Transfomer-based models have significantly advanced natural language processing, in particular the performance in text classification tasks. Nevertheless, these models face challenges in processing large files, primarily due to their input constraints, which are generally restricted to hundreds or thousands of tokens. Attempts to address this issue in existing models usually consist in extracting only a fraction of the essential information from lengthy inputs, while often incurring high computational costs due to their complex architectures. In this work, we address the challenge of classifying large files from the perspective of correlated multiple instance learning. We introduce LaFiCMIL, a method specifically designed for large file classification. LaFiCMIL is optimized for efficient operation on a single GPU, making it a versatile solution for binary, multi-class, and multi-label classification tasks. We conducted extensive experiments using seven diverse and comprehensive benchmark datasets to assess LaFiCMIL's effectiveness. By integrating BERT for feature extraction, LaFiCMIL demonstrates exceptional performance, setting new benchmarks across all datasets. A notable achievement of our approach is its ability to scale BERT to handle nearly 20,000 tokens while operating on a single GPU with 32GB of memory. This efficiency, coupled with its state-of-the-art performance, highlights LaFiCMIL's potential as a groundbreaking approach in the field of large file classification.
Deep learning often faces the challenge of efficiently processing dynamic inputs, such as sensor data or user inputs. For example, an AI writing assistant is required to update its suggestions in real time as a document is edited. Re-running the model each time is expensive, even with compression techniques like knowledge distillation, pruning, or quantization. Instead, we take an incremental computing approach, looking to reuse calculations as the inputs change. However, the dense connectivity of conventional architectures poses a major obstacle to incremental computation, as even minor input changes cascade through the network and restrict information reuse. To address this, we use vector quantization to discretize intermediate values in the network, which filters out noisy and unnecessary modifications to hidden neurons, facilitating the reuse of their values. We apply this approach to the transformers architecture, creating an efficient incremental inference algorithm with complexity proportional to the fraction of the modified inputs. Our experiments with adapting the OPT-125M pre-trained language model demonstrate comparable accuracy on document classification while requiring 12.1X (median) fewer operations for processing sequences of atomic edits.
Pre-trained transformer language models (LMs) have in recent years become the dominant paradigm in applied NLP. These models have achieved state-of-the-art performance on tasks such as information extraction, question answering, sentiment analysis, document classification and many others. In the biomedical domain, significant progress has been made in adapting this paradigm to NLP tasks that require the integration of domain-specific knowledge as well as statistical modelling of language. In particular, research in this area has focused on the question of how best to construct LMs that take into account not only the patterns of token distribution in medical text, but also the wealth of structured information contained in terminology resources such as the UMLS. This work contributes a data-centric paradigm for enriching the language representations of biomedical transformer-encoder LMs by extracting text sequences from the UMLS. This allows for graph-based learning objectives to be combined with masked-language pre-training. Preliminary results from experiments in the extension of pre-trained LMs as well as training from scratch show that this framework improves downstream performance on multiple biomedical and clinical Named Entity Recognition (NER) tasks.
Text classification is an area of research which has been studied over the years in Natural Language Processing (NLP). Adapting NLP to multiple domains has introduced many new challenges for text classification and one of them is long document classification. While state-of-the-art transformer models provide excellent results in text classification, most of them have limitations in the maximum sequence length of the input sequence. The majority of the transformer models are limited to 512 tokens, and therefore, they struggle with long document classification problems. In this research, we explore on employing Model Fusing for long document classification while comparing the results with well-known BERT and Longformer architectures.
Despite being the current de-facto models in most NLP tasks, transformers are often limited to short sequences due to their quadratic attention complexity on the number of tokens. Several attempts to address this issue were studied, either by reducing the cost of the self-attention computation or by modeling smaller sequences and combining them through a recurrence mechanism or using a new transformer model. In this paper, we suggest to take advantage of pre-trained sentence transformers to start from semantically meaningful embeddings of the individual sentences, and then combine them through a small attention layer that scales linearly with the document length. We report the results obtained by this simple architecture on three standard document classification datasets. When compared with the current state-of-the-art models using standard fine-tuning, the studied method obtains competitive results (even if there is no clear best model in this configuration). We also showcase that the studied architecture obtains better results when freezing the underlying transformers. A configuration that is useful when we need to avoid complete fine-tuning (e.g. when the same frozen transformer is shared by different applications). Finally, two additional experiments are provided to further evaluate the relevancy of the studied architecture over simpler baselines.
We introduce a dataset for evidence/rationale extraction on an extreme multi-label classification task over long medical documents. One such task is Computer-Assisted Coding (CAC) which has improved significantly in recent years, thanks to advances in machine learning technologies. Yet simply predicting a set of final codes for a patient encounter is insufficient as CAC systems are required to provide supporting textual evidence to justify the billing codes. A model able to produce accurate and reliable supporting evidence for each code would be a tremendous benefit. However, a human annotated code evidence corpus is extremely difficult to create because it requires specialized knowledge. In this paper, we introduce MDACE, the first publicly available code evidence dataset, which is built on a subset of the MIMIC-III clinical records. The dataset -- annotated by professional medical coders -- consists of 302 Inpatient charts with 3,934 evidence spans and 52 Profee charts with 5,563 evidence spans. We implemented several evidence extraction methods based on the EffectiveCAN model (Liu et al., 2021) to establish baseline performance on this dataset. MDACE can be used to evaluate code evidence extraction methods for CAC systems, as well as the accuracy and interpretability of deep learning models for multi-label classification. We believe that the release of MDACE will greatly improve the understanding and application of deep learning technologies for medical coding and document classification.
The massive collection of user posts across social media platforms is primarily untapped for artificial intelligence (AI) use cases based on the sheer volume and velocity of textual data. Natural language processing (NLP) is a subfield of AI that leverages bodies of documents, known as corpora, to train computers in human-like language understanding. Using a word ranking method, term frequency-inverse document frequency (TF-IDF), to create features across documents, it is possible to perform unsupervised analytics, machine learning (ML) that can group the documents without a human manually labeling the data. For large datasets with thousands of features, t-distributed stochastic neighbor embedding (t-SNE), k-means clustering and Latent Dirichlet allocation (LDA) are employed to learn top words and generate topics for a Reddit and Twitter combined corpus. Using extremely simple deep learning models, this study demonstrates that the applied results of unsupervised analysis allow a computer to predict either negative, positive, or neutral user sentiment towards plastic surgery based on a tweet or subreddit post with almost 90% accuracy. Furthermore, the model is capable of achieving higher accuracy on the unsupervised sentiment task than on a rudimentary supervised document classification task. Therefore, unsupervised learning may be considered a viable option in labeling social media documents for NLP tasks.
The RVL-CDIP benchmark is widely used for measuring performance on the task of document classification. Despite its widespread use, we reveal several undesirable characteristics of the RVL-CDIP benchmark. These include (1) substantial amounts of label noise, which we estimate to be 8.1% (ranging between 1.6% to 16.9% per document category); (2) presence of many ambiguous or multi-label documents; (3) a large overlap between test and train splits, which can inflate model performance metrics; and (4) presence of sensitive personally-identifiable information like US Social Security numbers (SSNs). We argue that there is a risk in using RVL-CDIP for benchmarking document classifiers, as its limited scope, presence of errors (state-of-the-art models now achieve accuracy error rates that are within our estimated label error rate), and lack of diversity make it less than ideal for benchmarking. We further advocate for the creation of a new document classification benchmark, and provide recommendations for what characteristics such a resource should include.
Scientific document classification is a critical task for a wide range of applications, but the cost of obtaining massive amounts of human-labeled data can be prohibitive. To address this challenge, we propose a weakly-supervised approach for scientific document classification using label names only. In scientific domains, label names often include domain-specific concepts that may not appear in the document corpus, making it difficult to match labels and documents precisely. To tackle this issue, we propose WANDER, which leverages dense retrieval to perform matching in the embedding space to capture the semantics of label names. We further design the label name expansion module to enrich the label name representations. Lastly, a self-training step is used to refine the predictions. The experiments on three datasets show that WANDER outperforms the best baseline by 11.9% on average. Our code will be published at https://github.com/ritaranx/wander.
ChatGPT is a large language model developed by OpenAI. Despite its impressive performance across various tasks, no prior work has investigated its capability in the biomedical domain yet. To this end, this paper aims to evaluate the performance of ChatGPT on various benchmark biomedical tasks, such as relation extraction, document classification, question answering, and summarization. To the best of our knowledge, this is the first work that conducts an extensive evaluation of ChatGPT in the biomedical domain. Interestingly, we find based on our evaluation that in biomedical datasets that have smaller training sets, zero-shot ChatGPT even outperforms the state-of-the-art fine-tuned generative transformer models, such as BioGPT and BioBART. This suggests that ChatGPT's pre-training on large text corpora makes it quite specialized even in the biomedical domain. Our findings demonstrate that ChatGPT has the potential to be a valuable tool for various tasks in the biomedical domain that lack large annotated data.
The extraction of text in high quality is essential for text-based document analysis tasks like Document Classification or Named Entity Recognition. Unfortunately, this is not always ensured, as poor scan quality and the resulting artifacts lead to errors in the Optical Character Recognition (OCR) process. Current approaches using Convolutional Neural Networks show promising results for background removal tasks but fail correcting artifacts like pixelation or compression errors. For general images, Transformer backbones are getting integrated more frequently in well-known neural network structures for denoising tasks. In this work, a modified UNet structure using a Swin Transformer backbone is presented to remove typical artifacts in scanned documents. Multi-headed cross-attention skip connections are used to more selectively learn features in respective levels of abstraction. The performance of this approach is examined regarding compression errors, pixelation and random noise. An improvement in text extraction quality with a reduced error rate of up to 53.9% on the synthetic data is archived. The pretrained base-model can be easily adapted to new artifacts. The cross-attention skip connections allow to integrate textual information extracted from the encoder or in form of commands to more selectively control the models outcome. The latter is shown by means of an example application.
We propose end-to-end document classification and key information extraction (KIE) for automating document processing in forms. Through accurate document classification we harness known information from templates to enhance KIE from forms. We use text and layout encoding with a cosine similarity measure to classify visually-similar documents. We then demonstrate a novel application of mixed integer programming by using assignment optimization to extract key information from documents. Our approach is validated on an in-house dataset of noisy scanned forms. The best performing document classification approach achieved 0.97 f1 score. A mean f1 score of 0.94 for the KIE task suggests there is significant potential in applying optimization techniques. Abation results show that the method relies on document preprocessing techniques to mitigate Type II errors and achieve optimal performance.
The robustness of a model for real-world deployment is decided by how well it performs on unseen data and distinguishes between in-domain and out-of-domain samples. Visual document classifiers have shown impressive performance on in-distribution test sets. However, they tend to have a hard time correctly classifying and differentiating out-of-distribution examples. Image-based classifiers lack the text component, whereas multi-modality transformer-based models face the token serialization problem in visual documents due to their diverse layouts. They also require a lot of computing power during inference, making them impractical for many real-world applications. We propose, GVdoc, a graph-based document classification model that addresses both of these challenges. Our approach generates a document graph based on its layout, and then trains a graph neural network to learn node and graph embeddings. Through experiments, we show that our model, even with fewer parameters, outperforms state-of-the-art models on out-of-distribution data while retaining comparable performance on the in-distribution test set.
The rapid growth of biomedical literature poses challenges for manual knowledge curation and synthesis. Biomedical Natural Language Processing (BioNLP) automates the process. While Large Language Models (LLMs) have shown promise in general domains, their effectiveness in BioNLP tasks remains unclear due to limited benchmarks and practical guidelines. We perform a systematic evaluation of four LLMs, GPT and LLaMA representatives on 12 BioNLP benchmarks across six applications. We compare their zero-shot, few-shot, and fine-tuning performance with traditional fine-tuning of BERT or BART models. We examine inconsistencies, missing information, hallucinations, and perform cost analysis. Here we show that traditional fine-tuning outperforms zero or few shot LLMs in most tasks. However, closed-source LLMs like GPT-4 excel in reasoning-related tasks such as medical question answering. Open source LLMs still require fine-tuning to close performance gaps. We find issues like missing information and hallucinations in LLM outputs. These results offer practical insights for applying LLMs in BioNLP.
The adoption of Deep Neural Networks (DNNs) has greatly benefited Natural Language Processing (NLP) during the past decade. However, the demands of long document analysis are quite different from those of shorter texts, while the ever increasing size of documents uploaded online renders automated understanding of lengthy texts a critical issue. Relevant applications include automated Web mining, legal document review, medical records analysis, financial reports analysis, contract management, environmental impact assessment, news aggregation, etc. Despite the relatively recent development of efficient algorithms for analyzing long documents, practical tools in this field are currently flourishing. This article serves as an entry point into this dynamic domain and aims to achieve two objectives. First of all, it provides an introductory overview of the relevant neural building blocks, serving as a concise tutorial for the field. Secondly, it offers a brief examination of the current state-of-the-art in two key long document analysis tasks: document classification and document summarization. Sentiment analysis for long texts is also covered, since it is typically treated as a particular case of document classification. Consequently, this article presents an introductory exploration of document-level analysis, addressing the primary challenges, concerns, and existing solutions. Finally, it offers a concise definition of "long text/document", presents an original overarching taxonomy of common deep neural methods for long document analysis and lists publicly available annotated datasets that can facilitate further research in this area.
Visual document understanding is a complex task that involves analyzing both the text and the visual elements in document images. Existing models often rely on manual feature engineering or domain-specific pipelines, which limit their generalization ability across different document types and languages. In this paper, we propose DUBLIN, which is pretrained on web pages using three novel objectives: Masked Document Text Generation Task, Bounding Box Task, and Rendered Question Answering Task, that leverage both the spatial and semantic information in the document images. Our model achieves competitive or state-of-the-art results on several benchmarks, such as Web-Based Structural Reading Comprehension, Document Visual Question Answering, Key Information Extraction, Diagram Understanding, and Table Question Answering. In particular, we show that DUBLIN is the first pixel-based model to achieve an EM of 77.75 and F1 of 84.25 on the WebSRC dataset. We also show that our model outperforms the current pixel-based SOTA models on DocVQA, InfographicsVQA, OCR-VQA and AI2D datasets by 4.6%, 6.5%, 2.6% and 21%, respectively. We also achieve competitive performance on RVL-CDIP document classification. Moreover, we create new baselines for text-based datasets by rendering them as document images to promote research in this direction.
Understanding documents is central to many real-world tasks but remains a challenging topic. Unfortunately, there is no well-established consensus on how to comprehensively evaluate document understanding abilities, which significantly hinders the fair comparison and measuring the progress of the field. To benchmark document understanding researches, this paper summarizes four representative abilities, i.e., document classification, document structural analysis, document information extraction, and document transcription. Under the new evaluation framework, we propose \textbf{Document Language Understanding Evaluation} -- \textbf{DLUE}, a new task suite which covers a wide-range of tasks in various forms, domains and document genres. We also systematically evaluate six well-established transformer models on DLUE, and find that due to the lengthy content, complicated underlying structure and dispersed knowledge, document understanding is still far from being solved, and currently there is no neural architecture that dominates all tasks, raising requirements for a universal document understanding architecture.
Most existing topic models rely on bag-of-words (BOW) representation, which limits their ability to capture word order information and leads to challenges with out-of-vocabulary (OOV) words in new documents. Contextualized word embeddings, however, show superiority in word sense disambiguation and effectively address the OOV issue. In this work, we introduce a novel neural topic model called the Contextlized Word Topic Model (CWTM), which integrates contextualized word embeddings from BERT. The model is capable of learning the topic vector of a document without BOW information. In addition, it can also derive the topic vectors for individual words within a document based on their contextualized word embeddings. Experiments across various datasets show that CWTM generates more coherent and meaningful topics compared to existing topic models, while also accommodating unseen words in newly encountered documents.
Massively multilingual pretrained transformers (MMTs) have tremendously pushed the state of the art on multilingual NLP and cross-lingual transfer of NLP models in particular. While a large body of work leveraged MMTs to mine parallel data and induce bilingual document embeddings, much less effort has been devoted to training general-purpose (massively) multilingual document encoder that can be used for both supervised and unsupervised document-level tasks. In this work, we pretrain a massively multilingual document encoder as a hierarchical transformer model (HMDE) in which a shallow document transformer contextualizes sentence representations produced by a state-of-the-art pretrained multilingual sentence encoder. We leverage Wikipedia as a readily available source of comparable documents for creating training data, and train HMDE by means of a cross-lingual contrastive objective, further exploiting the category hierarchy of Wikipedia for creation of difficult negatives. We evaluate the effectiveness of HMDE in two arguably most common and prominent cross-lingual document-level tasks: (1) cross-lingual transfer for topical document classification and (2) cross-lingual document retrieval. HMDE is significantly more effective than (i) aggregations of segment-based representations and (ii) multilingual Longformer. Crucially, owing to its massively multilingual lower transformer, HMDE successfully generalizes to languages unseen in document-level pretraining. We publicly release our code and models at https://github.com/ogaloglu/pre-training-multilingual-document-encoders .
In the shipping industry, document classification plays a crucial role in ensuring that the necessary documents are properly identified and processed for customs clearance. OCR technology is being used to automate the process of document classification, which involves identifying important documents such as Commercial Invoices, Packing Lists, Export/Import Customs Declarations, Bills of Lading, Sea Waybills, Certificates, Air or Rail Waybills, Arrival Notices, Certificate of Origin, Importer Security Filings, and Letters of Credit. By using OCR technology, the shipping industry can improve accuracy and efficiency in document classification and streamline the customs clearance process. The aim of this study is to build a robust document classification system based on keyword frequencies. The research is carried out by analyzing Contract-Breach law documents available with IN-D. The documents were collected by scraping the Singapore Government Judiciary website. The database developed has 250 Contract-Breach documents. These documents are splitted to generate 200 training documents and 50 test documents. A semi-automatic approach is used to select keyword vectors for document classification. The accuracy of the reported model is 92.00 %.