e., overoptimizing to undesired shortcuts, when we utilize the score as a reward for reinforcement learning. To mitigate it, we integrate effective inductive biases into the vanilla relevance to regularize each other, resulting in a mixture of reward functions: Regularized Relevance Reward (R^3). R^3 significantly improves performance on preference benchmarks by providing a robust reward signal. Notably, R^3 does not require any human preference datasets (i.e., preference-free), outperforming open-source reward models in improving human preference. Our analysis demonstrates that R^3 has advantages in elevating human preference while minimizing its side effects. Finally, we show the generalizability of R^3, consistently improving instruction-tuned models in various backbones and sizes without additional dataset cost. Our code is available at https://github.com/naver-ai/RRR.

  • 2 authors
·
Feb 2, 2024

VLSP 2021 - ViMRC Challenge: Vietnamese Machine Reading Comprehension

One of the emerging research trends in natural language understanding is machine reading comprehension (MRC) which is the task to find answers to human questions based on textual data. Existing Vietnamese datasets for MRC research concentrate solely on answerable questions. However, in reality, questions can be unanswerable for which the correct answer is not stated in the given textual data. To address the weakness, we provide the research community with a benchmark dataset named UIT-ViQuAD 2.0 for evaluating the MRC task and question answering systems for the Vietnamese language. We use UIT-ViQuAD 2.0 as a benchmark dataset for the challenge on Vietnamese MRC at the Eighth Workshop on Vietnamese Language and Speech Processing (VLSP 2021). This task attracted 77 participant teams from 34 universities and other organizations. In this article, we present details of the organization of the challenge, an overview of the methods employed by shared-task participants, and the results. The highest performances are 77.24% in F1-score and 67.43% in Exact Match on the private test set. The Vietnamese MRC systems proposed by the top 3 teams use XLM-RoBERTa, a powerful pre-trained language model based on the transformer architecture. The UIT-ViQuAD 2.0 dataset motivates researchers to further explore the Vietnamese machine reading comprehension task and related tasks such as question answering, question generation, and natural language inference.

  • 6 authors
·
Mar 21, 2022

reStructured Pre-training

In this work, we try to decipher the internal connection of NLP technology development in the past decades, searching for essence, which rewards us with a (potential) new learning paradigm for NLP tasks, dubbed as reStructured Pre-training (RST). In such a paradigm, the role of data will be re-emphasized, and model pre-training and fine-tuning of downstream tasks are viewed as a process of data storing and accessing. Based on that, we operationalize the simple principle that a good storage mechanism should not only have the ability to cache a large amount of data but also consider the ease of access. We achieve this by pre-training models over restructured data that consist of a variety of valuable information instead of raw data after overcoming several engineering challenges. Experimentally, RST models not only surpass strong competitors (e.g., T0) on 52/55 popular datasets from a variety of NLP tasks, but also achieve superior performance in National College Entrance Examination - English (Gaokao-English),the most authoritative examination in China. Specifically, the proposed system Qin achieves 40 points higher than the average scores made by students and 15 points higher than GPT3 with 1/16 parameters. In particular, Qin gets a high score of 138.5 (the full mark is 150) in the 2018 English exam (national paper III). We have released the Gaokao Benchmark with an online submission platform. In addition, we test our model in the 2022 College Entrance Examination English that happened a few days ago (2022.06.08), and it gets a total score of 134 (v.s. GPT3's 108).

  • 2 authors
·
Jun 22, 2022

Characterizing Deep Research: A Benchmark and Formal Definition

Information tasks such as writing surveys or analytical reports require complex search and reasoning, and have recently been grouped under the umbrella of deep research -- a term also adopted by recent models targeting these capabilities. Despite growing interest, the scope of the deep research task remains underdefined and its distinction from other reasoning-intensive problems is poorly understood. In this paper, we propose a formal characterization of the deep research (DR) task and introduce a benchmark to evaluate the performance of DR systems. We argue that the core defining feature of deep research is not the production of lengthy report-style outputs, but rather the high fan-out over concepts required during the search process, i.e., broad and reasoning-intensive exploration. To enable objective evaluation, we define DR using an intermediate output representation that encodes key claims uncovered during search-separating the reasoning challenge from surface-level report generation. Based on this formulation, we propose a diverse, challenging benchmark LiveDRBench with 100 challenging tasks over scientific topics (e.g., datasets, materials discovery, prior art search) and public interest events (e.g., flight incidents, movie awards). Across state-of-the-art DR systems, F1 score ranges between 0.02 and 0.72 for any sub-category. OpenAI's model performs the best with an overall F1 score of 0.55. Analysis of reasoning traces reveals the distribution over the number of referenced sources, branching, and backtracking events executed by current DR systems, motivating future directions for improving their search mechanisms and grounding capabilities. The benchmark is available at https://github.com/microsoft/LiveDRBench.

  • 9 authors
·
Aug 6

GottBERT: a pure German Language Model

Lately, pre-trained language models advanced the field of natural language processing (NLP). The introduction of Bidirectional Encoders for Transformers (BERT) and its optimized version RoBERTa have had significant impact and increased the relevance of pre-trained models. First, research in this field mainly started on English data followed by models trained with multilingual text corpora. However, current research shows that multilingual models are inferior to monolingual models. Currently, no German single language RoBERTa model is yet published, which we introduce in this work (GottBERT). The German portion of the OSCAR data set was used as text corpus. In an evaluation we compare its performance on the two Named Entity Recognition (NER) tasks Conll 2003 and GermEval 2014 as well as on the text classification tasks GermEval 2018 (fine and coarse) and GNAD with existing German single language BERT models and two multilingual ones. GottBERT was pre-trained related to the original RoBERTa model using fairseq. All downstream tasks were trained using hyperparameter presets taken from the benchmark of German BERT. The experiments were setup utilizing FARM. Performance was measured by the F_{1} score. GottBERT was successfully pre-trained on a 256 core TPU pod using the RoBERTa BASE architecture. Even without extensive hyper-parameter optimization, in all NER and one text classification task, GottBERT already outperformed all other tested German and multilingual models. In order to support the German NLP field, we publish GottBERT under the AGPLv3 license.

  • 5 authors
·
Dec 3, 2020

CXR-LLaVA: Multimodal Large Language Model for Interpreting Chest X-ray Images

Purpose: Recent advancements in large language models (LLMs) have expanded their capabilities in a multimodal fashion, potentially replicating the image interpretation of human radiologists. This study aimed to develop open-source multimodal large language model for interpreting chest X-ray images (CXR-LLaVA). We also examined the effect of prompt engineering and model parameters such as temperature and nucleus sampling. Materials and Methods: For training, we collected 659,287 publicly available CXRs: 417,336 CXRs had labels for certain radiographic abnormalities (dataset 1); 241,951 CXRs provided free-text radiology reports (dataset 2). After pre-training the Resnet50 as an image encoder, the contrastive language-image pre-training was used to align CXRs and corresponding radiographic abnormalities. Then, the Large Language Model Meta AI-2 was fine-tuned using dataset 2, which were refined using GPT-4, with generating various question answering scenarios. The code can be found at https://github.com/ECOFRI/CXR_LLaVA. Results: In the test set, we observed that the model's performance fluctuated based on its parameters. On average, it achieved F1 score of 0.34 for five pathologic findings (atelectasis, cardiomegaly, consolidation, edema, and pleural effusion), which was improved to 0.46 through prompt engineering. In the independent set, the model achieved an average F1 score of 0.30 for the same pathologic findings. Notably, for the pediatric chest radiograph dataset, which was unseen during training, the model differentiated abnormal radiographs with an F1 score ranging from 0.84 to 0.85. Conclusion: CXR-LLaVA demonstrates promising potential in CXR interpretation. Both prompt engineering and model parameter adjustments can play pivotal roles in interpreting CXRs.

  • 4 authors
·
Oct 22, 2023

Revisiting Scene Text Recognition: A Data Perspective

This paper aims to re-assess scene text recognition (STR) from a data-oriented perspective. We begin by revisiting the six commonly used benchmarks in STR and observe a trend of performance saturation, whereby only 2.91% of the benchmark images cannot be accurately recognized by an ensemble of 13 representative models. While these results are impressive and suggest that STR could be considered solved, however, we argue that this is primarily due to the less challenging nature of the common benchmarks, thus concealing the underlying issues that STR faces. To this end, we consolidate a large-scale real STR dataset, namely Union14M, which comprises 4 million labeled images and 10 million unlabeled images, to assess the performance of STR models in more complex real-world scenarios. Our experiments demonstrate that the 13 models can only achieve an average accuracy of 66.53% on the 4 million labeled images, indicating that STR still faces numerous challenges in the real world. By analyzing the error patterns of the 13 models, we identify seven open challenges in STR and develop a challenge-driven benchmark consisting of eight distinct subsets to facilitate further progress in the field. Our exploration demonstrates that STR is far from being solved and leveraging data may be a promising solution. In this regard, we find that utilizing the 10 million unlabeled images through self-supervised pre-training can significantly improve the robustness of STR model in real-world scenarios and leads to state-of-the-art performance.

  • 5 authors
·
Jul 17, 2023

Development of a Large-scale Dataset of Chest Computed Tomography Reports in Japanese and a High-performance Finding Classification Model

Background: Recent advances in large language models highlight the need for high-quality multilingual medical datasets. While Japan leads globally in CT scanner deployment and utilization, the lack of large-scale Japanese radiology datasets has hindered the development of specialized language models for medical imaging analysis. Objective: To develop a comprehensive Japanese CT report dataset through machine translation and establish a specialized language model for structured finding classification. Additionally, to create a rigorously validated evaluation dataset through expert radiologist review. Methods: We translated the CT-RATE dataset (24,283 CT reports from 21,304 patients) into Japanese using GPT-4o mini. The training dataset consisted of 22,778 machine-translated reports, while the validation dataset included 150 radiologist-revised reports. We developed CT-BERT-JPN based on "tohoku-nlp/bert-base-japanese-v3" architecture for extracting 18 structured findings from Japanese radiology reports. Results: Translation metrics showed strong performance with BLEU scores of 0.731 and 0.690, and ROUGE scores ranging from 0.770 to 0.876 for Findings and from 0.748 to 0.857 for Impression sections. CT-BERT-JPN demonstrated superior performance compared to GPT-4o in 11 out of 18 conditions, including lymphadenopathy (+14.2%), interlobular septal thickening (+10.9%), and atelectasis (+7.4%). The model maintained F1 scores exceeding 0.95 in 14 out of 18 conditions and achieved perfect scores in four conditions. Conclusions: Our study establishes a robust Japanese CT report dataset and demonstrates the effectiveness of a specialized language model for structured finding classification. The hybrid approach of machine translation and expert validation enables the creation of large-scale medical datasets while maintaining high quality.

  • 10 authors
·
Dec 20, 2024

A Natural Language Processing Pipeline of Chinese Free-text Radiology Reports for Liver Cancer Diagnosis

Despite the rapid development of natural language processing (NLP) implementation in electronic medical records (EMRs), Chinese EMRs processing remains challenging due to the limited corpus and specific grammatical characteristics, especially for radiology reports. In this study, we designed an NLP pipeline for the direct extraction of clinically relevant features from Chinese radiology reports, which is the first key step in computer-aided radiologic diagnosis. The pipeline was comprised of named entity recognition, synonyms normalization, and relationship extraction to finally derive the radiological features composed of one or more terms. In named entity recognition, we incorporated lexicon into deep learning model bidirectional long short-term memory-conditional random field (BiLSTM-CRF), and the model finally achieved an F1 score of 93.00%. With the extracted radiological features, least absolute shrinkage and selection operator and machine learning methods (support vector machine, random forest, decision tree, and logistic regression) were used to build the classifiers for liver cancer prediction. For liver cancer diagnosis, random forest had the highest predictive performance in liver cancer diagnosis (F1 score 86.97%, precision 87.71%, and recall 86.25%). This work was a comprehensive NLP study focusing on Chinese radiology reports and the application of NLP in cancer risk prediction. The proposed NLP pipeline for the radiological feature extraction could be easily implemented in other kinds of Chinese clinical texts and other disease predictive tasks.

  • 9 authors
·
Apr 10, 2020

Offensive Language and Hate Speech Detection for Danish

The presence of offensive language on social media platforms and the implications this poses is becoming a major concern in modern society. Given the enormous amount of content created every day, automatic methods are required to detect and deal with this type of content. Until now, most of the research has focused on solving the problem for the English language, while the problem is multilingual. We construct a Danish dataset containing user-generated comments from Reddit and Facebook. It contains user generated comments from various social media platforms, and to our knowledge, it is the first of its kind. Our dataset is annotated to capture various types and target of offensive language. We develop four automatic classification systems, each designed to work for both the English and the Danish language. In the detection of offensive language in English, the best performing system achieves a macro averaged F1-score of 0.74, and the best performing system for Danish achieves a macro averaged F1-score of 0.70. In the detection of whether or not an offensive post is targeted, the best performing system for English achieves a macro averaged F1-score of 0.62, while the best performing system for Danish achieves a macro averaged F1-score of 0.73. Finally, in the detection of the target type in a targeted offensive post, the best performing system for English achieves a macro averaged F1-score of 0.56, and the best performing system for Danish achieves a macro averaged F1-score of 0.63. Our work for both the English and the Danish language captures the type and targets of offensive language, and present automatic methods for detecting different kinds of offensive language such as hate speech and cyberbullying.

  • 2 authors
·
Aug 13, 2019

Prometheus: Inducing Fine-grained Evaluation Capability in Language Models

Recently, using a powerful proprietary Large Language Model (LLM) (e.g., GPT-4) as an evaluator for long-form responses has become the de facto standard. However, for practitioners with large-scale evaluation tasks and custom criteria in consideration (e.g., child-readability), using proprietary LLMs as an evaluator is unreliable due to the closed-source nature, uncontrolled versioning, and prohibitive costs. In this work, we propose Prometheus, a fully open-source LLM that is on par with GPT-4's evaluation capabilities when the appropriate reference materials (reference answer, score rubric) are accompanied. We first construct the Feedback Collection, a new dataset that consists of 1K fine-grained score rubrics, 20K instructions, and 100K responses and language feedback generated by GPT-4. Using the Feedback Collection, we train Prometheus, a 13B evaluator LLM that can assess any given long-form text based on customized score rubric provided by the user. Experimental results show that Prometheus scores a Pearson correlation of 0.897 with human evaluators when evaluating with 45 customized score rubrics, which is on par with GPT-4 (0.882), and greatly outperforms ChatGPT (0.392). Furthermore, measuring correlation with GPT-4 with 1222 customized score rubrics across four benchmarks (MT Bench, Vicuna Bench, Feedback Bench, Flask Eval) shows similar trends, bolstering Prometheus's capability as an evaluator LLM. Lastly, Prometheus achieves the highest accuracy on two human preference benchmarks (HHH Alignment & MT Bench Human Judgment) compared to open-sourced reward models explicitly trained on human preference datasets, highlighting its potential as an universal reward model. We open-source our code, dataset, and model at https://github.com/kaistAI/Prometheus.

  • 11 authors
·
Oct 12, 2023 4

PBSCR: The Piano Bootleg Score Composer Recognition Dataset

This article motivates, describes, and presents the PBSCR dataset for studying composer recognition of classical piano music. Our goal was to design a dataset that facilitates large-scale research on composer recognition that is suitable for modern architectures and training practices. To achieve this goal, we utilize the abundance of sheet music images and rich metadata on IMSLP, use a previously proposed feature representation called a bootleg score to encode the location of noteheads relative to staff lines, and present the data in an extremely simple format (2D binary images) to encourage rapid exploration and iteration. The dataset itself contains 40,000 62x64 bootleg score images for a 9-class recognition task, 100,000 62x64 bootleg score images for a 100-class recognition task, and 29,310 unlabeled variable-length bootleg score images for pretraining. The labeled data is presented in a form that mirrors MNIST images, in order to make it extremely easy to visualize, manipulate, and train models in an efficient manner. We include relevant information to connect each bootleg score image with its underlying raw sheet music image, and we scrape, organize, and compile metadata from IMSLP on all piano works to facilitate multimodal research and allow for convenient linking to other datasets. We release baseline results in a supervised and low-shot setting for future works to compare against, and we discuss open research questions that the PBSCR data is especially well suited to facilitate research on.

  • 3 authors
·
Jan 30, 2024

Detecting automatically the layout of clinical documents to enhance the performances of downstream natural language processing

Objective:Develop and validate an algorithm for analyzing the layout of PDF clinical documents to improve the performance of downstream natural language processing tasks. Materials and Methods: We designed an algorithm to process clinical PDF documents and extract only clinically relevant text. The algorithm consists of several steps: initial text extraction using a PDF parser, followed by classification into categories such as body text, left notes, and footers using a Transformer deep neural network architecture, and finally an aggregation step to compile the lines of a given label in the text. We evaluated the technical performance of the body text extraction algorithm by applying it to a random sample of documents that were annotated. Medical performance was evaluated by examining the extraction of medical concepts of interest from the text in their respective sections. Finally, we tested an end-to-end system on a medical use case of automatic detection of acute infection described in the hospital report. Results:Our algorithm achieved per-line precision, recall, and F1 score of 98.4, 97.0, and 97.7, respectively, for body line extraction. The precision, recall, and F1 score per document for the acute infection detection algorithm were 82.54 (95CI 72.86-91.60), 85.24 (95CI 76.61-93.70), 83.87 (95CI 76, 92-90.08) with exploitation of the results of the advanced body extraction algorithm, respectively. Conclusion:We have developed and validated a system for extracting body text from clinical documents in PDF format by identifying their layout. We were able to demonstrate that this preprocessing allowed us to obtain better performances for a common downstream task, i.e., the extraction of medical concepts in their respective sections, thus proving the interest of this method on a clinical use case.

  • 7 authors
·
May 23, 2023

IndicSTR12: A Dataset for Indic Scene Text Recognition

The importance of Scene Text Recognition (STR) in today's increasingly digital world cannot be overstated. Given the significance of STR, data intensive deep learning approaches that auto-learn feature mappings have primarily driven the development of STR solutions. Several benchmark datasets and substantial work on deep learning models are available for Latin languages to meet this need. On more complex, syntactically and semantically, Indian languages spoken and read by 1.3 billion people, there is less work and datasets available. This paper aims to address the Indian space's lack of a comprehensive dataset by proposing the largest and most comprehensive real dataset - IndicSTR12 - and benchmarking STR performance on 12 major Indian languages. A few works have addressed the same issue, but to the best of our knowledge, they focused on a small number of Indian languages. The size and complexity of the proposed dataset are comparable to those of existing Latin contemporaries, while its multilingualism will catalyse the development of robust text detection and recognition models. It was created specifically for a group of related languages with different scripts. The dataset contains over 27000 word-images gathered from various natural scenes, with over 1000 word-images for each language. Unlike previous datasets, the images cover a broader range of realistic conditions, including blur, illumination changes, occlusion, non-iconic texts, low resolution, perspective text etc. Along with the new dataset, we provide a high-performing baseline on three models - PARSeq, CRNN, and STARNet.

  • 3 authors
·
Mar 12, 2024

Reliable and Efficient Amortized Model-based Evaluation

Comprehensive evaluations of language models (LM) during both development and deployment phases are necessary because these models possess numerous capabilities (e.g., mathematical reasoning, legal support, or medical diagnostic) as well as safety risks (e.g., racial bias, toxicity, or misinformation). The average score across a wide range of benchmarks provides a signal that helps guide the use of these LMs in practice. Currently, holistic evaluations are costly due to the large volume of benchmark questions, making frequent evaluations impractical. A popular attempt to lower the cost is to compute the average score on a subset of the benchmark. This approach, unfortunately, often renders an unreliable measure of LM performance because the average score is often confounded with the difficulty of the questions in the benchmark subset. Item response theory (IRT) was designed to address this challenge, providing a reliable measurement by careful controlling for question difficulty. Unfortunately, question difficulty is expensive to estimate. Facing this challenge, we train a model that predicts question difficulty from its content, enabling a reliable measurement at a fraction of the cost. In addition, we leverage this difficulty predictor to further improve the evaluation efficiency through training a question generator given a difficulty level. This question generator is essential in adaptive testing, where, instead of using a random subset of the benchmark questions, informative questions are adaptively chosen based on the current estimation of LLM performance. Experiments on 22 common natural language benchmarks and 172 LMs show that this approach is more reliable and efficient compared to current common practice.

  • 5 authors
·
Mar 17

ModernBERT is More Efficient than Conventional BERT for Chest CT Findings Classification in Japanese Radiology Reports

Objective: This study aims to evaluate and compare the performance of two Japanese language models-conventional Bidirectional Encoder Representations from Transformers (BERT) and the newer ModernBERT-in classifying findings from chest CT reports, with a focus on tokenization efficiency, processing time, and classification performance. Methods: We conducted a retrospective study using the CT-RATE-JPN dataset containing 22,778 training reports and 150 test reports. Both models were fine-tuned for multi-label classification of 18 common chest CT conditions. The training data was split in 18,222:4,556 for training and validation. Performance was evaluated using F1 scores for each condition and exact match accuracy across all 18 labels. Results: ModernBERT demonstrated superior tokenization efficiency, requiring 24.0% fewer tokens per document (258.1 vs. 339.6) compared to BERT Base. This translated to significant performance improvements, with ModernBERT completing training in 1877.67 seconds versus BERT's 3090.54 seconds (39% reduction). ModernBERT processed 38.82 samples per second during training (1.65x faster) and 139.90 samples per second during inference (1.66x faster). Despite these efficiency gains, classification performance remained comparable, with ModernBERT achieving superior F1 scores in 8 conditions, while BERT performed better in 4 conditions. Overall exact match accuracy was slightly higher for ModernBERT (74.67% vs. 72.67%), though this difference was not statistically significant (p=0.6291). Conclusion: ModernBERT offers substantial improvements in tokenization efficiency and training speed without sacrificing classification performance. These results suggest that ModernBERT is a promising candidate for clinical applications in Japanese radiology reports analysis.

  • 5 authors
·
Mar 6

An Analysis of Approaches Taken in the ACM RecSys Challenge 2018 for Automatic Music Playlist Continuation

The ACM Recommender Systems Challenge 2018 focused on the task of automatic music playlist continuation, which is a form of the more general task of sequential recommendation. Given a playlist of arbitrary length with some additional meta-data, the task was to recommend up to 500 tracks that fit the target characteristics of the original playlist. For the RecSys Challenge, Spotify released a dataset of one million user-generated playlists. Participants could compete in two tracks, i.e., main and creative tracks. Participants in the main track were only allowed to use the provided training set, however, in the creative track, the use of external public sources was permitted. In total, 113 teams submitted 1,228 runs to the main track; 33 teams submitted 239 runs to the creative track. The highest performing team in the main track achieved an R-precision of 0.2241, an NDCG of 0.3946, and an average number of recommended songs clicks of 1.784. In the creative track, an R-precision of 0.2233, an NDCG of 0.3939, and a click rate of 1.785 was obtained by the best team. This article provides an overview of the challenge, including motivation, task definition, dataset description, and evaluation. We further report and analyze the results obtained by the top performing teams in each track and explore the approaches taken by the winners. We finally summarize our key findings, discuss generalizability of approaches and results to domains other than music, and list the open avenues and possible future directions in the area of automatic playlist continuation.

  • 4 authors
·
Oct 2, 2018

Biomed-Enriched: A Biomedical Dataset Enriched with LLMs for Pretraining and Extracting Rare and Hidden Content

We introduce Biomed-Enriched, a biomedical text dataset constructed from PubMed via a two-stage annotation process. In the first stage, a large language model annotates 400K paragraphs from PubMed scientific articles, assigning scores for their type (review, study, clinical case, other), domain (clinical, biomedical, other), and educational quality. The educational quality score (rated 1 to 5) estimates how useful a paragraph is for college-level learning. These annotations are then used to fine-tune a small language model, which propagates the labels across the full PMC-OA corpus. The resulting metadata allows us to extract refined subsets, including 2M clinical case paragraphs with over 450K high-quality ones from articles with commercial-use licenses, and to construct several variants via quality filtering and domain upsampling. Clinical text is typically difficult to access due to privacy constraints, as hospital records cannot be publicly shared. Hence, our dataset provides an alternative large-scale, openly available collection of clinical cases from PubMed, making it a valuable resource for biomedical and clinical NLP. Preliminary continual-pretraining experiments with OLMo2 suggest these curated subsets enable targeted improvements, with clinical upsampling boosting performance by ~5% on MMLU ProfMed and educational quality filtering improving MedQA and MedMCQA by ~1%. Combinations of these techniques led to faster convergence, reaching same performance with a third of training tokens, indicating potential for more efficient and effective biomedical pretraining strategies.

  • 3 authors
·
Jun 25 1

The Power Of Simplicity: Why Simple Linear Models Outperform Complex Machine Learning Techniques -- Case Of Breast Cancer Diagnosis

This research paper investigates the effectiveness of simple linear models versus complex machine learning techniques in breast cancer diagnosis, emphasizing the importance of interpretability and computational efficiency in the medical domain. We focus on Logistic Regression (LR), Decision Trees (DT), and Support Vector Machines (SVM) and optimize their performance using the UCI Machine Learning Repository dataset. Our findings demonstrate that the simpler linear model, LR, outperforms the more complex DT and SVM techniques, with a test score mean of 97.28%, a standard deviation of 1.62%, and a computation time of 35.56 ms. In comparison, DT achieved a test score mean of 93.73%, and SVM had a test score mean of 96.44%. The superior performance of LR can be attributed to its simplicity and interpretability, which provide a clear understanding of the relationship between input features and the outcome. This is particularly valuable in the medical domain, where interpretability is crucial for decision-making. Moreover, the computational efficiency of LR offers advantages in terms of scalability and real-world applicability. The results of this study highlight the power of simplicity in the context of breast cancer diagnosis and suggest that simpler linear models like LR can be more effective, interpretable, and computationally efficient than their complex counterparts, making them a more suitable choice for medical applications.

  • 3 authors
·
Jun 4, 2023

HelpSteer2: Open-source dataset for training top-performing reward models

High-quality preference datasets are essential for training reward models that can effectively guide large language models (LLMs) in generating high-quality responses aligned with human preferences. As LLMs become stronger and better aligned, permissively licensed preference datasets, such as Open Assistant, HH-RLHF, and HelpSteer need to be updated to remain effective for reward modeling. Methods that distil preference data from proprietary LLMs such as GPT-4 have restrictions on commercial usage imposed by model providers. To improve upon both generated responses and attribute labeling quality, we release HelpSteer2, a permissively licensed preference dataset (CC-BY-4.0). Using a powerful internal base model trained on HelpSteer2, we are able to achieve the SOTA score (92.0%) on Reward-Bench's primary dataset, outperforming currently listed open and proprietary models, as of June 12th, 2024. Notably, HelpSteer2 consists of only ten thousand response pairs, an order of magnitude fewer than existing preference datasets (e.g., HH-RLHF), which makes it highly efficient for training reward models. Our extensive experiments demonstrate that reward models trained with HelpSteer2 are effective in aligning LLMs. In particular, we propose SteerLM 2.0, a model alignment approach that can effectively make use of the rich multi-attribute score predicted by our reward models. HelpSteer2 is available at https://huggingface.co/datasets/nvidia/HelpSteer2 and code is available at https://github.com/NVIDIA/NeMo-Aligner

  • 9 authors
·
Jun 12, 2024 3

Diagnosis extraction from unstructured Dutch echocardiogram reports using span- and document-level characteristic classification

Clinical machine learning research and AI driven clinical decision support models rely on clinically accurate labels. Manually extracting these labels with the help of clinical specialists is often time-consuming and expensive. This study tests the feasibility of automatic span- and document-level diagnosis extraction from unstructured Dutch echocardiogram reports. We included 115,692 unstructured echocardiogram reports from the UMCU a large university hospital in the Netherlands. A randomly selected subset was manually annotated for the occurrence and severity of eleven commonly described cardiac characteristics. We developed and tested several automatic labelling techniques at both span and document levels, using weighted and macro F1-score, precision, and recall for performance evaluation. We compared the performance of span labelling against document labelling methods, which included both direct document classifiers and indirect document classifiers that rely on span classification results. The SpanCategorizer and MedRoBERTa.nl models outperformed all other span and document classifiers, respectively. The weighted F1-score varied between characteristics, ranging from 0.60 to 0.93 in SpanCategorizer and 0.96 to 0.98 in MedRoBERTa.nl. Direct document classification was superior to indirect document classification using span classifiers. SetFit achieved competitive document classification performance using only 10\% of the training data. Utilizing a reduced label set yielded near-perfect document classification results. We recommend using our published SpanCategorizer and MedRoBERTa.nl models for span- and document-level diagnosis extraction from Dutch echocardiography reports. For settings with limited training data, SetFit may be a promising alternative for document classification.

  • 7 authors
·
Aug 13, 2024

The Chronicles of RAG: The Retriever, the Chunk and the Generator

Retrieval Augmented Generation (RAG) has become one of the most popular paradigms for enabling LLMs to access external data, and also as a mechanism for grounding to mitigate against hallucinations. When implementing RAG you can face several challenges like effective integration of retrieval models, efficient representation learning, data diversity, computational efficiency optimization, evaluation, and quality of text generation. Given all these challenges, every day a new technique to improve RAG appears, making it unfeasible to experiment with all combinations for your problem. In this context, this paper presents good practices to implement, optimize, and evaluate RAG for the Brazilian Portuguese language, focusing on the establishment of a simple pipeline for inference and experiments. We explored a diverse set of methods to answer questions about the first Harry Potter book. To generate the answers we used the OpenAI's gpt-4, gpt-4-1106-preview, gpt-3.5-turbo-1106, and Google's Gemini Pro. Focusing on the quality of the retriever, our approach achieved an improvement of MRR@10 by 35.4% compared to the baseline. When optimizing the input size in the application, we observed that it is possible to further enhance it by 2.4%. Finally, we present the complete architecture of the RAG with our recommendations. As result, we moved from a baseline of 57.88% to a maximum relative score of 98.61%.

  • 8 authors
·
Jan 15, 2024

Summarizing Patients Problems from Hospital Progress Notes Using Pre-trained Sequence-to-Sequence Models

Automatically summarizing patients' main problems from daily progress notes using natural language processing methods helps to battle against information and cognitive overload in hospital settings and potentially assists providers with computerized diagnostic decision support. Problem list summarization requires a model to understand, abstract, and generate clinical documentation. In this work, we propose a new NLP task that aims to generate a list of problems in a patient's daily care plan using input from the provider's progress notes during hospitalization. We investigate the performance of T5 and BART, two state-of-the-art seq2seq transformer architectures, in solving this problem. We provide a corpus built on top of progress notes from publicly available electronic health record progress notes in the Medical Information Mart for Intensive Care (MIMIC)-III. T5 and BART are trained on general domain text, and we experiment with a data augmentation method and a domain adaptation pre-training method to increase exposure to medical vocabulary and knowledge. Evaluation methods include ROUGE, BERTScore, cosine similarity on sentence embedding, and F-score on medical concepts. Results show that T5 with domain adaptive pre-training achieves significant performance gains compared to a rule-based system and general domain pre-trained language models, indicating a promising direction for tackling the problem summarization task.

  • 6 authors
·
Aug 17, 2022

Am I eligible? Natural Language Inference for Clinical Trial Patient Recruitment: the Patient's Point of View

Recruiting patients to participate in clinical trials can be challenging and time-consuming. Usually, participation in a clinical trial is initiated by a healthcare professional and proposed to the patient. Promoting clinical trials directly to patients via online recruitment might help to reach them more efficiently. In this study, we address the case where a patient is initiating their own recruitment process and wants to determine whether they are eligible for a given clinical trial, using their own language to describe their medical profile. To study whether this creates difficulties in the patient trial matching process, we design a new dataset and task, Natural Language Inference for Patient Recruitment (NLI4PR), in which patient language profiles must be matched to clinical trials. We create it by adapting the TREC 2022 Clinical Trial Track dataset, which provides patients' medical profiles, and rephrasing them manually using patient language. We also use the associated clinical trial reports where the patients are either eligible or excluded. We prompt several open-source Large Language Models on our task and achieve from 56.5 to 71.8 of F1 score using patient language, against 64.7 to 73.1 for the same task using medical language. When using patient language, we observe only a small loss in performance for the best model, suggesting that having the patient as a starting point could be adopted to help recruit patients for clinical trials. The corpus and code bases are all freely available on our Github and HuggingFace repositories.

  • 3 authors
·
Mar 19

Open-Set Recognition: a Good Closed-Set Classifier is All You Need?

The ability to identify whether or not a test sample belongs to one of the semantic classes in a classifier's training set is critical to practical deployment of the model. This task is termed open-set recognition (OSR) and has received significant attention in recent years. In this paper, we first demonstrate that the ability of a classifier to make the 'none-of-above' decision is highly correlated with its accuracy on the closed-set classes. We find that this relationship holds across loss objectives and architectures, and further demonstrate the trend both on the standard OSR benchmarks as well as on a large-scale ImageNet evaluation. Second, we use this correlation to boost the performance of a maximum logit score OSR 'baseline' by improving its closed-set accuracy, and with this strong baseline achieve state-of-the-art on a number of OSR benchmarks. Similarly, we boost the performance of the existing state-of-the-art method by improving its closed-set accuracy, but the resulting discrepancy with the strong baseline is marginal. Our third contribution is to present the 'Semantic Shift Benchmark' (SSB), which better respects the task of detecting semantic novelty, in contrast to other forms of distribution shift also considered in related sub-fields, such as out-of-distribution detection. On this new evaluation, we again demonstrate that there is negligible difference between the strong baseline and the existing state-of-the-art. Project Page: https://www.robots.ox.ac.uk/~vgg/research/osr/

  • 4 authors
·
Oct 12, 2021

AES Systems Are Both Overstable And Oversensitive: Explaining Why And Proposing Defenses

Deep-learning based Automatic Essay Scoring (AES) systems are being actively used by states and language testing agencies alike to evaluate millions of candidates for life-changing decisions ranging from college applications to visa approvals. However, little research has been put to understand and interpret the black-box nature of deep-learning based scoring algorithms. Previous studies indicate that scoring models can be easily fooled. In this paper, we explore the reason behind their surprising adversarial brittleness. We utilize recent advances in interpretability to find the extent to which features such as coherence, content, vocabulary, and relevance are important for automated scoring mechanisms. We use this to investigate the oversensitivity i.e., large change in output score with a little change in input essay content) and overstability i.e., little change in output scores with large changes in input essay content) of AES. Our results indicate that autoscoring models, despite getting trained as "end-to-end" models with rich contextual embeddings such as BERT, behave like bag-of-words models. A few words determine the essay score without the requirement of any context making the model largely overstable. This is in stark contrast to recent probing studies on pre-trained representation learning models, which show that rich linguistic features such as parts-of-speech and morphology are encoded by them. Further, we also find that the models have learnt dataset biases, making them oversensitive. To deal with these issues, we propose detection-based protection models that can detect oversensitivity and overstability causing samples with high accuracies. We find that our proposed models are able to detect unusual attribution patterns and flag adversarial samples successfully.

  • 6 authors
·
Sep 23, 2021

Harnessing Transfer Learning from Swahili: Advancing Solutions for Comorian Dialects

If today some African languages like Swahili have enough resources to develop high-performing Natural Language Processing (NLP) systems, many other languages spoken on the continent are still lacking such support. For these languages, still in their infancy, several possibilities exist to address this critical lack of data. Among them is Transfer Learning, which allows low-resource languages to benefit from the good representation of other languages that are similar to them. In this work, we adopt a similar approach, aiming to pioneer NLP technologies for Comorian, a group of four languages or dialects belonging to the Bantu family. Our approach is initially motivated by the hypothesis that if a human can understand a different language from their native language with little or no effort, it would be entirely possible to model this process on a machine. To achieve this, we consider ways to construct Comorian datasets mixed with Swahili. One thing to note here is that in terms of Swahili data, we only focus on elements that are closest to Comorian by calculating lexical distances between candidate and source data. We empirically test this hypothesis in two use cases: Automatic Speech Recognition (ASR) and Machine Translation (MT). Our MT model achieved ROUGE-1, ROUGE-2, and ROUGE-L scores of 0.6826, 0.42, and 0.6532, respectively, while our ASR system recorded a WER of 39.50\% and a CER of 13.76\%. This research is crucial for advancing NLP in underrepresented languages, with potential to preserve and promote Comorian linguistic heritage in the digital age.

  • 4 authors
·
Dec 9, 2024

QASiNa: Religious Domain Question Answering using Sirah Nabawiyah

Nowadays, Question Answering (QA) tasks receive significant research focus, particularly with the development of Large Language Model (LLM) such as Chat GPT [1]. LLM can be applied to various domains, but it contradicts the principles of information transmission when applied to the Islamic domain. In Islam we strictly regulates the sources of information and who can give interpretations or tafseer for that sources [2]. The approach used by LLM to generate answers based on its own interpretation is similar to the concept of tafseer, LLM is neither an Islamic expert nor a human which is not permitted in Islam. Indonesia is the country with the largest Islamic believer population in the world [3]. With the high influence of LLM, we need to make evaluation of LLM in religious domain. Currently, there is only few religious QA dataset available and none of them using Sirah Nabawiyah especially in Indonesian Language. In this paper, we propose the Question Answering Sirah Nabawiyah (QASiNa) dataset, a novel dataset compiled from Sirah Nabawiyah literatures in Indonesian language. We demonstrate our dataset by using mBERT [4], XLM-R [5], and IndoBERT [6] which fine-tuned with Indonesian translation of SQuAD v2.0 [7]. XLM-R model returned the best performance on QASiNa with EM of 61.20, F1-Score of 75.94, and Substring Match of 70.00. We compare XLM-R performance with Chat GPT-3.5 and GPT-4 [1]. Both Chat GPT version returned lower EM and F1-Score with higher Substring Match, the gap of EM and Substring Match get wider in GPT-4. The experiment indicate that Chat GPT tends to give excessive interpretations as evidenced by its higher Substring Match scores compared to EM and F1-Score, even after providing instruction and context. This concludes Chat GPT is unsuitable for question answering task in religious domain especially for Islamic religion.

  • 3 authors
·
Oct 12, 2023

Indonesian Text-to-Image Synthesis with Sentence-BERT and FastGAN

Currently, text-to-image synthesis uses text encoder and image generator architecture. Research on this topic is challenging. This is because of the domain gap between natural language and vision. Nowadays, most research on this topic only focuses on producing a photo-realistic image, but the other domain, in this case, is the language, which is less concentrated. A lot of the current research uses English as the input text. Besides, there are many languages around the world. Bahasa Indonesia, as the official language of Indonesia, is quite popular. This language has been taught in Philipines, Australia, and Japan. Translating or recreating a new dataset into another language with good quality will cost a lot. Research on this domain is necessary because we need to examine how the image generator performs in other languages besides generating photo-realistic images. To achieve this, we translate the CUB dataset into Bahasa using google translate and manually by humans. We use Sentence BERT as the text encoder and FastGAN as the image generator. FastGAN uses lots of skip excitation modules and auto-encoder to generate an image with resolution 512x512x3, which is twice as bigger as the current state-of-the-art model (Zhang, Xu, Li, Zhang, Wang, Huang and Metaxas, 2019). We also get 4.76 +- 0.43 and 46.401 on Inception Score and Fr\'echet inception distance, respectively, and comparable with the current English text-to-image generation models. The mean opinion score also gives as 3.22 out of 5, which means the generated image is acceptable by humans. Link to source code: https://github.com/share424/Indonesian-Text-to-Image-synthesis-with-Sentence-BERT-and-FastGAN

  • 2 authors
·
Mar 25, 2023

Time-Reversal Provides Unsupervised Feedback to LLMs

Large Language Models (LLMs) are typically trained to predict in the forward direction of time. However, recent works have shown that prompting these models to look back and critique their own generations can produce useful feedback. Motivated by this, we explore the question of whether LLMs can be empowered to think (predict and score) backwards to provide unsupervised feedback that complements forward LLMs. Towards this, we introduce Time Reversed Language Models (TRLMs), which can score and generate queries when conditioned on responses, effectively functioning in the reverse direction of time. Further, to effectively infer in the response to query direction, we pre-train and fine-tune a language model (TRLM-Ba) in the reverse token order from scratch. We show empirically (and theoretically in a stylized setting) that time-reversed models can indeed complement forward model predictions when used to score the query given response for re-ranking multiple forward generations. We obtain up to 5\% improvement on the widely used AlpacaEval Leaderboard over the competent baseline of best-of-N re-ranking using self log-perplexity scores. We further show that TRLM scoring outperforms conventional forward scoring of response given query, resulting in significant gains in applications such as citation generation and passage retrieval. We next leverage the generative ability of TRLM to augment or provide unsupervised feedback to input safety filters of LLMs, demonstrating a drastic reduction in false negative rate with negligible impact on false positive rates against several attacks published on the popular JailbreakBench leaderboard.

  • 6 authors
·
Dec 3, 2024

A New Data Representation Based on Training Data Characteristics to Extract Drug Named-Entity in Medical Text

One essential task in information extraction from the medical corpus is drug name recognition. Compared with text sources come from other domains, the medical text is special and has unique characteristics. In addition, the medical text mining poses more challenges, e.g., more unstructured text, the fast growing of new terms addition, a wide range of name variation for the same drug. The mining is even more challenging due to the lack of labeled dataset sources and external knowledge, as well as multiple token representations for a single drug name that is more common in the real application setting. Although many approaches have been proposed to overwhelm the task, some problems remained with poor F-score performance (less than 0.75). This paper presents a new treatment in data representation techniques to overcome some of those challenges. We propose three data representation techniques based on the characteristics of word distribution and word similarities as a result of word embedding training. The first technique is evaluated with the standard NN model, i.e., MLP (Multi-Layer Perceptrons). The second technique involves two deep network classifiers, i.e., DBN (Deep Belief Networks), and SAE (Stacked Denoising Encoders). The third technique represents the sentence as a sequence that is evaluated with a recurrent NN model, i.e., LSTM (Long Short Term Memory). In extracting the drug name entities, the third technique gives the best F-score performance compared to the state of the art, with its average F-score being 0.8645.

  • 3 authors
·
Oct 6, 2016

MusicScore: A Dataset for Music Score Modeling and Generation

Music scores are written representations of music and contain rich information about musical components. The visual information on music scores includes notes, rests, staff lines, clefs, dynamics, and articulations. This visual information in music scores contains more semantic information than audio and symbolic representations of music. Previous music score datasets have limited sizes and are mainly designed for optical music recognition (OMR). There is a lack of research on creating a large-scale benchmark dataset for music modeling and generation. In this work, we propose MusicScore, a large-scale music score dataset collected and processed from the International Music Score Library Project (IMSLP). MusicScore consists of image-text pairs, where the image is a page of a music score and the text is the metadata of the music. The metadata of MusicScore is extracted from the general information section of the IMSLP pages. The metadata includes rich information about the composer, instrument, piece style, and genre of the music pieces. MusicScore is curated into small, medium, and large scales of 400, 14k, and 200k image-text pairs with varying diversity, respectively. We build a score generation system based on a UNet diffusion model to generate visually readable music scores conditioned on text descriptions to benchmark the MusicScore dataset for music score generation. MusicScore is released to the public at https://huggingface.co/datasets/ZheqiDAI/MusicScore.

  • 3 authors
·
Jun 17, 2024

Comparing Rule-Based and Deep Learning Models for Patient Phenotyping

Objective: We investigate whether deep learning techniques for natural language processing (NLP) can be used efficiently for patient phenotyping. Patient phenotyping is a classification task for determining whether a patient has a medical condition, and is a crucial part of secondary analysis of healthcare data. We assess the performance of deep learning algorithms and compare them with classical NLP approaches. Materials and Methods: We compare convolutional neural networks (CNNs), n-gram models, and approaches based on cTAKES that extract pre-defined medical concepts from clinical notes and use them to predict patient phenotypes. The performance is tested on 10 different phenotyping tasks using 1,610 discharge summaries extracted from the MIMIC-III database. Results: CNNs outperform other phenotyping algorithms in all 10 tasks. The average F1-score of our model is 76 (PPV of 83, and sensitivity of 71) with our model having an F1-score up to 37 points higher than alternative approaches. We additionally assess the interpretability of our model by presenting a method that extracts the most salient phrases for a particular prediction. Conclusion: We show that NLP methods based on deep learning improve the performance of patient phenotyping. Our CNN-based algorithm automatically learns the phrases associated with each patient phenotype. As such, it reduces the annotation complexity for clinical domain experts, who are normally required to develop task-specific annotation rules and identify relevant phrases. Our method performs well in terms of both performance and interpretability, which indicates that deep learning is an effective approach to patient phenotyping based on clinicians' notes.

  • 11 authors
·
Mar 25, 2017

Sequence to Sequence Learning with Neural Networks

Deep Neural Networks (DNNs) are powerful models that have achieved excellent performance on difficult learning tasks. Although DNNs work well whenever large labeled training sets are available, they cannot be used to map sequences to sequences. In this paper, we present a general end-to-end approach to sequence learning that makes minimal assumptions on the sequence structure. Our method uses a multilayered Long Short-Term Memory (LSTM) to map the input sequence to a vector of a fixed dimensionality, and then another deep LSTM to decode the target sequence from the vector. Our main result is that on an English to French translation task from the WMT'14 dataset, the translations produced by the LSTM achieve a BLEU score of 34.8 on the entire test set, where the LSTM's BLEU score was penalized on out-of-vocabulary words. Additionally, the LSTM did not have difficulty on long sentences. For comparison, a phrase-based SMT system achieves a BLEU score of 33.3 on the same dataset. When we used the LSTM to rerank the 1000 hypotheses produced by the aforementioned SMT system, its BLEU score increases to 36.5, which is close to the previous best result on this task. The LSTM also learned sensible phrase and sentence representations that are sensitive to word order and are relatively invariant to the active and the passive voice. Finally, we found that reversing the order of the words in all source sentences (but not target sentences) improved the LSTM's performance markedly, because doing so introduced many short term dependencies between the source and the target sentence which made the optimization problem easier.

  • 3 authors
·
Sep 10, 2014

Quantifying and Optimizing Global Faithfulness in Persona-driven Role-playing

Persona-driven role-playing (PRP) aims to build AI characters that can respond to user queries by faithfully sticking with all persona statements. Unfortunately, existing faithfulness criteria for PRP are limited to coarse-grained LLM-based scoring without a clear definition or formulation. This paper presents a pioneering exploration to quantify PRP faithfulness as a fine-grained and explainable criterion, which also serves as a reliable reference for optimization. Our criterion first discriminates persona statements into active and passive constraints by identifying the query-statement relevance. Then, we incorporate all constraints following the principle that the AI character's response should be (a) entailed by active (relevant) constraints and (b) not contradicted by passive (irrelevant) constraints. We translate this principle mathematically into a novel Active-Passive-Constraint (APC) score, a constraint-wise sum of natural language inference (NLI) scores weighted by relevance scores. In practice, we build the APC scoring system by symbolically distilling small discriminators from GPT-4 for efficiency. We validate the quality of the APC score against human evaluation based on example personas with tens of statements, and the results show a high correlation. We further leverage it as a reward system in direct preference optimization (DPO) for better AI characters. Our experiments offer a fine-grained and explainable comparison between existing PRP techniques, revealing their advantages and limitations. We further find APC-based DPO to be one of the most competitive techniques for sticking with all constraints and can be well incorporated with other techniques. We then extend the scale of the experiments to real persons with hundreds of statements and reach a consistent conclusion.

  • 2 authors
·
May 13, 2024

Training Curricula for Open Domain Answer Re-Ranking

In precision-oriented tasks like answer ranking, it is more important to rank many relevant answers highly than to retrieve all relevant answers. It follows that a good ranking strategy would be to learn how to identify the easiest correct answers first (i.e., assign a high ranking score to answers that have characteristics that usually indicate relevance, and a low ranking score to those with characteristics that do not), before incorporating more complex logic to handle difficult cases (e.g., semantic matching or reasoning). In this work, we apply this idea to the training of neural answer rankers using curriculum learning. We propose several heuristics to estimate the difficulty of a given training sample. We show that the proposed heuristics can be used to build a training curriculum that down-weights difficult samples early in the training process. As the training process progresses, our approach gradually shifts to weighting all samples equally, regardless of difficulty. We present a comprehensive evaluation of our proposed idea on three answer ranking datasets. Results show that our approach leads to superior performance of two leading neural ranking architectures, namely BERT and ConvKNRM, using both pointwise and pairwise losses. When applied to a BERT-based ranker, our method yields up to a 4% improvement in MRR and a 9% improvement in P@1 (compared to the model trained without a curriculum). This results in models that can achieve comparable performance to more expensive state-of-the-art techniques.

  • 6 authors
·
Apr 29, 2020

Deep Learning on a Data Diet: Finding Important Examples Early in Training

Recent success in deep learning has partially been driven by training increasingly overparametrized networks on ever larger datasets. It is therefore natural to ask: how much of the data is superfluous, which examples are important for generalization, and how do we find them? In this work, we make the striking observation that, in standard vision datasets, simple scores averaged over several weight initializations can be used to identify important examples very early in training. We propose two such scores -- the Gradient Normed (GraNd) and the Error L2-Norm (EL2N) scores -- and demonstrate their efficacy on a range of architectures and datasets by pruning significant fractions of training data without sacrificing test accuracy. In fact, using EL2N scores calculated a few epochs into training, we can prune half of the CIFAR10 training set while slightly improving test accuracy. Furthermore, for a given dataset, EL2N scores from one architecture or hyperparameter configuration generalize to other configurations. Compared to recent work that prunes data by discarding examples that are rarely forgotten over the course of training, our scores use only local information early in training. We also use our scores to detect noisy examples and study training dynamics through the lens of important examples -- we investigate how the data distribution shapes the loss surface and identify subspaces of the model's data representation that are relatively stable over training.

  • 3 authors
·
Jul 14, 2021

T2Ranking: A large-scale Chinese Benchmark for Passage Ranking

Passage ranking involves two stages: passage retrieval and passage re-ranking, which are important and challenging topics for both academics and industries in the area of Information Retrieval (IR). However, the commonly-used datasets for passage ranking usually focus on the English language. For non-English scenarios, such as Chinese, the existing datasets are limited in terms of data scale, fine-grained relevance annotation and false negative issues. To address this problem, we introduce T2Ranking, a large-scale Chinese benchmark for passage ranking. T2Ranking comprises more than 300K queries and over 2M unique passages from real-world search engines. Expert annotators are recruited to provide 4-level graded relevance scores (fine-grained) for query-passage pairs instead of binary relevance judgments (coarse-grained). To ease the false negative issues, more passages with higher diversities are considered when performing relevance annotations, especially in the test set, to ensure a more accurate evaluation. Apart from the textual query and passage data, other auxiliary resources are also provided, such as query types and XML files of documents which passages are generated from, to facilitate further studies. To evaluate the dataset, commonly used ranking models are implemented and tested on T2Ranking as baselines. The experimental results show that T2Ranking is challenging and there is still scope for improvement. The full data and all codes are available at https://github.com/THUIR/T2Ranking/

  • 11 authors
·
Apr 7, 2023

Training Language Models to Self-Correct via Reinforcement Learning

Self-correction is a highly desirable capability of large language models (LLMs), yet it has consistently been found to be largely ineffective in modern LLMs. Existing approaches for training self-correction either require multiple models or rely on a more capable model or other forms of supervision. To this end, we develop a multi-turn online reinforcement learning (RL) approach, SCoRe, that significantly improves an LLM's self-correction ability using entirely self-generated data. To build SCoRe, we first show that variants of supervised fine-tuning (SFT) on offline model-generated correction traces are insufficient for instilling self-correction behavior. In particular, we observe that training via SFT either suffers from a distribution mismatch between the training data and the model's own responses or implicitly prefers only a certain mode of correction behavior that is often not effective at test time. SCoRe addresses these challenges by training under the model's own distribution of self-generated correction traces and using appropriate regularization to steer the learning process into learning a self-correction strategy that is effective at test time as opposed to simply fitting high-reward responses for a given prompt. This regularization prescribes running a first phase of RL on a base model to generate a policy initialization that is less susceptible to collapse and then using a reward bonus to amplify self-correction during training. When applied to Gemini 1.0 Pro and 1.5 Flash models, we find that SCoRe achieves state-of-the-art self-correction performance, improving the base models' self-correction by 15.6% and 9.1% respectively on the MATH and HumanEval benchmarks.

  • 18 authors
·
Sep 19, 2024 9

Skill-Targeted Adaptive Training

Language models often show little to no improvement (i.e., "saturation") when trained via vanilla supervised fine-tuning (SFT) on data similar to what they saw in their training set (e.g., MATH). We introduce a new fine-tuning strategy, STAT, to train such a student model by using the metacognition ability of a stronger large language model (LLM) as the teacher. The teacher uses the task dataset to create a list of skills needed for the task, and then labels each data point with its required skills (Didolkar et al., 2024). By monitoring the student's answers, the teacher creates a Missing-Skill-Profile for the student, tracking how often they failed to apply each skill in their responses. We use this idea to build a modified training set in one of two ways. In STAT-Sel, the teacher uses an existing set of training examples but adaptively reweights them according to the Missing-Skill-Profile. In STAT-Syn, the teacher synthesizes additional examples involving missing skills. Across extensive experiments on Llama and Qwen models, our methods yield improvements of up to 7.5% on MATH, whereas SFT provides only limited gains. Furthermore, STAT enhances performance on out-of-distribution benchmarks (e.g., AIME24/25, AMC23, etc.) by an average of 4.6%. Crucially, we find that STAT is complementary to RL via GRPO (Shao et al., 2024): after the model is improved using STAT to address skill gaps, GRPO continues to add further gains. We conclude that skill-targeted adaptive training should broadly improve current training pipelines. Our code is available at: https://github.com/princeton-pli/STAT.

Automated SSIM Regression for Detection and Quantification of Motion Artefacts in Brain MR Images

Motion artefacts in magnetic resonance brain images can have a strong impact on diagnostic confidence. The assessment of MR image quality is fundamental before proceeding with the clinical diagnosis. Motion artefacts can alter the delineation of structures such as the brain, lesions or tumours and may require a repeat scan. Otherwise, an inaccurate (e.g. correct pathology but wrong severity) or incorrect diagnosis (e.g. wrong pathology) may occur. "Image quality assessment" as a fast, automated step right after scanning can assist in deciding if the acquired images are diagnostically sufficient. An automated image quality assessment based on the structural similarity index (SSIM) regression through a residual neural network is proposed in this work. Additionally, a classification into different groups - by subdividing with SSIM ranges - is evaluated. Importantly, this method predicts SSIM values of an input image in the absence of a reference ground truth image. The networks were able to detect motion artefacts, and the best performance for the regression and classification task has always been achieved with ResNet-18 with contrast augmentation. The mean and standard deviation of residuals' distribution were mu=-0.0009 and sigma=0.0139, respectively. Whilst for the classification task in 3, 5 and 10 classes, the best accuracies were 97, 95 and 89\%, respectively. The results show that the proposed method could be a tool for supporting neuro-radiologists and radiographers in evaluating image quality quickly.

  • 7 authors
·
Jun 14, 2022

SVIPTR: Fast and Efficient Scene Text Recognition with Vision Permutable Extractor

Scene Text Recognition (STR) is an important and challenging upstream task for building structured information databases, that involves recognizing text within images of natural scenes. Although current state-of-the-art (SOTA) models for STR exhibit high performance, they typically suffer from low inference efficiency due to their reliance on hybrid architectures comprised of visual encoders and sequence decoders. In this work, we propose a VIsion Permutable extractor for fast and efficient Scene Text Recognition (SVIPTR), which achieves an impressive balance between high performance and rapid inference speeds in the domain of STR. Specifically, SVIPTR leverages a visual-semantic extractor with a pyramid structure, characterized by the Permutation and combination of local and global self-attention layers. This design results in a lightweight and efficient model and its inference is insensitive to input length. Extensive experimental results on various standard datasets for both Chinese and English scene text recognition validate the superiority of SVIPTR. Notably, the SVIPTR-T (Tiny) variant delivers highly competitive accuracy on par with other lightweight models and achieves SOTA inference speeds. Meanwhile, the SVIPTR-L (Large) attains SOTA accuracy in single-encoder-type models, while maintaining a low parameter count and favorable inference speed. Our proposed method provides a compelling solution for the STR challenge, which greatly benefits real-world applications requiring fast and efficient STR. The code is publicly available at https://github.com/cxfyxl/VIPTR.

  • 11 authors
·
Jan 18, 2024

DeepScholar-Bench: A Live Benchmark and Automated Evaluation for Generative Research Synthesis

The ability to research and synthesize knowledge is central to human expertise and progress. An emerging class of systems promises these exciting capabilities through generative research synthesis, performing retrieval over the live web and synthesizing discovered sources into long-form, cited summaries. However, evaluating such systems remains an open challenge: existing question-answering benchmarks focus on short-form factual responses, while expert-curated datasets risk staleness and data contamination. Both fail to capture the complexity and evolving nature of real research synthesis tasks. In this work, we introduce DeepScholar-bench, a live benchmark and holistic, automated evaluation framework designed to evaluate generative research synthesis. DeepScholar-bench draws queries from recent, high-quality ArXiv papers and focuses on a real research synthesis task: generating the related work sections of a paper by retrieving, synthesizing, and citing prior research. Our evaluation framework holistically assesses performance across three key dimensions, knowledge synthesis, retrieval quality, and verifiability. We also develop DeepScholar-base, a reference pipeline implemented efficiently using the LOTUS API. Using the DeepScholar-bench framework, we perform a systematic evaluation of prior open-source systems, search AI's, OpenAI's DeepResearch, and DeepScholar-base. We find that DeepScholar-base establishes a strong baseline, attaining competitive or higher performance than each other method. We also find that DeepScholar-bench remains far from saturated, with no system exceeding a score of 19% across all metrics. These results underscore the difficulty of DeepScholar-bench, as well as its importance for progress towards AI systems capable of generative research synthesis. We make our code available at https://github.com/guestrin-lab/deepscholar-bench.

  • 7 authors
·
Aug 27 2

TotalSegmentator MRI: Robust Sequence-independent Segmentation of Multiple Anatomic Structures in MRI

Since the introduction of TotalSegmentator CT, there is demand for a similar robust automated MRI segmentation tool that can be applied across all MRI sequences and anatomic structures. In this retrospective study, a nnU-Net model (TotalSegmentator) was trained on MRI and CT examinations to segment 80 anatomic structures relevant for use cases such as organ volumetry, disease characterization, surgical planning and opportunistic screening. Examinations were randomly sampled from routine clinical studies to represent real-world examples. Dice scores were calculated between the predicted segmentations and expert radiologist reference standard segmentations to evaluate model performance on an internal test set, two external test sets and against two publicly available models, and TotalSegmentator CT. The model was applied to an internal dataset containing abdominal MRIs to investigate age-dependent volume changes. A total of 1143 examinations (616 MRIs, 527 CTs) (median age 61 years, IQR 50-72) were split into training (n=1088, CT and MRI) and an internal test set (n=55; only MRI), two external test sets (AMOS, n=20; CHAOS, n=20; only MRI), and an internal aging-study dataset of 8672 abdominal MRIs (median age 59 years, IQR 45-70) were included. The model showed a Dice Score of 0.839 on the internal test set and outperformed two other models (Dice Score, 0.862 versus 0.759; and 0.838 versus 0.560; p<.001 for both). The proposed open-source, easy-to-use model allows for automatic, robust segmentation of 80 structures, extending the capabilities of TotalSegmentator to MRIs of any sequence. The ready-to-use online tool is available at https://totalsegmentator.com, the model at https://github.com/wasserth/TotalSegmentator, and the dataset at https://zenodo.org/records/14710732.

  • 19 authors
·
May 29, 2024

Single Answer is Not Enough: On Generating Ranked Lists with Medical Reasoning Models

This paper presents a systematic study on enabling medical reasoning models (MRMs) to generate ranked lists of answers for open-ended questions. Clinical decision-making rarely relies on a single answer but instead considers multiple options, reducing the risks of narrow perspectives. Yet current MRMs are typically trained to produce only one answer, even in open-ended settings. We propose an alternative format: ranked lists and investigate two approaches: prompting and fine-tuning. While prompting is a cost-effective way to steer an MRM's response, not all MRMs generalize well across different answer formats: choice, short text, and list answers. Based on our prompting findings, we train and evaluate MRMs using supervised fine-tuning (SFT) and reinforcement fine-tuning (RFT). SFT teaches a model to imitate annotated responses, and RFT incentivizes exploration through the responses that maximize a reward. We propose new reward functions targeted at ranked-list answer formats, and conduct ablation studies for RFT. Our results show that while some SFT models generalize to certain answer formats, models trained with RFT are more robust across multiple formats. We also present a case study on a modified MedQA with multiple valid answers, finding that although MRMs might fail to select the benchmark's preferred ground truth, they can recognize valid answers. To the best of our knowledge, this is the first systematic investigation of approaches for enabling MRMs to generate answers as ranked lists. We hope this work provides a first step toward developing alternative answer formats that are beneficial beyond single answers in medical domains.

  • 6 authors
·
Sep 25

Listening to the Wise Few: Select-and-Copy Attention Heads for Multiple-Choice QA

A standard way to evaluate the abilities of LLM involves presenting a multiple-choice question and selecting the option with the highest logit as the model's predicted answer. However, such a format for evaluating LLMs has limitations, since even if the model knows the correct answer, it may struggle to select the corresponding letter simply due to difficulties in following this rigid format. To address this, we introduce new scores that better capture and reveal model's underlying knowledge: the Query-Key Score (QK-score), derived from the interaction between query and key representations in attention heads, and the Attention Score, based on attention weights. These scores are extracted from specific select-and-copy heads, which show consistent performance across popular Multi-Choice Question Answering (MCQA) datasets. Based on these scores, our method improves knowledge extraction, yielding up to 16\% gain for LLaMA2-7B and up to 10\% for larger models on popular MCQA benchmarks. At the same time, the accuracy on a simple synthetic dataset, where the model explicitly knows the right answer, increases by almost 60\%, achieving nearly perfect accuracy, therefore demonstrating the method's efficiency in mitigating MCQA format limitations. To support our claims, we conduct experiments on models ranging from 7 billion to 70 billion parameters in both zero- and few-shot setups.

  • 8 authors
·
Oct 3, 2024

Capabilities of GPT-4 on Medical Challenge Problems

Large language models (LLMs) have demonstrated remarkable capabilities in natural language understanding and generation across various domains, including medicine. We present a comprehensive evaluation of GPT-4, a state-of-the-art LLM, on medical competency examinations and benchmark datasets. GPT-4 is a general-purpose model that is not specialized for medical problems through training or engineered to solve clinical tasks. Our analysis covers two sets of official practice materials for the USMLE, a three-step examination program used to assess clinical competency and grant licensure in the United States. We also evaluate performance on the MultiMedQA suite of benchmark datasets. Beyond measuring model performance, experiments were conducted to investigate the influence of test questions containing both text and images on model performance, probe for memorization of content during training, and study probability calibration, which is of critical importance in high-stakes applications like medicine. Our results show that GPT-4, without any specialized prompt crafting, exceeds the passing score on USMLE by over 20 points and outperforms earlier general-purpose models (GPT-3.5) as well as models specifically fine-tuned on medical knowledge (Med-PaLM, a prompt-tuned version of Flan-PaLM 540B). In addition, GPT-4 is significantly better calibrated than GPT-3.5, demonstrating a much-improved ability to predict the likelihood that its answers are correct. We also explore the behavior of the model qualitatively through a case study that shows the ability of GPT-4 to explain medical reasoning, personalize explanations to students, and interactively craft new counterfactual scenarios around a medical case. Implications of the findings are discussed for potential uses of GPT-4 in medical education, assessment, and clinical practice, with appropriate attention to challenges of accuracy and safety.

  • 5 authors
·
Mar 20, 2023

Rethinking the Role of Token Retrieval in Multi-Vector Retrieval

Multi-vector retrieval models such as ColBERT [Khattab and Zaharia, 2020] allow token-level interactions between queries and documents, and hence achieve state of the art on many information retrieval benchmarks. However, their non-linear scoring function cannot be scaled to millions of documents, necessitating a three-stage process for inference: retrieving initial candidates via token retrieval, accessing all token vectors, and scoring the initial candidate documents. The non-linear scoring function is applied over all token vectors of each candidate document, making the inference process complicated and slow. In this paper, we aim to simplify the multi-vector retrieval by rethinking the role of token retrieval. We present XTR, ConteXtualized Token Retriever, which introduces a simple, yet novel, objective function that encourages the model to retrieve the most important document tokens first. The improvement to token retrieval allows XTR to rank candidates only using the retrieved tokens rather than all tokens in the document, and enables a newly designed scoring stage that is two-to-three orders of magnitude cheaper than that of ColBERT. On the popular BEIR benchmark, XTR advances the state-of-the-art by 2.8 nDCG@10 without any distillation. Detailed analysis confirms our decision to revisit the token retrieval stage, as XTR demonstrates much better recall of the token retrieval stage compared to ColBERT.

  • 7 authors
·
Apr 4, 2023

Question-Answering Model for Schizophrenia Symptoms and Their Impact on Daily Life using Mental Health Forums Data

In recent years, there is strong emphasis on mining medical data using machine learning techniques. A common problem is to obtain a noiseless set of textual documents, with a relevant content for the research question, and developing a Question Answering (QA) model for a specific medical field. The purpose of this paper is to present a new methodology for building a medical dataset and obtain a QA model for analysis of symptoms and impact on daily life for a specific disease domain. The ``Mental Health'' forum was used, a forum dedicated to people suffering from schizophrenia and different mental disorders. Relevant posts of active users, who regularly participate, were extrapolated providing a new method of obtaining low-bias content and without privacy issues. Furthermore, it is shown how to pre-process the dataset to convert it into a QA dataset. The Bidirectional Encoder Representations from Transformers (BERT), DistilBERT, RoBERTa, and BioBERT models were fine-tuned and evaluated via F1-Score, Exact Match, Precision and Recall. Accurate empirical experiments demonstrated the effectiveness of the proposed method for obtaining an accurate dataset for QA model implementation. By fine-tuning the BioBERT QA model, we achieved an F1 score of 0.885, showing a considerable improvement and outperforming the state-of-the-art model for mental disorders domain.

  • 2 authors
·
Sep 30, 2023

Out of Length Text Recognition with Sub-String Matching

Scene Text Recognition (STR) methods have demonstrated robust performance in word-level text recognition. However, in real applications the text image is sometimes long due to detected with multiple horizontal words. It triggers the requirement to build long text recognition models from readily available short (i.e., word-level) text datasets, which has been less studied previously. In this paper, we term this task Out of Length (OOL) text recognition. We establish the first Long Text Benchmark (LTB) to facilitate the assessment of different methods in long text recognition. Meanwhile, we propose a novel method called OOL Text Recognition with sub-String Matching (SMTR). SMTR comprises two cross-attention-based modules: one encodes a sub-string containing multiple characters into next and previous queries, and the other employs the queries to attend to the image features, matching the sub-string and simultaneously recognizing its next and previous character. SMTR can recognize text of arbitrary length by iterating the process above. To avoid being trapped in recognizing highly similar sub-strings, we introduce a regularization training to compel SMTR to effectively discover subtle differences between similar sub-strings for precise matching. In addition, we propose an inference augmentation strategy to alleviate confusion caused by identical sub-strings in the same text and improve the overall recognition efficiency. Extensive experimental results reveal that SMTR, even when trained exclusively on short text, outperforms existing methods in public short text benchmarks and exhibits a clear advantage on LTB. Code: https://github.com/Topdu/OpenOCR.

  • 5 authors
·
Jul 17, 2024

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

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

  • 12 authors
·
Nov 6, 2022

Development of an NLP-driven computer-based test guide for visually impaired students

In recent years, advancements in Natural Language Processing (NLP) techniques have revolutionized the field of accessibility and exclusivity of testing, particularly for visually impaired students (VIS). CBT has shown in years back its relevance in terms of administering exams electronically, making the test process easier, providing quicker and more accurate results, and offering greater flexibility and accessibility for candidates. Yet, its relevance was not felt by the visually impaired students as they cannot access printed documents. Hence, in this paper, we present an NLP-driven Computer-Based Test guide for visually impaired students. It employs a speech technology pre-trained methods to provide real-time assistance and support to visually impaired students. The system utilizes NLP technologies to convert the text-based questions and the associated options in a machine-readable format. Subsequently, the speech technology pre-trained model processes the converted text enabling the VIS to comprehend and analyze the content. Furthermore, we validated that this pre-trained model is not perverse by testing for accuracy using sample audio datasets labels (A, B, C, D, E, F, G) to compare with the voice recordings obtained from 20 VIS which is been predicted by the system to attain values for precision, recall, and F1-scores. These metrics are used to assess the performance of the pre-trained model and have indicated that it is proficient enough to give its better performance to the evaluated system. The methodology adopted for this system is Object Oriented Analysis and Design Methodology (OOADM) where Objects are discussed and built by modeling real-world instances.

  • 3 authors
·
Jan 22, 2024

Supervised Fine-Tuning or Contrastive Learning? Towards Better Multimodal LLM Reranking

In information retrieval, training reranking models mainly focuses on two types of objectives: metric learning (e.g. contrastive loss to increase the predicted scores on relevant query-document pairs) and classification (binary label prediction of relevance vs. irrelevance). For BERT-style encoders, various studies have shown that contrastive learning (CL) can be more effective than discriminative (classification) learning. However, for large language models (LLMs), classification via supervised fine-tuning (SFT), which predicts ''yes'' (resp. ''no'') token for relevant (resp. irrelevant) pairs, appears more promising as it aligns well with the generative nature of LLMs. This divergence raises a central question: which objective is intrinsically better suited to LLM-based reranking, and what mechanism underlies the difference? In this work, we conduct a comprehensive comparison and analysis between CL and SFT for reranking, taking the universal multimodal retrieval (UMR) as the experimental playground. We first decompose the objectives into two components: weight, which controls the magnitude of those updates, and direction, which guides the model updates, then present a unified framework for understanding their interactions. Through probing experiments, we find that SFT provides a substantially stronger weighting scheme than CL, whereas the preferred scoring direction shows no clear winner. Taken together, these results point to a consistent advantage of SFT over CL for LLM reranking. To further validate our findings, we conduct large-scale training with SFT and present new state-of-the-art rerankers on the MRB benchmark. We also provide ablations on SFT settings and expect our findings to benefit future research and applications in this area.

  • 9 authors
·
Oct 16

Influence Scores at Scale for Efficient Language Data Sampling

Modern ML systems ingest data aggregated from diverse sources, such as synthetic, human-annotated, and live customer traffic. Understanding which examples are important to the performance of a learning algorithm is crucial for efficient model training. Recently, a growing body of literature has given rise to various "influence scores," which use training artifacts such as model confidence or checkpointed gradients to identify important subsets of data. However, these methods have primarily been developed in computer vision settings, and it remains unclear how well they generalize to language-based tasks using pretrained models. In this paper, we explore the applicability of influence scores in language classification tasks. We evaluate a diverse subset of these scores on the SNLI dataset by quantifying accuracy changes in response to pruning training data through random and influence-score-based sampling. We then stress-test one of the scores -- "variance of gradients" (VoG) from Agarwal et al. (2022) -- in an NLU model stack that was exposed to dynamic user speech patterns in a voice assistant type of setting. Our experiments demonstrate that in many cases, encoder-based language models can be finetuned on roughly 50% of the original data without degradation in performance metrics. Along the way, we summarize lessons learned from applying out-of-the-box implementations of influence scores, quantify the effects of noisy and class-imbalanced data, and offer recommendations on score-based sampling for better accuracy and training efficiency.

  • 3 authors
·
Nov 27, 2023

UniME-V2: MLLM-as-a-Judge for Universal Multimodal Embedding Learning

Universal multimodal embedding models are foundational to various tasks. Existing approaches typically employ in-batch negative mining by measuring the similarity of query-candidate pairs. However, these methods often struggle to capture subtle semantic differences among candidates and lack diversity in negative samples. Moreover, the embeddings exhibit limited discriminative ability in distinguishing false and hard negatives. In this paper, we leverage the advanced understanding capabilities of MLLMs to enhance representation learning and present a novel Universal Multimodal Embedding (UniME-V2) model. Our approach first constructs a potential hard negative set through global retrieval. We then introduce the MLLM-as-a-Judge mechanism, which utilizes MLLMs to assess the semantic alignment of query-candidate pairs and generate soft semantic matching scores. These scores serve as a foundation for hard negative mining, mitigating the impact of false negatives and enabling the identification of diverse, high-quality hard negatives. Furthermore, the semantic matching scores are used as soft labels to mitigate the rigid one-to-one mapping constraint. By aligning the similarity matrix with the soft semantic matching score matrix, the model learns semantic distinctions among candidates, significantly enhancing its discriminative capacity. To further improve performance, we propose UniME-V2-Reranker, a reranking model trained on our mined hard negatives through a joint pairwise and listwise optimization approach. We conduct comprehensive experiments on the MMEB benchmark and multiple retrieval tasks, demonstrating that our method achieves state-of-the-art performance on average across all tasks.

  • 9 authors
·
Oct 15 2

Automatic Personalized Impression Generation for PET Reports Using Large Language Models

In this study, we aimed to determine if fine-tuned large language models (LLMs) can generate accurate, personalized impressions for whole-body PET reports. Twelve language models were trained on a corpus of PET reports using the teacher-forcing algorithm, with the report findings as input and the clinical impressions as reference. An extra input token encodes the reading physician's identity, allowing models to learn physician-specific reporting styles. Our corpus comprised 37,370 retrospective PET reports collected from our institution between 2010 and 2022. To identify the best LLM, 30 evaluation metrics were benchmarked against quality scores from two nuclear medicine (NM) physicians, with the most aligned metrics selecting the model for expert evaluation. In a subset of data, model-generated impressions and original clinical impressions were assessed by three NM physicians according to 6 quality dimensions (3-point scale) and an overall utility score (5-point scale). Each physician reviewed 12 of their own reports and 12 reports from other physicians. Bootstrap resampling was used for statistical analysis. Of all evaluation metrics, domain-adapted BARTScore and PEGASUSScore showed the highest Spearman's rank correlations (0.568 and 0.563) with physician preferences. Based on these metrics, the fine-tuned PEGASUS model was selected as the top LLM. When physicians reviewed PEGASUS-generated impressions in their own style, 89% were considered clinically acceptable, with a mean utility score of 4.08 out of 5. Physicians rated these personalized impressions as comparable in overall utility to the impressions dictated by other physicians (4.03, P=0.41). In conclusion, personalized impressions generated by PEGASUS were clinically useful, highlighting its potential to expedite PET reporting.

  • 11 authors
·
Sep 18, 2023

WeakSTIL: Weak whole-slide image level stromal tumor infiltrating lymphocyte scores are all you need

We present WeakSTIL, an interpretable two-stage weak label deep learning pipeline for scoring the percentage of stromal tumor infiltrating lymphocytes (sTIL%) in H&E-stained whole-slide images (WSIs) of breast cancer tissue. The sTIL% score is a prognostic and predictive biomarker for many solid tumor types. However, due to the high labeling efforts and high intra- and interobserver variability within and between expert annotators, this biomarker is currently not used in routine clinical decision making. WeakSTIL compresses tiles of a WSI using a feature extractor pre-trained with self-supervised learning on unlabeled histopathology data and learns to predict precise sTIL% scores for each tile in the tumor bed by using a multiple instance learning regressor that only requires a weak WSI-level label. By requiring only a weak label, we overcome the large annotation efforts required to train currently existing TIL detection methods. We show that WeakSTIL is at least as good as other TIL detection methods when predicting the WSI-level sTIL% score, reaching a coefficient of determination of 0.45pm0.15 when compared to scores generated by an expert pathologist, and an AUC of 0.89pm0.05 when treating it as the clinically interesting sTIL-high vs sTIL-low classification task. Additionally, we show that the intermediate tile-level predictions of WeakSTIL are highly interpretable, which suggests that WeakSTIL pays attention to latent features related to the number of TILs and the tissue type. In the future, WeakSTIL may be used to provide consistent and interpretable sTIL% predictions to stratify breast cancer patients into targeted therapy arms.

  • 6 authors
·
Sep 13, 2021

What are the best systems? New perspectives on NLP Benchmarking

In Machine Learning, a benchmark refers to an ensemble of datasets associated with one or multiple metrics together with a way to aggregate different systems performances. They are instrumental in (i) assessing the progress of new methods along different axes and (ii) selecting the best systems for practical use. This is particularly the case for NLP with the development of large pre-trained models (e.g. GPT, BERT) that are expected to generalize well on a variety of tasks. While the community mainly focused on developing new datasets and metrics, there has been little interest in the aggregation procedure, which is often reduced to a simple average over various performance measures. However, this procedure can be problematic when the metrics are on a different scale, which may lead to spurious conclusions. This paper proposes a new procedure to rank systems based on their performance across different tasks. Motivated by the social choice theory, the final system ordering is obtained through aggregating the rankings induced by each task and is theoretically grounded. We conduct extensive numerical experiments (on over 270k scores) to assess the soundness of our approach both on synthetic and real scores (e.g. GLUE, EXTREM, SEVAL, TAC, FLICKR). In particular, we show that our method yields different conclusions on state-of-the-art systems than the mean-aggregation procedure while being both more reliable and robust.

  • 4 authors
·
Feb 8, 2022

OpenRubrics: Towards Scalable Synthetic Rubric Generation for Reward Modeling and LLM Alignment

Reward modeling lies at the core of reinforcement learning from human feedback (RLHF), yet most existing reward models rely on scalar or pairwise judgments that fail to capture the multifaceted nature of human preferences. Recent studies have explored rubrics-as-rewards (RaR) that uses structured natural language criteria that capture multiple dimensions of response quality. However, producing rubrics that are both reliable and scalable remains a key challenge. In this work, we introduce OpenRubrics, a diverse, large-scale collection of (prompt, rubric) pairs for training rubric-generation and rubric-based reward models. To elicit discriminative and comprehensive evaluation signals, we introduce Contrastive Rubric Generation (CRG), which derives both hard rules (explicit constraints) and principles (implicit qualities) by contrasting preferred and rejected responses. We further improve reliability by enforcing preference-label consistency via rejection sampling to remove noisy rubrics. Across multiple reward-modeling benchmarks, our rubric-based reward model, Rubric-RM, surpasses strong size-matched baselines by 6.8%. These gains transfer to policy models on instruction-following and biomedical benchmarks. Our results show that rubrics provide scalable alignment signals that narrow the gap between costly human evaluation and automated reward modeling, enabling a new principle-driven paradigm for LLM alignment.

OpenRubrics
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Oct 8 2

WildBench: Benchmarking LLMs with Challenging Tasks from Real Users in the Wild

We introduce WildBench, an automated evaluation framework designed to benchmark large language models (LLMs) using challenging, real-world user queries. WildBench consists of 1,024 tasks carefully selected from over one million human-chatbot conversation logs. For automated evaluation with WildBench, we have developed two metrics, WB-Reward and WB-Score, which are computable using advanced LLMs such as GPT-4-turbo. WildBench evaluation uses task-specific checklists to evaluate model outputs systematically and provides structured explanations that justify the scores and comparisons, resulting in more reliable and interpretable automatic judgments. WB-Reward employs fine-grained pairwise comparisons between model responses, generating five potential outcomes: much better, slightly better, slightly worse, much worse, or a tie. Unlike previous evaluations that employed a single baseline model, we selected three baseline models at varying performance levels to ensure a comprehensive pairwise evaluation. Additionally, we propose a simple method to mitigate length bias, by converting outcomes of ``slightly better/worse'' to ``tie'' if the winner response exceeds the loser one by more than K characters. WB-Score evaluates the quality of model outputs individually, making it a fast and cost-efficient evaluation metric. WildBench results demonstrate a strong correlation with the human-voted Elo ratings from Chatbot Arena on hard tasks. Specifically, WB-Reward achieves a Pearson correlation of 0.98 with top-ranking models. Additionally, WB-Score reaches 0.95, surpassing both ArenaHard's 0.91 and AlpacaEval2.0's 0.89 for length-controlled win rates, as well as the 0.87 for regular win rates.

  • 9 authors
·
Jun 7, 2024 1

GREAT Score: Global Robustness Evaluation of Adversarial Perturbation using Generative Models

Current studies on adversarial robustness mainly focus on aggregating local robustness results from a set of data samples to evaluate and rank different models. However, the local statistics may not well represent the true global robustness of the underlying unknown data distribution. To address this challenge, this paper makes the first attempt to present a new framework, called GREAT Score , for global robustness evaluation of adversarial perturbation using generative models. Formally, GREAT Score carries the physical meaning of a global statistic capturing a mean certified attack-proof perturbation level over all samples drawn from a generative model. For finite-sample evaluation, we also derive a probabilistic guarantee on the sample complexity and the difference between the sample mean and the true mean. GREAT Score has several advantages: (1) Robustness evaluations using GREAT Score are efficient and scalable to large models, by sparing the need of running adversarial attacks. In particular, we show high correlation and significantly reduced computation cost of GREAT Score when compared to the attack-based model ranking on RobustBench (Croce,et. al. 2021). (2) The use of generative models facilitates the approximation of the unknown data distribution. In our ablation study with different generative adversarial networks (GANs), we observe consistency between global robustness evaluation and the quality of GANs. (3) GREAT Score can be used for remote auditing of privacy-sensitive black-box models, as demonstrated by our robustness evaluation on several online facial recognition services.

  • 3 authors
·
Apr 19, 2023

RAG-RewardBench: Benchmarking Reward Models in Retrieval Augmented Generation for Preference Alignment

Despite the significant progress made by existing retrieval augmented language models (RALMs) in providing trustworthy responses and grounding in reliable sources, they often overlook effective alignment with human preferences. In the alignment process, reward models (RMs) act as a crucial proxy for human values to guide optimization. However, it remains unclear how to evaluate and select a reliable RM for preference alignment in RALMs. To this end, we propose RAG-RewardBench, the first benchmark for evaluating RMs in RAG settings. First, we design four crucial and challenging RAG-specific scenarios to assess RMs, including multi-hop reasoning, fine-grained citation, appropriate abstain, and conflict robustness. Then, we incorporate 18 RAG subsets, six retrievers, and 24 RALMs to increase the diversity of data sources. Finally, we adopt an LLM-as-a-judge approach to improve preference annotation efficiency and effectiveness, exhibiting a strong correlation with human annotations. Based on the RAG-RewardBench, we conduct a comprehensive evaluation of 45 RMs and uncover their limitations in RAG scenarios. Additionally, we also reveal that existing trained RALMs show almost no improvement in preference alignment, highlighting the need for a shift towards preference-aligned training.We release our benchmark and code publicly at https://huggingface.co/datasets/jinzhuoran/RAG-RewardBench/ for future work.

  • 7 authors
·
Dec 18, 2024 2

GPT Self-Supervision for a Better Data Annotator

The task of annotating data into concise summaries poses a significant challenge across various domains, frequently requiring the allocation of significant time and specialized knowledge by human experts. Despite existing efforts to use large language models for annotation tasks, significant problems such as limited applicability to unlabeled data, the absence of self-supervised methods, and the lack of focus on complex structured data still persist. In this work, we propose a GPT self-supervision annotation method, which embodies a generating-recovering paradigm that leverages the one-shot learning capabilities of the Generative Pretrained Transformer (GPT). The proposed approach comprises a one-shot tuning phase followed by a generation phase. In the one-shot tuning phase, we sample a data from the support set as part of the prompt for GPT to generate a textual summary, which is then used to recover the original data. The alignment score between the recovered and original data serves as a self-supervision navigator to refine the process. In the generation stage, the optimally selected one-shot sample serves as a template in the prompt and is applied to generating summaries from challenging datasets. The annotation performance is evaluated by tuning several human feedback reward networks and by calculating alignment scores between original and recovered data at both sentence and structure levels. Our self-supervised annotation method consistently achieves competitive scores, convincingly demonstrating its robust strength in various data-to-summary annotation tasks.

  • 3 authors
·
Jun 7, 2023

Learning from the Best, Differently: A Diversity-Driven Rethinking on Data Selection

High-quality pre-training data is crutial for large language models, where quality captures factual reliability and semantic value, and diversity ensures broad coverage and distributional heterogeneity. Existing approaches typically rely on single or multiple-dimensional score-based selection. However, directly selecting top-scored data often degrades performance, and sampling from a broader range is required to recover results. The above non-monotonicity between dataset scores and downstream benchmark results reveals a fundamental bias: score-based methods collapse correlated dimensions, causing top-scored data to appear high-quality while systematically overlooking diversity. We argue that ensuring diversity requires decomposing correlated metrics into orthogonal feature dimensions, from which the top-scored data can be directly selected. Therefore, we proposed the Orthogonal Diversity-Aware Selection (ODiS) algorithm, which preserves both quality and diversity during data selection. First, ODiS evaluates data from multiple dimensions, covering language quality, knowledge quality, and comprehension difficulty. The multi-dimensional scores are then decorrelated via Principal Component Analysis (PCA), yielding orthogonal evaluation dimensions. For each dimension, a Roberta-based scorer is trained to regress the data onto PCA-projected scores, enabling scalable inference on large corpora. Finally, ODiS constructs the training dataset by selecting top-scored data within each orthogonal dimension, thereby ensuring both quality and diversity. Empirical results show that ODiS-selected data exhibit less than 2\% inter-dimension overlap, confirming orthogonality between dimensions. More importantly, models trained with ODiS-selected data significantly outperform other baselines on downstream benchmarks, highlighting the necessity of orthogonal, diversity-aware data selection for LLMs.

  • 9 authors
·
Oct 20 3

COIG-P: A High-Quality and Large-Scale Chinese Preference Dataset for Alignment with Human Values

Aligning large language models (LLMs) with human preferences has achieved remarkable success. However, existing Chinese preference datasets are limited by small scale, narrow domain coverage, and lack of rigorous data validation. Additionally, the reliance on human annotators for instruction and response labeling significantly constrains the scalability of human preference datasets. To address these challenges, we design an LLM-based Chinese preference dataset annotation pipeline with no human intervention. Specifically, we crawled and carefully filtered 92k high-quality Chinese queries and employed 15 mainstream LLMs to generate and score chosen-rejected response pairs. Based on it, we introduce COIG-P (Chinese Open Instruction Generalist - Preference), a high-quality, large-scale Chinese preference dataset, comprises 1,009k Chinese preference pairs spanning 6 diverse domains: Chat, Code, Math, Logic, Novel, and Role. Building upon COIG-P, to reduce the overhead of using LLMs for scoring, we trained a 8B-sized Chinese Reward Model (CRM) and meticulously constructed a Chinese Reward Benchmark (CRBench). Evaluation results based on AlignBench liu2024alignbenchbenchmarkingchinesealignment show that that COIG-P significantly outperforms other Chinese preference datasets, and it brings significant performance improvements ranging from 2% to 12% for the Qwen2/2.5 and Infinity-Instruct-3M-0625 model series, respectively. The results on CRBench demonstrate that our CRM has a strong and robust scoring ability. We apply it to filter chosen-rejected response pairs in a test split of COIG-P, and our experiments show that it is comparable to GPT-4o in identifying low-quality samples while maintaining efficiency and cost-effectiveness. Our codes and data are released in https://github.com/multimodal-art-projection/COIG-P.

Beyond the Surface: Measuring Self-Preference in LLM Judgments

Recent studies show that large language models (LLMs) exhibit self-preference bias when serving as judges, meaning they tend to favor their own responses over those generated by other models. Existing methods typically measure this bias by calculating the difference between the scores a judge model assigns to its own responses and those it assigns to responses from other models. However, this approach conflates self-preference bias with response quality, as higher-quality responses from the judge model may also lead to positive score differences, even in the absence of bias. To address this issue, we introduce gold judgments as proxies for the actual quality of responses and propose the DBG score, which measures self-preference bias as the difference between the scores assigned by the judge model to its own responses and the corresponding gold judgments. Since gold judgments reflect true response quality, the DBG score mitigates the confounding effect of response quality on bias measurement. Using the DBG score, we conduct comprehensive experiments to assess self-preference bias across LLMs of varying versions, sizes, and reasoning abilities. Additionally, we investigate two factors that influence and help alleviate self-preference bias: response text style and the post-training data of judge models. Finally, we explore potential underlying mechanisms of self-preference bias from an attention-based perspective. Our code and data are available at https://github.com/zhiyuanc2001/self-preference.

  • 5 authors
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Jun 3 2

MusicRL: Aligning Music Generation to Human Preferences

We propose MusicRL, the first music generation system finetuned from human feedback. Appreciation of text-to-music models is particularly subjective since the concept of musicality as well as the specific intention behind a caption are user-dependent (e.g. a caption such as "upbeat work-out music" can map to a retro guitar solo or a techno pop beat). Not only this makes supervised training of such models challenging, but it also calls for integrating continuous human feedback in their post-deployment finetuning. MusicRL is a pretrained autoregressive MusicLM (Agostinelli et al., 2023) model of discrete audio tokens finetuned with reinforcement learning to maximise sequence-level rewards. We design reward functions related specifically to text-adherence and audio quality with the help from selected raters, and use those to finetune MusicLM into MusicRL-R. We deploy MusicLM to users and collect a substantial dataset comprising 300,000 pairwise preferences. Using Reinforcement Learning from Human Feedback (RLHF), we train MusicRL-U, the first text-to-music model that incorporates human feedback at scale. Human evaluations show that both MusicRL-R and MusicRL-U are preferred to the baseline. Ultimately, MusicRL-RU combines the two approaches and results in the best model according to human raters. Ablation studies shed light on the musical attributes influencing human preferences, indicating that text adherence and quality only account for a part of it. This underscores the prevalence of subjectivity in musical appreciation and calls for further involvement of human listeners in the finetuning of music generation models.

  • 14 authors
·
Feb 6, 2024 1

KazQAD: Kazakh Open-Domain Question Answering Dataset

We introduce KazQAD -- a Kazakh open-domain question answering (ODQA) dataset -- that can be used in both reading comprehension and full ODQA settings, as well as for information retrieval experiments. KazQAD contains just under 6,000 unique questions with extracted short answers and nearly 12,000 passage-level relevance judgements. We use a combination of machine translation, Wikipedia search, and in-house manual annotation to ensure annotation efficiency and data quality. The questions come from two sources: translated items from the Natural Questions (NQ) dataset (only for training) and the original Kazakh Unified National Testing (UNT) exam (for development and testing). The accompanying text corpus contains more than 800,000 passages from the Kazakh Wikipedia. As a supplementary dataset, we release around 61,000 question-passage-answer triples from the NQ dataset that have been machine-translated into Kazakh. We develop baseline retrievers and readers that achieve reasonable scores in retrieval (NDCG@10 = 0.389 MRR = 0.382), reading comprehension (EM = 38.5 F1 = 54.2), and full ODQA (EM = 17.8 F1 = 28.7) settings. Nevertheless, these results are substantially lower than state-of-the-art results for English QA collections, and we think that there should still be ample room for improvement. We also show that the current OpenAI's ChatGPTv3.5 is not able to answer KazQAD test questions in the closed-book setting with acceptable quality. The dataset is freely available under the Creative Commons licence (CC BY-SA) at https://github.com/IS2AI/KazQAD.

  • 5 authors
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Apr 5, 2024

Extending TrOCR for Text Localization-Free OCR of Full-Page Scanned Receipt Images

Digitization of scanned receipts aims to extract text from receipt images and save it into structured documents. This is usually split into two sub-tasks: text localization and optical character recognition (OCR). Most existing OCR models only focus on the cropped text instance images, which require the bounding box information provided by a text region detection model. Introducing an additional detector to identify the text instance images in advance adds complexity, however instance-level OCR models have very low accuracy when processing the whole image for the document-level OCR, such as receipt images containing multiple text lines arranged in various layouts. To this end, we propose a localization-free document-level OCR model for transcribing all the characters in a receipt image into an ordered sequence end-to-end. Specifically, we finetune the pretrained instance-level model TrOCR with randomly cropped image chunks, and gradually increase the image chunk size to generalize the recognition ability from instance images to full-page images. In our experiments on the SROIE receipt OCR dataset, the model finetuned with our strategy achieved 64.4 F1-score and a 22.8% character error rate (CER), respectively, which outperforms the baseline results with 48.5 F1-score and 50.6% CER. The best model, which splits the full image into 15 equally sized chunks, gives 87.8 F1-score and 4.98% CER with minimal additional pre or post-processing of the output. Moreover, the characters in the generated document-level sequences are arranged in the reading order, which is practical for real-world applications.

  • 3 authors
·
Dec 11, 2022

A Machine Learning Approach for MIDI to Guitar Tablature Conversion

Guitar tablature transcription consists in deducing the string and the fret number on which each note should be played to reproduce the actual musical part. This assignment should lead to playable string-fret combinations throughout the entire track and, in general, preserve parsimonious motion between successive combinations. Throughout the history of guitar playing, specific chord fingerings have been developed across different musical styles that facilitate common idiomatic voicing combinations and motion between them. This paper presents a method for assigning guitar tablature notation to a given MIDI-based musical part (possibly consisting of multiple polyphonic tracks), i.e. no information about guitar-idiomatic expressional characteristics is involved (e.g. bending etc.) The current strategy is based on machine learning and requires a basic assumption about how much fingers can stretch on a fretboard; only standard 6-string guitar tuning is examined. The proposed method also examines the transcription of music pieces that was not meant to be played or could not possibly be played by a guitar (e.g. potentially a symphonic orchestra part), employing a rudimentary method for augmenting musical information and training/testing the system with artificial data. The results present interesting aspects about what the system can achieve when trained on the initial and augmented dataset, showing that the training with augmented data improves the performance even in simple, e.g. monophonic, cases. Results also indicate weaknesses and lead to useful conclusions about possible improvements.

  • 6 authors
·
Oct 12

Deep Learning Applied to Image and Text Matching

The ability to describe images with natural language sentences is the hallmark for image and language understanding. Such a system has wide ranging applications such as annotating images and using natural sentences to search for images.In this project we focus on the task of bidirectional image retrieval: such asystem is capable of retrieving an image based on a sentence (image search) andretrieve sentence based on an image query (image annotation). We present asystem based on a global ranking objective function which uses a combinationof convolutional neural networks (CNN) and multi layer perceptrons (MLP).It takes a pair of image and sentence and processes them in different channels,finally embedding it into a common multimodal vector space. These embeddingsencode abstract semantic information about the two inputs and can be comparedusing traditional information retrieval approaches. For each such pair, the modelreturns a score which is interpretted as a similarity metric. If this score is high,the image and sentence are likely to convey similar meaning, and if the score is low then they are likely not to. The visual input is modeled via deep convolutional neural network. On theother hand we explore three models for the textual module. The first one isbag of words with an MLP. The second one uses n-grams (bigram, trigrams,and a combination of trigram & skip-grams) with an MLP. The third is morespecialized deep network specific for modeling variable length sequences (SSE).We report comparable performance to recent work in the field, even though ouroverall model is simpler. We also show that the training time choice of how wecan generate our negative samples has a significant impact on performance, and can be used to specialize the bi-directional system in one particular task.

  • 1 authors
·
Sep 14, 2015

Re-TACRED: Addressing Shortcomings of the TACRED Dataset

TACRED is one of the largest and most widely used sentence-level relation extraction datasets. Proposed models that are evaluated using this dataset consistently set new state-of-the-art performance. However, they still exhibit large error rates despite leveraging external knowledge and unsupervised pretraining on large text corpora. A recent study suggested that this may be due to poor dataset quality. The study observed that over 50% of the most challenging sentences from the development and test sets are incorrectly labeled and account for an average drop of 8% f1-score in model performance. However, this study was limited to a small biased sample of 5k (out of a total of 106k) sentences, substantially restricting the generalizability and broader implications of its findings. In this paper, we address these shortcomings by: (i) performing a comprehensive study over the whole TACRED dataset, (ii) proposing an improved crowdsourcing strategy and deploying it to re-annotate the whole dataset, and (iii) performing a thorough analysis to understand how correcting the TACRED annotations affects previously published results. After verification, we observed that 23.9% of TACRED labels are incorrect. Moreover, evaluating several models on our revised dataset yields an average f1-score improvement of 14.3% and helps uncover significant relationships between the different models (rather than simply offsetting or scaling their scores by a constant factor). Finally, aside from our analysis we also release Re-TACRED, a new completely re-annotated version of the TACRED dataset that can be used to perform reliable evaluation of relation extraction models.

  • 3 authors
·
Apr 16, 2021

Neural Rankers for Effective Screening Prioritisation in Medical Systematic Review Literature Search

Medical systematic reviews typically require assessing all the documents retrieved by a search. The reason is two-fold: the task aims for ``total recall''; and documents retrieved using Boolean search are an unordered set, and thus it is unclear how an assessor could examine only a subset. Screening prioritisation is the process of ranking the (unordered) set of retrieved documents, allowing assessors to begin the downstream processes of the systematic review creation earlier, leading to earlier completion of the review, or even avoiding screening documents ranked least relevant. Screening prioritisation requires highly effective ranking methods. Pre-trained language models are state-of-the-art on many IR tasks but have yet to be applied to systematic review screening prioritisation. In this paper, we apply several pre-trained language models to the systematic review document ranking task, both directly and fine-tuned. An empirical analysis compares how effective neural methods compare to traditional methods for this task. We also investigate different types of document representations for neural methods and their impact on ranking performance. Our results show that BERT-based rankers outperform the current state-of-the-art screening prioritisation methods. However, BERT rankers and existing methods can actually be complementary, and thus, further improvements may be achieved if used in conjunction.

  • 4 authors
·
Dec 18, 2022

CONFLARE: CONFormal LArge language model REtrieval

Retrieval-augmented generation (RAG) frameworks enable large language models (LLMs) to retrieve relevant information from a knowledge base and incorporate it into the context for generating responses. This mitigates hallucinations and allows for the updating of knowledge without retraining the LLM. However, RAG does not guarantee valid responses if retrieval fails to identify the necessary information as the context for response generation. Also, if there is contradictory content, the RAG response will likely reflect only one of the two possible responses. Therefore, quantifying uncertainty in the retrieval process is crucial for ensuring RAG trustworthiness. In this report, we introduce a four-step framework for applying conformal prediction to quantify retrieval uncertainty in RAG frameworks. First, a calibration set of questions answerable from the knowledge base is constructed. Each question's embedding is compared against document embeddings to identify the most relevant document chunks containing the answer and record their similarity scores. Given a user-specified error rate ({\alpha}), these similarity scores are then analyzed to determine a similarity score cutoff threshold. During inference, all chunks with similarity exceeding this threshold are retrieved to provide context to the LLM, ensuring the true answer is captured in the context with a (1-{\alpha}) confidence level. We provide a Python package that enables users to implement the entire workflow proposed in our work, only using LLMs and without human intervention.

  • 5 authors
·
Apr 3, 2024

Building Efficient and Effective OpenQA Systems for Low-Resource Languages

Question answering (QA) is the task of answering questions posed in natural language with free-form natural language answers extracted from a given passage. In the OpenQA variant, only a question text is given, and the system must retrieve relevant passages from an unstructured knowledge source and use them to provide answers, which is the case in the mainstream QA systems on the Web. QA systems currently are mostly limited to the English language due to the lack of large-scale labeled QA datasets in non-English languages. In this paper, we show that effective, low-cost OpenQA systems can be developed for low-resource contexts. The key ingredients are (1) weak supervision using machine-translated labeled datasets and (2) a relevant unstructured knowledge source in the target language context. Furthermore, we show that only a few hundred gold assessment examples are needed to reliably evaluate these systems. We apply our method to Turkish as a challenging case study, since English and Turkish are typologically very distinct and Turkish has limited resources for QA. We present SQuAD-TR, a machine translation of SQuAD2.0, and we build our OpenQA system by adapting ColBERT-QA and retraining it over Turkish resources and SQuAD-TR using two versions of Wikipedia dumps spanning two years. We obtain a performance improvement of 24-32% in the Exact Match (EM) score and 22-29% in the F1 score compared to the BM25-based and DPR-based baseline QA reader models. Our results show that SQuAD-TR makes OpenQA feasible for Turkish, which we hope encourages researchers to build OpenQA systems in other low-resource languages. We make all the code, models, and the dataset publicly available at https://github.com/boun-tabi/SQuAD-TR.

  • 6 authors
·
Jan 7, 2024

Re-ranking the Context for Multimodal Retrieval Augmented Generation

Retrieval-augmented generation (RAG) enhances large language models (LLMs) by incorporating external knowledge to generate a response within a context with improved accuracy and reduced hallucinations. However, multi-modal RAG systems face unique challenges: (i) the retrieval process may select irrelevant entries to user query (e.g., images, documents), and (ii) vision-language models or multi-modal language models like GPT-4o may hallucinate when processing these entries to generate RAG output. In this paper, we aim to address the first challenge, i.e, improving the selection of relevant context from the knowledge-base in retrieval phase of the multi-modal RAG. Specifically, we leverage the relevancy score (RS) measure designed in our previous work for evaluating the RAG performance to select more relevant entries in retrieval process. The retrieval based on embeddings, say CLIP-based embedding, and cosine similarity usually perform poorly particularly for multi-modal data. We show that by using a more advanced relevancy measure, one can enhance the retrieval process by selecting more relevant pieces from the knowledge-base and eliminate the irrelevant pieces from the context by adaptively selecting up-to-k entries instead of fixed number of entries. Our evaluation using COCO dataset demonstrates significant enhancement in selecting relevant context and accuracy of the generated response.

  • 4 authors
·
Jan 8

SemRe-Rank: Improving Automatic Term Extraction By Incorporating Semantic Relatedness With Personalised PageRank

Automatic Term Extraction deals with the extraction of terminology from a domain specific corpus, and has long been an established research area in data and knowledge acquisition. ATE remains a challenging task as it is known that there is no existing ATE methods that can consistently outperform others in any domain. This work adopts a refreshed perspective to this problem: instead of searching for such a 'one-size-fit-all' solution that may never exist, we propose to develop generic methods to 'enhance' existing ATE methods. We introduce SemRe-Rank, the first method based on this principle, to incorporate semantic relatedness - an often overlooked venue - into an existing ATE method to further improve its performance. SemRe-Rank incorporates word embeddings into a personalised PageRank process to compute 'semantic importance' scores for candidate terms from a graph of semantically related words (nodes), which are then used to revise the scores of candidate terms computed by a base ATE algorithm. Extensively evaluated with 13 state-of-the-art base ATE methods on four datasets of diverse nature, it is shown to have achieved widespread improvement over all base methods and across all datasets, with up to 15 percentage points when measured by the Precision in the top ranked K candidate terms (the average for a set of K's), or up to 28 percentage points in F1 measured at a K that equals to the expected real terms in the candidates (F1 in short). Compared to an alternative approach built on the well-known TextRank algorithm, SemRe-Rank can potentially outperform by up to 8 points in Precision at top K, or up to 17 points in F1.

  • 3 authors
·
Nov 9, 2017

Out-of-Distribution Detection & Applications With Ablated Learned Temperature Energy

As deep neural networks become adopted in high-stakes domains, it is crucial to be able to identify when inference inputs are Out-of-Distribution (OOD) so that users can be alerted of likely drops in performance and calibration despite high confidence. Among many others, existing methods use the following two scores to do so without training on any apriori OOD examples: a learned temperature and an energy score. In this paper we introduce Ablated Learned Temperature Energy (or "AbeT" for short), a method which combines these prior methods in novel ways with effective modifications. Due to these contributions, AbeT lowers the False Positive Rate at 95% True Positive Rate (FPR@95) by 35.39% in classification (averaged across all ID and OOD datasets measured) compared to state of the art without training networks in multiple stages or requiring hyperparameters or test-time backward passes. We additionally provide empirical insights as to how our model learns to distinguish between In-Distribution (ID) and OOD samples while only being explicitly trained on ID samples via exposure to misclassified ID examples at training time. Lastly, we show the efficacy of our method in identifying predicted bounding boxes and pixels corresponding to OOD objects in object detection and semantic segmentation, respectively - with an AUROC increase of 5.15% in object detection and both a decrease in FPR@95 of 41.48% and an increase in AUPRC of 34.20% on average in semantic segmentation compared to previous state of the art.

  • 6 authors
·
Jan 22, 2024

TabSim: A Siamese Neural Network for Accurate Estimation of Table Similarity

Tables are a popular and efficient means of presenting structured information. They are used extensively in various kinds of documents including web pages. Tables display information as a two-dimensional matrix, the semantics of which is conveyed by a mixture of structure (rows, columns), headers, caption, and content. Recent research has started to consider tables as first class objects, not just as an addendum to texts, yielding interesting results for problems like table matching, table completion, or value imputation. All of these problems inherently rely on an accurate measure for the semantic similarity of two tables. We present TabSim, a novel method to compute table similarity scores using deep neural networks. Conceptually, TabSim represents a table as a learned concatenation of embeddings of its caption, its content, and its structure. Given two tables in this representation, a Siamese neural network is trained to compute a score correlating with the tables' semantic similarity. To train and evaluate our method, we created a gold standard corpus consisting of 1500 table pairs extracted from biomedical articles and manually scored regarding their degree of similarity, and adopted two other corpora originally developed for a different yet similar task. Our evaluation shows that TabSim outperforms other table similarity measures on average by app. 7% pp F1-score in a binary similarity classification setting and by app. 1.5% pp in a ranking scenario.

  • 3 authors
·
Aug 25, 2020

High-resolution Piano Transcription with Pedals by Regressing Onset and Offset Times

Automatic music transcription (AMT) is the task of transcribing audio recordings into symbolic representations. Recently, neural network-based methods have been applied to AMT, and have achieved state-of-the-art results. However, many previous systems only detect the onset and offset of notes frame-wise, so the transcription resolution is limited to the frame hop size. There is a lack of research on using different strategies to encode onset and offset targets for training. In addition, previous AMT systems are sensitive to the misaligned onset and offset labels of audio recordings. Furthermore, there are limited researches on sustain pedal transcription on large-scale datasets. In this article, we propose a high-resolution AMT system trained by regressing precise onset and offset times of piano notes. At inference, we propose an algorithm to analytically calculate the precise onset and offset times of piano notes and pedal events. We show that our AMT system is robust to the misaligned onset and offset labels compared to previous systems. Our proposed system achieves an onset F1 of 96.72% on the MAESTRO dataset, outperforming previous onsets and frames system of 94.80%. Our system achieves a pedal onset F1 score of 91.86\%, which is the first benchmark result on the MAESTRO dataset. We have released the source code and checkpoints of our work at https://github.com/bytedance/piano_transcription.

  • 5 authors
·
Oct 5, 2020

Preference Fine-Tuning for Factuality in Chest X-Ray Interpretation Models Without Human Feedback

Radiologists play a crucial role by translating medical images into medical reports. However, the field faces staffing shortages and increasing workloads. While automated approaches using vision-language models (VLMs) show promise as assistants, they require exceptionally high accuracy. Most current VLMs in radiology rely solely on supervised fine-tuning (SFT). Meanwhile, in the general domain, additional preference fine-tuning has become standard practice. The challenge in radiology lies in the prohibitive cost of obtaining radiologist feedback. We propose a scalable automated preference alignment technique for VLMs in radiology, focusing on chest X-ray (CXR) report generation. Our method leverages publicly available datasets with an LLM-as-a-Judge mechanism, eliminating the need for additional expert radiologist feedback. We evaluate and benchmark five direct alignment algorithms (DAAs). Our results show up to a 57.4% improvement in average GREEN scores, a LLM-based metric for evaluating CXR reports, and a 9.2% increase in an average across six metrics (domain specific and general), compared to the SFT baseline. We study reward overoptimization via length exploitation, with reports lengthening by up to 3.2x. To assess a potential alignment tax, we benchmark on six additional diverse tasks, finding no significant degradations. A reader study involving four board-certified radiologists indicates win rates of up to 0.62 over the SFT baseline, while significantly penalizing verbosity. Our analysis provides actionable insights for the development of VLMs in high-stakes fields like radiology.

  • 11 authors
·
Oct 9, 2024

TIGERScore: Towards Building Explainable Metric for All Text Generation Tasks

We present TIGERScore, a Trained metric that follows Instruction Guidance to perform Explainable, and Reference-free evaluation over a wide spectrum of text generation tasks. Different from other automatic evaluation methods that only provide arcane scores, TIGERScore is guided by the natural language instruction to provide error analysis to pinpoint the mistakes in the generated text. Our metric is based on LLaMA, trained on our meticulously curated instruction-tuning dataset MetricInstruct which covers 6 text generation tasks and 23 text generation datasets. The dataset consists of 48K quadruple in the form of (instruction, input, system output rightarrow error analysis). We collected the `system outputs' through diverse channels to cover different types of errors. To quantitatively assess our metric, we evaluate its correlation with human ratings on 5 held-in datasets, 2 held-out datasets and show that TIGERScore can achieve the highest overall Spearman's correlation with human ratings across these datasets and outperforms other metrics significantly. As a reference-free metric, its correlation can even surpass the best existing reference-based metrics. To further qualitatively assess the rationale generated by our metric, we conduct human evaluation on the generated explanations and found that the explanations are 70.8\% accurate. Through these experimental results, we believe TIGERScore demonstrates the possibility of building universal explainable metrics to evaluate any text generation task.

  • 6 authors
·
Oct 1, 2023

The Alzheimer's Disease Prediction Of Longitudinal Evolution (TADPOLE) Challenge: Results after 1 Year Follow-up

We present the findings of "The Alzheimer's Disease Prediction Of Longitudinal Evolution" (TADPOLE) Challenge, which compared the performance of 92 algorithms from 33 international teams at predicting the future trajectory of 219 individuals at risk of Alzheimer's disease. Challenge participants were required to make a prediction, for each month of a 5-year future time period, of three key outcomes: clinical diagnosis, Alzheimer's Disease Assessment Scale Cognitive Subdomain (ADAS-Cog13), and total volume of the ventricles. The methods used by challenge participants included multivariate linear regression, machine learning methods such as support vector machines and deep neural networks, as well as disease progression models. No single submission was best at predicting all three outcomes. For clinical diagnosis and ventricle volume prediction, the best algorithms strongly outperform simple baselines in predictive ability. However, for ADAS-Cog13 no single submitted prediction method was significantly better than random guesswork. Two ensemble methods based on taking the mean and median over all predictions, obtained top scores on almost all tasks. Better than average performance at diagnosis prediction was generally associated with the additional inclusion of features from cerebrospinal fluid (CSF) samples and diffusion tensor imaging (DTI). On the other hand, better performance at ventricle volume prediction was associated with inclusion of summary statistics, such as the slope or maxima/minima of biomarkers. TADPOLE's unique results suggest that current prediction algorithms provide sufficient accuracy to exploit biomarkers related to clinical diagnosis and ventricle volume, for cohort refinement in clinical trials for Alzheimer's disease. However, results call into question the usage of cognitive test scores for patient selection and as a primary endpoint in clinical trials.

  • 96 authors
·
Feb 9, 2020

The Surprisingly Straightforward Scene Text Removal Method With Gated Attention and Region of Interest Generation: A Comprehensive Prominent Model Analysis

Scene text removal (STR), a task of erasing text from natural scene images, has recently attracted attention as an important component of editing text or concealing private information such as ID, telephone, and license plate numbers. While there are a variety of different methods for STR actively being researched, it is difficult to evaluate superiority because previously proposed methods do not use the same standardized training/evaluation dataset. We use the same standardized training/testing dataset to evaluate the performance of several previous methods after standardized re-implementation. We also introduce a simple yet extremely effective Gated Attention (GA) and Region-of-Interest Generation (RoIG) methodology in this paper. GA uses attention to focus on the text stroke as well as the textures and colors of the surrounding regions to remove text from the input image much more precisely. RoIG is applied to focus on only the region with text instead of the entire image to train the model more efficiently. Experimental results on the benchmark dataset show that our method significantly outperforms existing state-of-the-art methods in almost all metrics with remarkably higher-quality results. Furthermore, because our model does not generate a text stroke mask explicitly, there is no need for additional refinement steps or sub-models, making our model extremely fast with fewer parameters. The dataset and code are available at this https://github.com/naver/garnet.

  • 2 authors
·
Oct 13, 2022

Noise in Relation Classification Dataset TACRED: Characterization and Reduction

The overarching objective of this paper is two-fold. First, to explore model-based approaches to characterize the primary cause of the noise. in the RE dataset TACRED Second, to identify the potentially noisy instances. Towards the first objective, we analyze predictions and performance of state-of-the-art (SOTA) models to identify the root cause of noise in the dataset. Our analysis of TACRED shows that the majority of the noise in the dataset originates from the instances labeled as no-relation which are negative examples. For the second objective, we explore two nearest-neighbor-based strategies to automatically identify potentially noisy examples for elimination and reannotation. Our first strategy, referred to as Intrinsic Strategy (IS), is based on the assumption that positive examples are clean. Thus, we have used false-negative predictions to identify noisy negative examples. Whereas, our second approach, referred to as Extrinsic Strategy, is based on using a clean subset of the dataset to identify potentially noisy negative examples. Finally, we retrained the SOTA models on the eliminated and reannotated dataset. Our empirical results based on two SOTA models trained on TACRED-E following the IS show an average 4% F1-score improvement, whereas reannotation (TACRED-R) does not improve the original results. However, following ES, SOTA models show the average F1-score improvement of 3.8% and 4.4% when trained on respective eliminated (TACRED-EN) and reannotated (TACRED-RN) datasets respectively. We further extended the ES for cleaning positive examples as well, which resulted in an average performance improvement of 5.8% and 5.6% for the eliminated (TACRED-ENP) and reannotated (TACRED-RNP) datasets respectively.

  • 3 authors
·
Nov 20, 2023

Killing two birds with one stone: Can an audio captioning system also be used for audio-text retrieval?

Automated Audio Captioning (AAC) aims to develop systems capable of describing an audio recording using a textual sentence. In contrast, Audio-Text Retrieval (ATR) systems seek to find the best matching audio recording(s) for a given textual query (Text-to-Audio) or vice versa (Audio-to-Text). These tasks require different types of systems: AAC employs a sequence-to-sequence model, while ATR utilizes a ranking model that compares audio and text representations within a shared projection subspace. However, this work investigates the relationship between AAC and ATR by exploring the ATR capabilities of an unmodified AAC system, without fine-tuning for the new task. Our AAC system consists of an audio encoder (ConvNeXt-Tiny) trained on AudioSet for audio tagging, and a transformer decoder responsible for generating sentences. For AAC, it achieves a high SPIDEr-FL score of 0.298 on Clotho and 0.472 on AudioCaps on average. For ATR, we propose using the standard Cross-Entropy loss values obtained for any audio/caption pair. Experimental results on the Clotho and AudioCaps datasets demonstrate decent recall values using this simple approach. For instance, we obtained a Text-to-Audio R@1 value of 0.382 for Au-dioCaps, which is above the current state-of-the-art method without external data. Interestingly, we observe that normalizing the loss values was necessary for Audio-to-Text retrieval.

  • 3 authors
·
Aug 29, 2023

Closing the gap between open-source and commercial large language models for medical evidence summarization

Large language models (LLMs) hold great promise in summarizing medical evidence. Most recent studies focus on the application of proprietary LLMs. Using proprietary LLMs introduces multiple risk factors, including a lack of transparency and vendor dependency. While open-source LLMs allow better transparency and customization, their performance falls short compared to proprietary ones. In this study, we investigated to what extent fine-tuning open-source LLMs can further improve their performance in summarizing medical evidence. Utilizing a benchmark dataset, MedReview, consisting of 8,161 pairs of systematic reviews and summaries, we fine-tuned three broadly-used, open-sourced LLMs, namely PRIMERA, LongT5, and Llama-2. Overall, the fine-tuned LLMs obtained an increase of 9.89 in ROUGE-L (95% confidence interval: 8.94-10.81), 13.21 in METEOR score (95% confidence interval: 12.05-14.37), and 15.82 in CHRF score (95% confidence interval: 13.89-16.44). The performance of fine-tuned LongT5 is close to GPT-3.5 with zero-shot settings. Furthermore, smaller fine-tuned models sometimes even demonstrated superior performance compared to larger zero-shot models. The above trends of improvement were also manifested in both human and GPT4-simulated evaluations. Our results can be applied to guide model selection for tasks demanding particular domain knowledge, such as medical evidence summarization.

  • 14 authors
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Jul 25, 2024

GenAI-Bench: Evaluating and Improving Compositional Text-to-Visual Generation

While text-to-visual models now produce photo-realistic images and videos, they struggle with compositional text prompts involving attributes, relationships, and higher-order reasoning such as logic and comparison. In this work, we conduct an extensive human study on GenAI-Bench to evaluate the performance of leading image and video generation models in various aspects of compositional text-to-visual generation. We also compare automated evaluation metrics against our collected human ratings and find that VQAScore -- a metric measuring the likelihood that a VQA model views an image as accurately depicting the prompt -- significantly outperforms previous metrics such as CLIPScore. In addition, VQAScore can improve generation in a black-box manner (without finetuning) via simply ranking a few (3 to 9) candidate images. Ranking by VQAScore is 2x to 3x more effective than other scoring methods like PickScore, HPSv2, and ImageReward at improving human alignment ratings for DALL-E 3 and Stable Diffusion, especially on compositional prompts that require advanced visio-linguistic reasoning. We will release a new GenAI-Rank benchmark with over 40,000 human ratings to evaluate scoring metrics on ranking images generated from the same prompt. Lastly, we discuss promising areas for improvement in VQAScore, such as addressing fine-grained visual details. We will release all human ratings (over 80,000) to facilitate scientific benchmarking of both generative models and automated metrics.

  • 11 authors
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Jun 19, 2024

RM-R1: Reward Modeling as Reasoning

Reward modeling is essential for aligning large language models (LLMs) with human preferences, especially through reinforcement learning from human feedback (RLHF). To provide accurate reward signals, a reward model (RM) should stimulate deep thinking and conduct interpretable reasoning before assigning a score or a judgment. However, existing RMs either produce opaque scalar scores or directly generate the prediction of a preferred answer, making them struggle to integrate natural language critiques, thus lacking interpretability. Inspired by recent advances of long chain-of-thought (CoT) on reasoning-intensive tasks, we hypothesize and validate that integrating reasoning capabilities into reward modeling significantly enhances RM's interpretability and performance. In this work, we introduce a new class of generative reward models -- Reasoning Reward Models (ReasRMs) -- which formulate reward modeling as a reasoning task. We propose a reasoning-oriented training pipeline and train a family of ReasRMs, RM-R1. The training consists of two key stages: (1) distillation of high-quality reasoning chains and (2) reinforcement learning with verifiable rewards. RM-R1 improves LLM rollouts by self-generating reasoning traces or chat-specific rubrics and evaluating candidate responses against them. Empirically, our models achieve state-of-the-art or near state-of-the-art performance of generative RMs across multiple comprehensive reward model benchmarks, outperforming much larger open-weight models (e.g., Llama3.1-405B) and proprietary ones (e.g., GPT-4o) by up to 13.8%. Beyond final performance, we perform thorough empirical analysis to understand the key ingredients of successful ReasRM training. To facilitate future research, we release six ReasRM models along with code and data at https://github.com/RM-R1-UIUC/RM-R1.

Beyond Binary Rewards: Training LMs to Reason About Their Uncertainty

When language models (LMs) are trained via reinforcement learning (RL) to generate natural language "reasoning chains", their performance improves on a variety of difficult question answering tasks. Today, almost all successful applications of RL for reasoning use binary reward functions that evaluate the correctness of LM outputs. Because such reward functions do not penalize guessing or low-confidence outputs, they often have the unintended side-effect of degrading calibration and increasing the rate at which LMs generate incorrect responses (or "hallucinate") in other problem domains. This paper describes RLCR (Reinforcement Learning with Calibration Rewards), an approach to training reasoning models that jointly improves accuracy and calibrated confidence estimation. During RLCR, LMs generate both predictions and numerical confidence estimates after reasoning. They are trained to optimize a reward function that augments a binary correctness score with a Brier score -- a scoring rule for confidence estimates that incentivizes calibrated prediction. We first prove that this reward function (or any analogous reward function that uses a bounded, proper scoring rule) yields models whose predictions are both accurate and well-calibrated. We next show that across diverse datasets, RLCR substantially improves calibration with no loss in accuracy, on both in-domain and out-of-domain evaluations -- outperforming both ordinary RL training and classifiers trained to assign post-hoc confidence scores. While ordinary RL hurts calibration, RLCR improves it. Finally, we demonstrate that verbalized confidence can be leveraged at test time to improve accuracy and calibration via confidence-weighted scaling methods. Our results show that explicitly optimizing for calibration can produce more generally reliable reasoning models.

  • 7 authors
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Jul 22 1

MRSegmentator: Robust Multi-Modality Segmentation of 40 Classes in MRI and CT Sequences

Purpose: To introduce a deep learning model capable of multi-organ segmentation in MRI scans, offering a solution to the current limitations in MRI analysis due to challenges in resolution, standardized intensity values, and variability in sequences. Materials and Methods: he model was trained on 1,200 manually annotated MRI scans from the UK Biobank, 221 in-house MRI scans and 1228 CT scans, leveraging cross-modality transfer learning from CT segmentation models. A human-in-the-loop annotation workflow was employed to efficiently create high-quality segmentations. The model's performance was evaluated on NAKO and the AMOS22 dataset containing 600 and 60 MRI examinations. Dice Similarity Coefficient (DSC) and Hausdorff Distance (HD) was used to assess segmentation accuracy. The model will be open sourced. Results: The model showcased high accuracy in segmenting well-defined organs, achieving Dice Similarity Coefficient (DSC) scores of 0.97 for the right and left lungs, and 0.95 for the heart. It also demonstrated robustness in organs like the liver (DSC: 0.96) and kidneys (DSC: 0.95 left, 0.95 right), which present more variability. However, segmentation of smaller and complex structures such as the portal and splenic veins (DSC: 0.54) and adrenal glands (DSC: 0.65 left, 0.61 right) revealed the need for further model optimization. Conclusion: The proposed model is a robust, tool for accurate segmentation of 40 anatomical structures in MRI and CT images. By leveraging cross-modality learning and interactive annotation, the model achieves strong performance and generalizability across diverse datasets, making it a valuable resource for researchers and clinicians. It is open source and can be downloaded from https://github.com/hhaentze/MRSegmentator.

  • 11 authors
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May 10, 2024

Evaluating language models as risk scores

Current question-answering benchmarks predominantly focus on accuracy in realizable prediction tasks. Conditioned on a question and answer-key, does the most likely token match the ground truth? Such benchmarks necessarily fail to evaluate LLMs' ability to quantify ground-truth outcome uncertainty. In this work, we focus on the use of LLMs as risk scores for unrealizable prediction tasks. We introduce folktexts, a software package to systematically generate risk scores using LLMs, and evaluate them against US Census data products. A flexible API enables the use of different prompting schemes, local or web-hosted models, and diverse census columns that can be used to compose custom prediction tasks. We evaluate 17 recent LLMs across five proposed benchmark tasks. We find that zero-shot risk scores produced by multiple-choice question-answering have high predictive signal but are widely miscalibrated. Base models consistently overestimate outcome uncertainty, while instruction-tuned models underestimate uncertainty and produce over-confident risk scores. In fact, instruction-tuning polarizes answer distribution regardless of true underlying data uncertainty. This reveals a general inability of instruction-tuned LLMs to express data uncertainty using multiple-choice answers. A separate experiment using verbalized chat-style risk queries yields substantially improved calibration across instruction-tuned models. These differences in ability to quantify data uncertainty cannot be revealed in realizable settings, and highlight a blind-spot in the current evaluation ecosystem that folktexts covers.

  • 3 authors
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Jul 19, 2024

MuChin: A Chinese Colloquial Description Benchmark for Evaluating Language Models in the Field of Music

The rapidly evolving multimodal Large Language Models (LLMs) urgently require new benchmarks to uniformly evaluate their performance on understanding and textually describing music. However, due to semantic gaps between Music Information Retrieval (MIR) algorithms and human understanding, discrepancies between professionals and the public, and low precision of annotations, existing music description datasets cannot serve as benchmarks. To this end, we present MuChin, the first open-source music description benchmark in Chinese colloquial language, designed to evaluate the performance of multimodal LLMs in understanding and describing music. We established the Caichong Music Annotation Platform (CaiMAP) that employs an innovative multi-person, multi-stage assurance method, and recruited both amateurs and professionals to ensure the precision of annotations and alignment with popular semantics. Utilizing this method, we built a dataset with multi-dimensional, high-precision music annotations, the Caichong Music Dataset (CaiMD), and carefully selected 1,000 high-quality entries to serve as the test set for MuChin. Based on MuChin, we analyzed the discrepancies between professionals and amateurs in terms of music description, and empirically demonstrated the effectiveness of annotated data for fine-tuning LLMs. Ultimately, we employed MuChin to evaluate existing music understanding models on their ability to provide colloquial descriptions of music. All data related to the benchmark, along with the scoring code and detailed appendices, have been open-sourced (https://github.com/CarlWangChina/MuChin/).

  • 9 authors
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Feb 15, 2024

Image2Struct: Benchmarking Structure Extraction for Vision-Language Models

We introduce Image2Struct, a benchmark to evaluate vision-language models (VLMs) on extracting structure from images. Our benchmark 1) captures real-world use cases, 2) is fully automatic and does not require human judgment, and 3) is based on a renewable stream of fresh data. In Image2Struct, VLMs are prompted to generate the underlying structure (e.g., LaTeX code or HTML) from an input image (e.g., webpage screenshot). The structure is then rendered to produce an output image (e.g., rendered webpage), which is compared against the input image to produce a similarity score. This round-trip evaluation allows us to quantitatively evaluate VLMs on tasks with multiple valid structures. We create a pipeline that downloads fresh data from active online communities upon execution and evaluates the VLMs without human intervention. We introduce three domains (Webpages, LaTeX, and Musical Scores) and use five image metrics (pixel similarity, cosine similarity between the Inception vectors, learned perceptual image patch similarity, structural similarity index measure, and earth mover similarity) that allow efficient and automatic comparison between pairs of images. We evaluate Image2Struct on 14 prominent VLMs and find that scores vary widely, indicating that Image2Struct can differentiate between the performances of different VLMs. Additionally, the best score varies considerably across domains (e.g., 0.402 on sheet music vs. 0.830 on LaTeX equations), indicating that Image2Struct contains tasks of varying difficulty. For transparency, we release the full results at https://crfm.stanford.edu/helm/image2struct/v1.0.1/.

  • 6 authors
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Oct 29, 2024

A Global Context Mechanism for Sequence Labeling

Global sentence information is crucial for sequence labeling tasks, where each word in a sentence must be assigned a label. While BiLSTM models are widely used, they often fail to capture sufficient global context for inner words. Previous work has proposed various RNN variants to integrate global sentence information into word representations. However, these approaches suffer from three key limitations: (1) they are slower in both inference and training compared to the original BiLSTM, (2) they cannot effectively supplement global information for transformer-based models, and (3) the high time cost associated with reimplementing and integrating these customized RNNs into existing architectures. In this study, we introduce a simple yet effective mechanism that addresses these limitations. Our approach efficiently supplements global sentence information for both BiLSTM and transformer-based models, with minimal degradation in inference and training speed, and is easily pluggable into current architectures. We demonstrate significant improvements in F1 scores across seven popular benchmarks, including Named Entity Recognition (NER) tasks such as Conll2003, Wnut2017 , and the Chinese named-entity recognition task Weibo, as well as End-to-End Aspect-Based Sentiment Analysis (E2E-ABSA) benchmarks such as Laptop14, Restaurant14, Restaurant15, and Restaurant16. With out any extra strategy, we achieve third highest score on weibo NER benchmark. Compared to CRF, one of the most popular frameworks for sequence labeling, our mechanism achieves competitive F1 scores while offering superior inference and training speed. Code is available at: https://github.com/conglei2XU/Global-Context-Mechanism

  • 4 authors
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May 31, 2023

KG-Rank: Enhancing Large Language Models for Medical QA with Knowledge Graphs and Ranking Techniques

Large language models (LLMs) have demonstrated impressive generative capabilities with the potential to innovate in medicine. However, the application of LLMs in real clinical settings remains challenging due to the lack of factual consistency in the generated content. In this work, we develop an augmented LLM framework, KG-Rank, which leverages a medical knowledge graph (KG) along with ranking and re-ranking techniques, to improve the factuality of long-form question answering (QA) in the medical domain. Specifically, when receiving a question, KG-Rank automatically identifies medical entities within the question and retrieves the related triples from the medical KG to gather factual information. Subsequently, KG-Rank innovatively applies multiple ranking techniques to refine the ordering of these triples, providing more relevant and precise information for LLM inference. To the best of our knowledge, KG-Rank is the first application of KG combined with ranking models in medical QA specifically for generating long answers. Evaluation on four selected medical QA datasets demonstrates that KG-Rank achieves an improvement of over 18% in ROUGE-L score. Additionally, we extend KG-Rank to open domains, including law, business, music, and history, where it realizes a 14% improvement in ROUGE-L score, indicating the effectiveness and great potential of KG-Rank.

  • 11 authors
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Mar 9, 2024

Mythological Medical Machine Learning: Boosting the Performance of a Deep Learning Medical Data Classifier Using Realistic Physiological Models

Objective: To determine if a realistic, but computationally efficient model of the electrocardiogram can be used to pre-train a deep neural network (DNN) with a wide range of morphologies and abnormalities specific to a given condition - T-wave Alternans (TWA) as a result of Post-Traumatic Stress Disorder, or PTSD - and significantly boost performance on a small database of rare individuals. Approach: Using a previously validated artificial ECG model, we generated 180,000 artificial ECGs with or without significant TWA, with varying heart rate, breathing rate, TWA amplitude, and ECG morphology. A DNN, trained on over 70,000 patients to classify 25 different rhythms, was modified the output layer to a binary class (TWA or no-TWA, or equivalently, PTSD or no-PTSD), and transfer learning was performed on the artificial ECG. In a final transfer learning step, the DNN was trained and cross-validated on ECG from 12 PTSD and 24 controls for all combinations of using the three databases. Main results: The best performing approach (AUROC = 0.77, Accuracy = 0.72, F1-score = 0.64) was found by performing both transfer learning steps, using the pre-trained arrhythmia DNN, the artificial data and the real PTSD-related ECG data. Removing the artificial data from training led to the largest drop in performance. Removing the arrhythmia data from training provided a modest, but significant, drop in performance. The final model showed no significant drop in performance on the artificial data, indicating no overfitting. Significance: In healthcare, it is common to only have a small collection of high-quality data and labels, or a larger database with much lower quality (and less relevant) labels. The paradigm presented here, involving model-based performance boosting, provides a solution through transfer learning on a large realistic artificial database, and a partially relevant real database.

  • 6 authors
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Dec 28, 2021