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Boosting Distributed Training Performance of the Unpadded BERT Model

Pre-training models are an important tool in Natural Language Processing (NLP), while the BERT model is a classic pre-training model whose structure has been widely adopted by followers. It was even chosen as the reference model for the MLPerf training benchmark. The distributed training performance optimization of BERT models plays an important role in accelerating the solutions of most NLP tasks. BERT model often uses padding tensors as its inputs, leading to excessive redundant computations. Thus, removing these redundant computations is essential to improve the distributed training performance. This paper designs a new approach to train BERT models with variable-length inputs efficiently. Firstly, we propose a general structure for the variable-length BERT models, and accelerate the encoder layer via our grouped multi-stream FMHA (Fused Multi-Head Attention) method. Secondly, through data exchange, we address the unbalanced workload problem caused by the variable-length inputs, which overlaps highly with the training process. Finally, we optimize the overall performance of the BERT model, such as kernel fusion, and operator optimization. Our experimental results show that our highly optimized BERT model achieves state-of-the-art throughput and ranks first in MLPerf Training v2.0 within the same GPU configuration. The optimizations in this paper can be applied to more BERT-like models in our future works.

Pre-training Data Quality and Quantity for a Low-Resource Language: New Corpus and BERT Models for Maltese

Multilingual language models such as mBERT have seen impressive cross-lingual transfer to a variety of languages, but many languages remain excluded from these models. In this paper, we analyse the effect of pre-training with monolingual data for a low-resource language that is not included in mBERT -- Maltese -- with a range of pre-training set ups. We conduct evaluations with the newly pre-trained models on three morphosyntactic tasks -- dependency parsing, part-of-speech tagging, and named-entity recognition -- and one semantic classification task -- sentiment analysis. We also present a newly created corpus for Maltese, and determine the effect that the pre-training data size and domain have on the downstream performance. Our results show that using a mixture of pre-training domains is often superior to using Wikipedia text only. We also find that a fraction of this corpus is enough to make significant leaps in performance over Wikipedia-trained models. We pre-train and compare two models on the new corpus: a monolingual BERT model trained from scratch (BERTu), and a further pre-trained multilingual BERT (mBERTu). The models achieve state-of-the-art performance on these tasks, despite the new corpus being considerably smaller than typically used corpora for high-resourced languages. On average, BERTu outperforms or performs competitively with mBERTu, and the largest gains are observed for higher-level tasks.

B-PROP: Bootstrapped Pre-training with Representative Words Prediction for Ad-hoc Retrieval

Pre-training and fine-tuning have achieved remarkable success in many downstream natural language processing (NLP) tasks. Recently, pre-training methods tailored for information retrieval (IR) have also been explored, and the latest success is the PROP method which has reached new SOTA on a variety of ad-hoc retrieval benchmarks. The basic idea of PROP is to construct the representative words prediction (ROP) task for pre-training inspired by the query likelihood model. Despite its exciting performance, the effectiveness of PROP might be bounded by the classical unigram language model adopted in the ROP task construction process. To tackle this problem, we propose a bootstrapped pre-training method (namely B-PROP) based on BERT for ad-hoc retrieval. The key idea is to use the powerful contextual language model BERT to replace the classical unigram language model for the ROP task construction, and re-train BERT itself towards the tailored objective for IR. Specifically, we introduce a novel contrastive method, inspired by the divergence-from-randomness idea, to leverage BERT's self-attention mechanism to sample representative words from the document. By further fine-tuning on downstream ad-hoc retrieval tasks, our method achieves significant improvements over baselines without pre-training or with other pre-training methods, and further pushes forward the SOTA on a variety of ad-hoc retrieval tasks.

MosaicBERT: A Bidirectional Encoder Optimized for Fast Pretraining

Although BERT-style encoder models are heavily used in NLP research, many researchers do not pretrain their own BERTs from scratch due to the high cost of training. In the past half-decade since BERT first rose to prominence, many advances have been made with other transformer architectures and training configurations that have yet to be systematically incorporated into BERT. Here, we introduce MosaicBERT, a BERT-style encoder architecture and training recipe that is empirically optimized for fast pretraining. This efficient architecture incorporates FlashAttention, Attention with Linear Biases (ALiBi), Gated Linear Units (GLU), a module to dynamically remove padded tokens, and low precision LayerNorm into the classic transformer encoder block. The training recipe includes a 30% masking ratio for the Masked Language Modeling (MLM) objective, bfloat16 precision, and vocabulary size optimized for GPU throughput, in addition to best-practices from RoBERTa and other encoder models. When pretrained from scratch on the C4 dataset, this base model achieves a downstream average GLUE (dev) score of 79.6 in 1.13 hours on 8 A100 80 GB GPUs at a cost of roughly $20. We plot extensive accuracy vs. pretraining speed Pareto curves and show that MosaicBERT base and large are consistently Pareto optimal when compared to a competitive BERT base and large. This empirical speed up in pretraining enables researchers and engineers to pretrain custom BERT-style models at low cost instead of finetune on existing generic models. We open source our model weights and code.

Benchmarking for Public Health Surveillance tasks on Social Media with a Domain-Specific Pretrained Language Model

A user-generated text on social media enables health workers to keep track of information, identify possible outbreaks, forecast disease trends, monitor emergency cases, and ascertain disease awareness and response to official health correspondence. This exchange of health information on social media has been regarded as an attempt to enhance public health surveillance (PHS). Despite its potential, the technology is still in its early stages and is not ready for widespread application. Advancements in pretrained language models (PLMs) have facilitated the development of several domain-specific PLMs and a variety of downstream applications. However, there are no PLMs for social media tasks involving PHS. We present and release PHS-BERT, a transformer-based PLM, to identify tasks related to public health surveillance on social media. We compared and benchmarked the performance of PHS-BERT on 25 datasets from different social medial platforms related to 7 different PHS tasks. Compared with existing PLMs that are mainly evaluated on limited tasks, PHS-BERT achieved state-of-the-art performance on all 25 tested datasets, showing that our PLM is robust and generalizable in the common PHS tasks. By making PHS-BERT available, we aim to facilitate the community to reduce the computational cost and introduce new baselines for future works across various PHS-related tasks.

LegalTurk Optimized BERT for Multi-Label Text Classification and NER

The introduction of the Transformer neural network, along with techniques like self-supervised pre-training and transfer learning, has paved the way for advanced models like BERT. Despite BERT's impressive performance, opportunities for further enhancement exist. To our knowledge, most efforts are focusing on improving BERT's performance in English and in general domains, with no study specifically addressing the legal Turkish domain. Our study is primarily dedicated to enhancing the BERT model within the legal Turkish domain through modifications in the pre-training phase. In this work, we introduce our innovative modified pre-training approach by combining diverse masking strategies. In the fine-tuning task, we focus on two essential downstream tasks in the legal domain: name entity recognition and multi-label text classification. To evaluate our modified pre-training approach, we fine-tuned all customized models alongside the original BERT models to compare their performance. Our modified approach demonstrated significant improvements in both NER and multi-label text classification tasks compared to the original BERT model. Finally, to showcase the impact of our proposed models, we trained our best models with different corpus sizes and compared them with BERTurk models. The experimental results demonstrate that our innovative approach, despite being pre-trained on a smaller corpus, competes with BERTurk.

DrBERT: Unveiling the Potential of Masked Language Modeling Decoder in BERT pretraining

BERT (Bidirectional Encoder Representations from Transformers) has revolutionized the field of natural language processing through its exceptional performance on numerous tasks. Yet, the majority of researchers have mainly concentrated on enhancements related to the model structure, such as relative position embedding and more efficient attention mechanisms. Others have delved into pretraining tricks associated with Masked Language Modeling, including whole word masking. DeBERTa introduced an enhanced decoder adapted for BERT's encoder model for pretraining, proving to be highly effective. We argue that the design and research around enhanced masked language modeling decoders have been underappreciated. In this paper, we propose several designs of enhanced decoders and introduce DrBERT (Decoder-refined BERT), a novel method for modeling training. Typically, a pretrained BERT model is fine-tuned for specific Natural Language Understanding (NLU) tasks. In our approach, we utilize the original BERT model as the encoder, making only changes to the decoder without altering the encoder. This approach does not necessitate extensive modifications to the model's architecture and can be seamlessly integrated into existing fine-tuning pipelines and services, offering an efficient and effective enhancement strategy. Compared to other methods, while we also incur a moderate training cost for the decoder during the pretraining process, our approach does not introduce additional training costs during the fine-tuning phase. We test multiple enhanced decoder structures after pretraining and evaluate their performance on the GLUE benchmark. Our results demonstrate that DrBERT, having only undergone subtle refinements to the model structure during pretraining, significantly enhances model performance without escalating the inference time and serving budget.

BiBERT: Accurate Fully Binarized BERT

The large pre-trained BERT has achieved remarkable performance on Natural Language Processing (NLP) tasks but is also computation and memory expensive. As one of the powerful compression approaches, binarization extremely reduces the computation and memory consumption by utilizing 1-bit parameters and bitwise operations. Unfortunately, the full binarization of BERT (i.e., 1-bit weight, embedding, and activation) usually suffer a significant performance drop, and there is rare study addressing this problem. In this paper, with the theoretical justification and empirical analysis, we identify that the severe performance drop can be mainly attributed to the information degradation and optimization direction mismatch respectively in the forward and backward propagation, and propose BiBERT, an accurate fully binarized BERT, to eliminate the performance bottlenecks. Specifically, BiBERT introduces an efficient Bi-Attention structure for maximizing representation information statistically and a Direction-Matching Distillation (DMD) scheme to optimize the full binarized BERT accurately. Extensive experiments show that BiBERT outperforms both the straightforward baseline and existing state-of-the-art quantized BERTs with ultra-low bit activations by convincing margins on the NLP benchmark. As the first fully binarized BERT, our method yields impressive 56.3 times and 31.2 times saving on FLOPs and model size, demonstrating the vast advantages and potential of the fully binarized BERT model in real-world resource-constrained scenarios.

bert2BERT: Towards Reusable Pretrained Language Models

In recent years, researchers tend to pre-train ever-larger language models to explore the upper limit of deep models. However, large language model pre-training costs intensive computational resources and most of the models are trained from scratch without reusing the existing pre-trained models, which is wasteful. In this paper, we propose bert2BERT, which can effectively transfer the knowledge of an existing smaller pre-trained model (e.g., BERT_BASE) to a large model (e.g., BERT_LARGE) through parameter initialization and significantly improve the pre-training efficiency of the large model. Specifically, we extend the previous function-preserving on Transformer-based language model, and further improve it by proposing advanced knowledge for large model's initialization. In addition, a two-stage pre-training method is proposed to further accelerate the training process. We did extensive experiments on representative PLMs (e.g., BERT and GPT) and demonstrate that (1) our method can save a significant amount of training cost compared with baselines including learning from scratch, StackBERT and MSLT; (2) our method is generic and applicable to different types of pre-trained models. In particular, bert2BERT saves about 45% and 47% computational cost of pre-training BERT_BASE and GPT_BASE by reusing the models of almost their half sizes. The source code will be publicly available upon publication.

A Comprehensive Survey on Pretrained Foundation Models: A History from BERT to ChatGPT

Pretrained Foundation Models (PFMs) are regarded as the foundation for various downstream tasks with different data modalities. A PFM (e.g., BERT, ChatGPT, and GPT-4) is trained on large-scale data which provides a reasonable parameter initialization for a wide range of downstream applications. BERT learns bidirectional encoder representations from Transformers, which are trained on large datasets as contextual language models. Similarly, the generative pretrained transformer (GPT) method employs Transformers as the feature extractor and is trained using an autoregressive paradigm on large datasets. Recently, ChatGPT shows promising success on large language models, which applies an autoregressive language model with zero shot or few shot prompting. The remarkable achievements of PFM have brought significant breakthroughs to various fields of AI. Numerous studies have proposed different methods, raising the demand for an updated survey. This study provides a comprehensive review of recent research advancements, challenges, and opportunities for PFMs in text, image, graph, as well as other data modalities. The review covers the basic components and existing pretraining methods used in natural language processing, computer vision, and graph learning. Additionally, it explores advanced PFMs used for different data modalities and unified PFMs that consider data quality and quantity. The review also discusses research related to the fundamentals of PFMs, such as model efficiency and compression, security, and privacy. Finally, the study provides key implications, future research directions, challenges, and open problems in the field of PFMs. Overall, this survey aims to shed light on the research of the PFMs on scalability, security, logical reasoning ability, cross-domain learning ability, and the user-friendly interactive ability for artificial general intelligence.

Pre-Trained Models: Past, Present and Future

Large-scale pre-trained models (PTMs) such as BERT and GPT have recently achieved great success and become a milestone in the field of artificial intelligence (AI). Owing to sophisticated pre-training objectives and huge model parameters, large-scale PTMs can effectively capture knowledge from massive labeled and unlabeled data. By storing knowledge into huge parameters and fine-tuning on specific tasks, the rich knowledge implicitly encoded in huge parameters can benefit a variety of downstream tasks, which has been extensively demonstrated via experimental verification and empirical analysis. It is now the consensus of the AI community to adopt PTMs as backbone for downstream tasks rather than learning models from scratch. In this paper, we take a deep look into the history of pre-training, especially its special relation with transfer learning and self-supervised learning, to reveal the crucial position of PTMs in the AI development spectrum. Further, we comprehensively review the latest breakthroughs of PTMs. These breakthroughs are driven by the surge of computational power and the increasing availability of data, towards four important directions: designing effective architectures, utilizing rich contexts, improving computational efficiency, and conducting interpretation and theoretical analysis. Finally, we discuss a series of open problems and research directions of PTMs, and hope our view can inspire and advance the future study of PTMs.

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

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

Stack Over-Flowing with Results: The Case for Domain-Specific Pre-Training Over One-Size-Fits-All Models

Large pre-trained neural language models have brought immense progress to both NLP and software engineering. Models in OpenAI's GPT series now dwarf Google's BERT and Meta's RoBERTa, which previously set new benchmarks on a wide range of NLP applications. These models are trained on massive corpora of heterogeneous data from web crawls, which enables them to learn general language patterns and semantic relationships. However, the largest models are both expensive to train and deploy and are often closed-source, so we lack access to their data and design decisions. We argue that this trend towards large, general-purpose models should be complemented with single-purpose, more modestly sized pre-trained models. In this work, we take StackOverflow (SO) as a domain example in which large volumes of rich aligned code and text data is available. We adopt standard practices for pre-training large language models, including using a very large context size (2,048 tokens), batch size (0.5M tokens) and training set (27B tokens), coupled with a powerful toolkit (Megatron-LM), to train two models: SOBertBase, with 109M parameters, and SOBertLarge with 762M parameters, at a budget of just 187 and \800 each. We compare the performance of our models with both the previous SOTA model trained on SO data exclusively as well general-purpose BERT models and OpenAI's ChatGPT on four SO-specific downstream tasks - question quality prediction, closed question prediction, named entity recognition and obsoletion prediction (a new task we introduce). Not only do our models consistently outperform all baselines, the smaller model is often sufficient for strong results. Both models are released to the public. These results demonstrate that pre-training both extensively and properly on in-domain data can yield a powerful and affordable alternative to leveraging closed-source general-purpose models.

BIOptimus: Pre-training an Optimal Biomedical Language Model with Curriculum Learning for Named Entity Recognition

Using language models (LMs) pre-trained in a self-supervised setting on large corpora and then fine-tuning for a downstream task has helped to deal with the problem of limited label data for supervised learning tasks such as Named Entity Recognition (NER). Recent research in biomedical language processing has offered a number of biomedical LMs pre-trained using different methods and techniques that advance results on many BioNLP tasks, including NER. However, there is still a lack of a comprehensive comparison of pre-training approaches that would work more optimally in the biomedical domain. This paper aims to investigate different pre-training methods, such as pre-training the biomedical LM from scratch and pre-training it in a continued fashion. We compare existing methods with our proposed pre-training method of initializing weights for new tokens by distilling existing weights from the BERT model inside the context where the tokens were found. The method helps to speed up the pre-training stage and improve performance on NER. In addition, we compare how masking rate, corruption strategy, and masking strategies impact the performance of the biomedical LM. Finally, using the insights from our experiments, we introduce a new biomedical LM (BIOptimus), which is pre-trained using Curriculum Learning (CL) and contextualized weight distillation method. Our model sets new states of the art on several biomedical Named Entity Recognition (NER) tasks. We release our code and all pre-trained models

Domain-Specific Language Model Pretraining for Biomedical Natural Language Processing

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

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

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

Simple Hack for Transformers against Heavy Long-Text Classification on a Time- and Memory-Limited GPU Service

Many NLP researchers rely on free computational services, such as Google Colab, to fine-tune their Transformer models, causing a limitation for hyperparameter optimization (HPO) in long-text classification due to the method having quadratic complexity and needing a bigger resource. In Indonesian, only a few works were found on long-text classification using Transformers. Most only use a small amount of data and do not report any HPO. In this study, using 18k news articles, we investigate which pretrained models are recommended to use based on the output length of the tokenizer. We then compare some hacks to shorten and enrich the sequences, which are the removals of stopwords, punctuation, low-frequency words, and recurring words. To get a fair comparison, we propose and run an efficient and dynamic HPO procedure that can be done gradually on a limited resource and does not require a long-running optimization library. Using the best hack found, we then compare 512, 256, and 128 tokens length. We find that removing stopwords while keeping punctuation and low-frequency words is the best hack. Some of our setups manage to outperform taking 512 first tokens using a smaller 128 or 256 first tokens which manage to represent the same information while requiring less computational resources. The findings could help developers to efficiently pursue optimal performance of the models using limited resources.

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.

MonoByte: A Pool of Monolingual Byte-level Language Models

The zero-shot cross-lingual ability of models pretrained on multilingual and even monolingual corpora has spurred many hypotheses to explain this intriguing empirical result. However, due to the costs of pretraining, most research uses public models whose pretraining methodology, such as the choice of tokenization, corpus size, and computational budget, might differ drastically. When researchers pretrain their own models, they often do so under a constrained budget, and the resulting models might underperform significantly compared to SOTA models. These experimental differences led to various inconsistent conclusions about the nature of the cross-lingual ability of these models. To help further research on the topic, we released 10 monolingual byte-level models rigorously pretrained under the same configuration with a large compute budget (equivalent to 420 days on a V100) and corpora that are 4 times larger than the original BERT's. Because they are tokenizer-free, the problem of unseen token embeddings is eliminated, thus allowing researchers to try a wider range of cross-lingual experiments in languages with different scripts. Additionally, we release two models pretrained on non-natural language texts that can be used in sanity-check experiments. Experiments on QA and NLI tasks show that our monolingual models achieve competitive performance to the multilingual one, and hence can be served to strengthen our understanding of cross-lingual transferability in language models.

Can bidirectional encoder become the ultimate winner for downstream applications of foundation models?

Over the past few decades, Artificial Intelligence(AI) has progressed from the initial machine learning stage to the deep learning stage, and now to the stage of foundational models. Foundational models have the characteristics of pre-training, transfer learning, and self-supervised learning, and pre-trained models can be fine-tuned and applied to various downstream tasks. Under the framework of foundational models, models such as Bidirectional Encoder Representations from Transformers(BERT) and Generative Pre-trained Transformer(GPT) have greatly advanced the development of natural language processing(NLP), especially the emergence of many models based on BERT. BERT broke through the limitation of only using one-way methods for language modeling in pre-training by using a masked language model. It can capture bidirectional context information to predict the masked words in the sequence, this can improve the feature extraction ability of the model. This makes the model very useful for downstream tasks, especially for specialized applications. The model using the bidirectional encoder can better understand the domain knowledge and be better applied to these downstream tasks. So we hope to help understand how this technology has evolved and improved model performance in various natural language processing tasks under the background of foundational models and reveal its importance in capturing context information and improving the model's performance on downstream tasks. This article analyzes one-way and bidirectional models based on GPT and BERT and compares their differences based on the purpose of the model. It also briefly analyzes BERT and the improvements of some models based on BERT. The model's performance on the Stanford Question Answering Dataset(SQuAD) and General Language Understanding Evaluation(GLUE) was compared.

Learning Trajectory-Word Alignments for Video-Language Tasks

In a video, an object usually appears as the trajectory, i.e., it spans over a few spatial but longer temporal patches, that contains abundant spatiotemporal contexts. However, modern Video-Language BERTs (VDL-BERTs) neglect this trajectory characteristic that they usually follow image-language BERTs (IL-BERTs) to deploy the patch-to-word (P2W) attention that may over-exploit trivial spatial contexts and neglect significant temporal contexts. To amend this, we propose a novel TW-BERT to learn Trajectory-Word alignment by a newly designed trajectory-to-word (T2W) attention for solving video-language tasks. Moreover, previous VDL-BERTs usually uniformly sample a few frames into the model while different trajectories have diverse graininess, i.e., some trajectories span longer frames and some span shorter, and using a few frames will lose certain useful temporal contexts. However, simply sampling more frames will also make pre-training infeasible due to the largely increased training burdens. To alleviate the problem, during the fine-tuning stage, we insert a novel Hierarchical Frame-Selector (HFS) module into the video encoder. HFS gradually selects the suitable frames conditioned on the text context for the later cross-modal encoder to learn better trajectory-word alignments. By the proposed T2W attention and HFS, our TW-BERT achieves SOTA performances on text-to-video retrieval tasks, and comparable performances on video question-answering tasks with some VDL-BERTs trained on much more data. The code will be available in the supplementary material.

ERNIE-Tiny : A Progressive Distillation Framework for Pretrained Transformer Compression

Pretrained language models (PLMs) such as BERT adopt a training paradigm which first pretrain the model in general data and then finetune the model on task-specific data, and have recently achieved great success. However, PLMs are notorious for their enormous parameters and hard to be deployed on real-life applications. Knowledge distillation has been prevailing to address this problem by transferring knowledge from a large teacher to a much smaller student over a set of data. We argue that the selection of thee three key components, namely teacher, training data, and learning objective, is crucial to the effectiveness of distillation. We, therefore, propose a four-stage progressive distillation framework ERNIE-Tiny to compress PLM, which varies the three components gradually from general level to task-specific level. Specifically, the first stage, General Distillation, performs distillation with guidance from pretrained teacher, gerenal data and latent distillation loss. Then, General-Enhanced Distillation changes teacher model from pretrained teacher to finetuned teacher. After that, Task-Adaptive Distillation shifts training data from general data to task-specific data. In the end, Task-Specific Distillation, adds two additional losses, namely Soft-Label and Hard-Label loss onto the last stage. Empirical results demonstrate the effectiveness of our framework and generalization gain brought by ERNIE-Tiny.In particular, experiments show that a 4-layer ERNIE-Tiny maintains over 98.0%performance of its 12-layer teacher BERT base on GLUE benchmark, surpassing state-of-the-art (SOTA) by 1.0% GLUE score with the same amount of parameters. Moreover, ERNIE-Tiny achieves a new compression SOTA on five Chinese NLP tasks, outperforming BERT base by 0.4% accuracy with 7.5x fewer parameters and9.4x faster inference speed.

Q-BERT: Hessian Based Ultra Low Precision Quantization of BERT

Transformer based architectures have become de-facto models used for a range of Natural Language Processing tasks. In particular, the BERT based models achieved significant accuracy gain for GLUE tasks, CoNLL-03 and SQuAD. However, BERT based models have a prohibitive memory footprint and latency. As a result, deploying BERT based models in resource constrained environments has become a challenging task. In this work, we perform an extensive analysis of fine-tuned BERT models using second order Hessian information, and we use our results to propose a novel method for quantizing BERT models to ultra low precision. In particular, we propose a new group-wise quantization scheme, and we use a Hessian based mix-precision method to compress the model further. We extensively test our proposed method on BERT downstream tasks of SST-2, MNLI, CoNLL-03, and SQuAD. We can achieve comparable performance to baseline with at most 2.3% performance degradation, even with ultra-low precision quantization down to 2 bits, corresponding up to 13times compression of the model parameters, and up to 4times compression of the embedding table as well as activations. Among all tasks, we observed the highest performance loss for BERT fine-tuned on SQuAD. By probing into the Hessian based analysis as well as visualization, we show that this is related to the fact that current training/fine-tuning strategy of BERT does not converge for SQuAD.

Spread Love Not Hate: Undermining the Importance of Hateful Pre-training for Hate Speech Detection

Pre-training large neural language models, such as BERT, has led to impressive gains on many natural language processing (NLP) tasks. Although this method has proven to be effective for many domains, it might not always provide desirable benefits. In this paper, we study the effects of hateful pre-training on low-resource hate speech classification tasks. While previous studies on the English language have emphasized its importance, we aim to augment their observations with some non-obvious insights. We evaluate different variations of tweet-based BERT models pre-trained on hateful, non-hateful, and mixed subsets of a 40M tweet dataset. This evaluation is carried out for the Indian languages Hindi and Marathi. This paper is empirical evidence that hateful pre-training is not the best pre-training option for hate speech detection. We show that pre-training on non-hateful text from the target domain provides similar or better results. Further, we introduce HindTweetBERT and MahaTweetBERT, the first publicly available BERT models pre-trained on Hindi and Marathi tweets, respectively. We show that they provide state-of-the-art performance on hate speech classification tasks. We also release hateful BERT for the two languages and a gold hate speech evaluation benchmark HateEval-Hi and HateEval-Mr consisting of manually labeled 2000 tweets each. The models and data are available at https://github.com/l3cube-pune/MarathiNLP .

ZipLM: Hardware-Aware Structured Pruning of Language Models

The breakthrough performance of large language models (LLMs) comes with large computational footprints and high deployment costs. In this paper, we progress towards resolving this problem by proposing a new structured compression approach for LLMs, called ZipLM, which provides state-of-the-art compression-vs-accuracy results, while guaranteeing to match a set of (achievable) target speedups on any given target hardware. Specifically, given a task, a model, an inference environment, as well as a set of speedup targets, ZipLM identifies and removes redundancies in the model through iterative structured shrinking of the model's weight matrices. Importantly, ZipLM works in both, the post-training/one-shot and the gradual compression setting, where it produces a set of accurate models in a single run, making it highly-efficient in practice. Our approach is based on new structured pruning and knowledge distillation techniques, and consistently outperforms prior structured compression methods in terms of accuracy-versus-speedup in experiments on BERT- and GPT-family models. In particular, when compressing GPT2 model, it outperforms DistilGPT2 while being 60% smaller and 30% faster. Further, ZipLM matches performance of heavily optimized MobileBERT model, obtained via extensive architecture search, by simply pruning the baseline BERT-large architecture, and outperforms all prior BERT-base compression techniques like CoFi, MiniLM and TinyBERT.

PROP: Pre-training with Representative Words Prediction for Ad-hoc Retrieval

Recently pre-trained language representation models such as BERT have shown great success when fine-tuned on downstream tasks including information retrieval (IR). However, pre-training objectives tailored for ad-hoc retrieval have not been well explored. In this paper, we propose Pre-training with Representative wOrds Prediction (PROP) for ad-hoc retrieval. PROP is inspired by the classical statistical language model for IR, specifically the query likelihood model, which assumes that the query is generated as the piece of text representative of the "ideal" document. Based on this idea, we construct the representative words prediction (ROP) task for pre-training. Given an input document, we sample a pair of word sets according to the document language model, where the set with higher likelihood is deemed as more representative of the document. We then pre-train the Transformer model to predict the pairwise preference between the two word sets, jointly with the Masked Language Model (MLM) objective. By further fine-tuning on a variety of representative downstream ad-hoc retrieval tasks, PROP achieves significant improvements over baselines without pre-training or with other pre-training methods. We also show that PROP can achieve exciting performance under both the zero- and low-resource IR settings. The code and pre-trained models are available at https://github.com/Albert-Ma/PROP.

Improving the Language Understanding Capabilities of Large Language Models Using Reinforcement Learning

Large language models (LLMs), built on decoder-only transformers, excel in natural language generation and adapt to diverse tasks using zero-shot and few-shot prompting. However, these prompting methods often struggle on natural language understanding (NLU) tasks, where encoder-only models like BERT-base outperform LLMs on benchmarks like GLUE and SuperGLUE. This paper explores two approaches-supervised fine-tuning (SFT) and proximal policy optimization (PPO)-to enhance LLMs' NLU abilities. To reduce the cost of full-model fine-tuning, we integrate low-rank adaptation (LoRA) layers, limiting updates to these layers during both SFT and PPO. In SFT, task-specific prompts are concatenated with input queries and ground-truth labels, optimizing with next-token prediction. Despite this, LLMs still underperform compared to models like BERT-base on several NLU tasks. To close this gap, we apply PPO, a reinforcement learning technique that treats each token generation as an action and uses a reward function based on alignment with ground-truth answers. PPO then updates the model to maximize these rewards, aligning outputs with correct labels. Our experiments with LLAMA2-7B show that PPO improves performance, with a 6.3-point gain over SFT on GLUE. PPO exceeds zero-shot by 38.7 points and few-shot by 26.1 points on GLUE, while surpassing these by 28.8 and 28.5 points on SuperGLUE. Additionally, PPO outperforms BERT-large by 2.7 points on GLUE and 9.3 points on SuperGLUE. The improvements are consistent across models like Qwen2.5-7B and MPT-7B, highlighting PPO's robustness in enhancing LLMs' NLU capabilities.

InterBERT: Vision-and-Language Interaction for Multi-modal Pretraining

Multi-modal pretraining for learning high-level multi-modal representation is a further step towards deep learning and artificial intelligence. In this work, we propose a novel model, namely InterBERT (BERT for Interaction), which is the first model of our series of multimodal pretraining methods M6 (MultiModality-to-MultiModality Multitask Mega-transformer). The model owns strong capability of modeling interaction between the information flows of different modalities. The single-stream interaction module is capable of effectively processing information of multiple modalilties, and the two-stream module on top preserves the independence of each modality to avoid performance downgrade in single-modal tasks. We pretrain the model with three pretraining tasks, including masked segment modeling (MSM), masked region modeling (MRM) and image-text matching (ITM); and finetune the model on a series of vision-and-language downstream tasks. Experimental results demonstrate that InterBERT outperforms a series of strong baselines, including the most recent multi-modal pretraining methods, and the analysis shows that MSM and MRM are effective for pretraining and our method can achieve performances comparable to BERT in single-modal tasks. Besides, we propose a large-scale dataset for multi-modal pretraining in Chinese, and we develop the Chinese InterBERT which is the first Chinese multi-modal pretrained model. We pretrain the Chinese InterBERT on our proposed dataset of 3.1M image-text pairs from the mobile Taobao, the largest Chinese e-commerce platform. We finetune the model for text-based image retrieval, and recently we deployed the model online for topic-based recommendation.

HICL: Hashtag-Driven In-Context Learning for Social Media Natural Language Understanding

Natural language understanding (NLU) is integral to various social media applications. However, existing NLU models rely heavily on context for semantic learning, resulting in compromised performance when faced with short and noisy social media content. To address this issue, we leverage in-context learning (ICL), wherein language models learn to make inferences by conditioning on a handful of demonstrations to enrich the context and propose a novel hashtag-driven in-context learning (HICL) framework. Concretely, we pre-train a model #Encoder, which employs #hashtags (user-annotated topic labels) to drive BERT-based pre-training through contrastive learning. Our objective here is to enable #Encoder to gain the ability to incorporate topic-related semantic information, which allows it to retrieve topic-related posts to enrich contexts and enhance social media NLU with noisy contexts. To further integrate the retrieved context with the source text, we employ a gradient-based method to identify trigger terms useful in fusing information from both sources. For empirical studies, we collected 45M tweets to set up an in-context NLU benchmark, and the experimental results on seven downstream tasks show that HICL substantially advances the previous state-of-the-art results. Furthermore, we conducted extensive analyzes and found that: (1) combining source input with a top-retrieved post from #Encoder is more effective than using semantically similar posts; (2) trigger words can largely benefit in merging context from the source and retrieved posts.

Fast Passage Re-ranking with Contextualized Exact Term Matching and Efficient Passage Expansion

BERT-based information retrieval models are expensive, in both time (query latency) and computational resources (energy, hardware cost), making many of these models impractical especially under resource constraints. The reliance on a query encoder that only performs tokenization and on the pre-processing of passage representations at indexing, has allowed the recently proposed TILDE method to overcome the high query latency issue typical of BERT-based models. This however is at the expense of a lower effectiveness compared to other BERT-based re-rankers and dense retrievers. In addition, the original TILDE method is characterised by indexes with a very high memory footprint, as it expands each passage into the size of the BERT vocabulary. In this paper, we propose TILDEv2, a new model that stems from the original TILDE but that addresses its limitations. TILDEv2 relies on contextualized exact term matching with expanded passages. This requires to only store in the index the score of tokens that appear in the expanded passages (rather than all the vocabulary), thus producing indexes that are 99% smaller than those of TILDE. This matching mechanism also improves ranking effectiveness by 24%, without adding to the query latency. This makes TILDEv2 the state-of-the-art passage re-ranking method for CPU-only environments, capable of maintaining query latency below 100ms on commodity hardware.

The Emergence of Essential Sparsity in Large Pre-trained Models: The Weights that Matter

Large pre-trained transformers are show-stealer in modern-day deep learning, and it becomes crucial to comprehend the parsimonious patterns that exist within them as they grow in scale. With exploding parameter counts, Lottery Ticket Hypothesis (LTH) and its variants, have lost their pragmatism in sparsifying them due to high computation and memory bottleneck of repetitive train-prune-retrain routine of iterative magnitude pruning (IMP) which worsens with increasing model size. This paper comprehensively studies induced sparse patterns across multiple large pre-trained vision and language transformers. We propose the existence of -- essential sparsity defined with a sharp dropping point beyond which the performance declines much faster w.r.t the rise of sparsity level, when we directly remove weights with the smallest magnitudes in one-shot without re-training. We also find essential sparsity to hold valid for N:M sparsity patterns as well as on modern-scale large language models (Vicuna-7B). We also present an intriguing emerging phenomenon of abrupt sparsification during the pre-training of BERT, i.e., BERT suddenly becomes heavily sparse in pre-training after certain iterations. Moreover, our observations also indicate a counter-intuitive finding that BERT trained with a larger amount of pre-training data tends to have a better ability to condense knowledge in comparatively relatively fewer parameters. Lastly, we investigate the effect of the pre-training loss on essential sparsity and discover that self-supervised learning (SSL) objectives trigger stronger emergent sparsification properties than supervised learning (SL). Our codes are available at https://github.com/VITA-Group/essential_sparsity.

Parameter-Efficient Sparsity for Large Language Models Fine-Tuning

With the dramatically increased number of parameters in language models, sparsity methods have received ever-increasing research focus to compress and accelerate the models. While most research focuses on how to accurately retain appropriate weights while maintaining the performance of the compressed model, there are challenges in the computational overhead and memory footprint of sparse training when compressing large-scale language models. To address this problem, we propose a Parameter-efficient Sparse Training (PST) method to reduce the number of trainable parameters during sparse-aware training in downstream tasks. Specifically, we first combine the data-free and data-driven criteria to efficiently and accurately measure the importance of weights. Then we investigate the intrinsic redundancy of data-driven weight importance and derive two obvious characteristics i.e., low-rankness and structuredness. Based on that, two groups of small matrices are introduced to compute the data-driven importance of weights, instead of using the original large importance score matrix, which therefore makes the sparse training resource-efficient and parameter-efficient. Experiments with diverse networks (i.e., BERT, RoBERTa and GPT-2) on dozens of datasets demonstrate PST performs on par or better than previous sparsity methods, despite only training a small number of parameters. For instance, compared with previous sparsity methods, our PST only requires 1.5% trainable parameters to achieve comparable performance on BERT.

Traceability Transformed: Generating more Accurate Links with Pre-Trained BERT Models

Software traceability establishes and leverages associations between diverse development artifacts. Researchers have proposed the use of deep learning trace models to link natural language artifacts, such as requirements and issue descriptions, to source code; however, their effectiveness has been restricted by availability of labeled data and efficiency at runtime. In this study, we propose a novel framework called Trace BERT (T-BERT) to generate trace links between source code and natural language artifacts. To address data sparsity, we leverage a three-step training strategy to enable trace models to transfer knowledge from a closely related Software Engineering challenge, which has a rich dataset, to produce trace links with much higher accuracy than has previously been achieved. We then apply the T-BERT framework to recover links between issues and commits in Open Source Projects. We comparatively evaluated accuracy and efficiency of three BERT architectures. Results show that a Single-BERT architecture generated the most accurate links, while a Siamese-BERT architecture produced comparable results with significantly less execution time. Furthermore, by learning and transferring knowledge, all three models in the framework outperform classical IR trace models. On the three evaluated real-word OSS projects, the best T-BERT stably outperformed the VSM model with average improvements of 60.31% measured using Mean Average Precision (MAP). RNN severely underperformed on these projects due to insufficient training data, while T-BERT overcame this problem by using pretrained language models and transfer learning.

Foundation Models for Natural Language Processing -- Pre-trained Language Models Integrating Media

This open access book provides a comprehensive overview of the state of the art in research and applications of Foundation Models and is intended for readers familiar with basic Natural Language Processing (NLP) concepts. Over the recent years, a revolutionary new paradigm has been developed for training models for NLP. These models are first pre-trained on large collections of text documents to acquire general syntactic knowledge and semantic information. Then, they are fine-tuned for specific tasks, which they can often solve with superhuman accuracy. When the models are large enough, they can be instructed by prompts to solve new tasks without any fine-tuning. Moreover, they can be applied to a wide range of different media and problem domains, ranging from image and video processing to robot control learning. Because they provide a blueprint for solving many tasks in artificial intelligence, they have been called Foundation Models. After a brief introduction to basic NLP models the main pre-trained language models BERT, GPT and sequence-to-sequence transformer are described, as well as the concepts of self-attention and context-sensitive embedding. Then, different approaches to improving these models are discussed, such as expanding the pre-training criteria, increasing the length of input texts, or including extra knowledge. An overview of the best-performing models for about twenty application areas is then presented, e.g., question answering, translation, story generation, dialog systems, generating images from text, etc. For each application area, the strengths and weaknesses of current models are discussed, and an outlook on further developments is given. In addition, links are provided to freely available program code. A concluding chapter summarizes the economic opportunities, mitigation of risks, and potential developments of AI.

Semantic Stealth: Adversarial Text Attacks on NLP Using Several Methods

In various real-world applications such as machine translation, sentiment analysis, and question answering, a pivotal role is played by NLP models, facilitating efficient communication and decision-making processes in domains ranging from healthcare to finance. However, a significant challenge is posed to the robustness of these natural language processing models by text adversarial attacks. These attacks involve the deliberate manipulation of input text to mislead the predictions of the model while maintaining human interpretability. Despite the remarkable performance achieved by state-of-the-art models like BERT in various natural language processing tasks, they are found to remain vulnerable to adversarial perturbations in the input text. In addressing the vulnerability of text classifiers to adversarial attacks, three distinct attack mechanisms are explored in this paper using the victim model BERT: BERT-on-BERT attack, PWWS attack, and Fraud Bargain's Attack (FBA). Leveraging the IMDB, AG News, and SST2 datasets, a thorough comparative analysis is conducted to assess the effectiveness of these attacks on the BERT classifier model. It is revealed by the analysis that PWWS emerges as the most potent adversary, consistently outperforming other methods across multiple evaluation scenarios, thereby emphasizing its efficacy in generating adversarial examples for text classification. Through comprehensive experimentation, the performance of these attacks is assessed and the findings indicate that the PWWS attack outperforms others, demonstrating lower runtime, higher accuracy, and favorable semantic similarity scores. The key insight of this paper lies in the assessment of the relative performances of three prevalent state-of-the-art attack mechanisms.

The Optimal BERT Surgeon: Scalable and Accurate Second-Order Pruning for Large Language Models

Transformer-based language models have become a key building block for natural language processing. While these models are extremely accurate, they can be too large and computationally intensive to run on standard deployments. A variety of compression methods, including distillation, quantization, structured and unstructured pruning are known to decrease model size and increase inference speed, with low accuracy loss. In this context, this paper's contributions are two-fold. We perform an in-depth study of the accuracy-compression trade-off for unstructured weight pruning of BERT models. We introduce Optimal BERT Surgeon (oBERT), an efficient and accurate weight pruning method based on approximate second-order information, which we show to yield state-of-the-art results in both stages of language tasks: pre-training and fine-tuning. Specifically, oBERT extends existing work on unstructured second-order pruning by allowing for pruning blocks of weights, and by being applicable at the BERT scale. Second, we investigate the impact of this pruning method when compounding compression approaches to obtain highly compressed but accurate models for deployment on edge devices. These models significantly push boundaries of the current state-of-the-art sparse BERT models with respect to all metrics: model size, inference speed and task accuracy. For example, relative to the dense BERT-base, we obtain 10x model size compression (in MB) with < 1% accuracy drop, 10x CPU-inference speedup with < 2% accuracy drop, and 29x CPU-inference speedup with < 7.5% accuracy drop. Our code, fully integrated with Transformers and SparseML, is available at https://github.com/neuralmagic/sparseml/tree/main/research/optimal_BERT_surgeon_oBERT.

KLUE: Korean Language Understanding Evaluation

We introduce Korean Language Understanding Evaluation (KLUE) benchmark. KLUE is a collection of 8 Korean natural language understanding (NLU) tasks, including Topic Classification, SemanticTextual Similarity, Natural Language Inference, Named Entity Recognition, Relation Extraction, Dependency Parsing, Machine Reading Comprehension, and Dialogue State Tracking. We build all of the tasks from scratch from diverse source corpora while respecting copyrights, to ensure accessibility for anyone without any restrictions. With ethical considerations in mind, we carefully design annotation protocols. Along with the benchmark tasks and data, we provide suitable evaluation metrics and fine-tuning recipes for pretrained language models for each task. We furthermore release the pretrained language models (PLM), KLUE-BERT and KLUE-RoBERTa, to help reproducing baseline models on KLUE and thereby facilitate future research. We make a few interesting observations from the preliminary experiments using the proposed KLUE benchmark suite, already demonstrating the usefulness of this new benchmark suite. First, we find KLUE-RoBERTa-large outperforms other baselines, including multilingual PLMs and existing open-source Korean PLMs. Second, we see minimal degradation in performance even when we replace personally identifiable information from the pretraining corpus, suggesting that privacy and NLU capability are not at odds with each other. Lastly, we find that using BPE tokenization in combination with morpheme-level pre-tokenization is effective in tasks involving morpheme-level tagging, detection and generation. In addition to accelerating Korean NLP research, our comprehensive documentation on creating KLUE will facilitate creating similar resources for other languages in the future. KLUE is available at https://klue-benchmark.com.

FewCLUE: A Chinese Few-shot Learning Evaluation Benchmark

Pretrained Language Models (PLMs) have achieved tremendous success in natural language understanding tasks. While different learning schemes -- fine-tuning, zero-shot, and few-shot learning -- have been widely explored and compared for languages such as English, there is comparatively little work in Chinese to fairly and comprehensively evaluate and compare these methods and thus hinders cumulative progress. In this paper, we introduce the Chinese Few-shot Learning Evaluation Benchmark (FewCLUE), the first comprehensive few-shot evaluation benchmark in Chinese. It includes nine tasks, ranging from single-sentence and sentence-pair classification tasks to machine reading comprehension tasks. We systematically evaluate five state-of-the-art (SOTA) few-shot learning methods (including PET, ADAPET, LM-BFF, P-tuning and EFL), and compare their performance with fine-tuning and zero-shot learning schemes on the newly constructed FewCLUE benchmark. Experimental results reveal that: 1) The effect of different few-shot learning methods is sensitive to the pre-trained model to which the methods are applied; 2) PET and P-tuning achieve the best overall performance with RoBERTa and ERNIE respectively. Our benchmark is used in the few-shot learning contest of NLPCC 2021. In addition, we provide a user-friendly toolkit, as well as an online leaderboard to help facilitate further progress on Chinese few-shot learning. We provide a baseline performance on different learning methods, a reference for future research.

PhenoTagger: A Hybrid Method for Phenotype Concept Recognition using Human Phenotype Ontology

Automatic phenotype concept recognition from unstructured text remains a challenging task in biomedical text mining research. Previous works that address the task typically use dictionary-based matching methods, which can achieve high precision but suffer from lower recall. Recently, machine learning-based methods have been proposed to identify biomedical concepts, which can recognize more unseen concept synonyms by automatic feature learning. However, most methods require large corpora of manually annotated data for model training, which is difficult to obtain due to the high cost of human annotation. In this paper, we propose PhenoTagger, a hybrid method that combines both dictionary and machine learning-based methods to recognize Human Phenotype Ontology (HPO) concepts in unstructured biomedical text. We first use all concepts and synonyms in HPO to construct a dictionary, which is then used to automatically build a distantly supervised training dataset for machine learning. Next, a cutting-edge deep learning model is trained to classify each candidate phrase (n-gram from input sentence) into a corresponding concept label. Finally, the dictionary and machine learning-based prediction results are combined for improved performance. Our method is validated with two HPO corpora, and the results show that PhenoTagger compares favorably to previous methods. In addition, to demonstrate the generalizability of our method, we retrained PhenoTagger using the disease ontology MEDIC for disease concept recognition to investigate the effect of training on different ontologies. Experimental results on the NCBI disease corpus show that PhenoTagger without requiring manually annotated training data achieves competitive performance as compared with state-of-the-art supervised methods.

Point-BERT: Pre-training 3D Point Cloud Transformers with Masked Point Modeling

We present Point-BERT, a new paradigm for learning Transformers to generalize the concept of BERT to 3D point cloud. Inspired by BERT, we devise a Masked Point Modeling (MPM) task to pre-train point cloud Transformers. Specifically, we first divide a point cloud into several local point patches, and a point cloud Tokenizer with a discrete Variational AutoEncoder (dVAE) is designed to generate discrete point tokens containing meaningful local information. Then, we randomly mask out some patches of input point clouds and feed them into the backbone Transformers. The pre-training objective is to recover the original point tokens at the masked locations under the supervision of point tokens obtained by the Tokenizer. Extensive experiments demonstrate that the proposed BERT-style pre-training strategy significantly improves the performance of standard point cloud Transformers. Equipped with our pre-training strategy, we show that a pure Transformer architecture attains 93.8% accuracy on ModelNet40 and 83.1% accuracy on the hardest setting of ScanObjectNN, surpassing carefully designed point cloud models with much fewer hand-made designs. We also demonstrate that the representations learned by Point-BERT transfer well to new tasks and domains, where our models largely advance the state-of-the-art of few-shot point cloud classification task. The code and pre-trained models are available at https://github.com/lulutang0608/Point-BERT

Deep Entity Matching with Pre-Trained Language Models

We present Ditto, a novel entity matching system based on pre-trained Transformer-based language models. We fine-tune and cast EM as a sequence-pair classification problem to leverage such models with a simple architecture. Our experiments show that a straightforward application of language models such as BERT, DistilBERT, or RoBERTa pre-trained on large text corpora already significantly improves the matching quality and outperforms previous state-of-the-art (SOTA), by up to 29% of F1 score on benchmark datasets. We also developed three optimization techniques to further improve Ditto's matching capability. Ditto allows domain knowledge to be injected by highlighting important pieces of input information that may be of interest when making matching decisions. Ditto also summarizes strings that are too long so that only the essential information is retained and used for EM. Finally, Ditto adapts a SOTA technique on data augmentation for text to EM to augment the training data with (difficult) examples. This way, Ditto is forced to learn "harder" to improve the model's matching capability. The optimizations we developed further boost the performance of Ditto by up to 9.8%. Perhaps more surprisingly, we establish that Ditto can achieve the previous SOTA results with at most half the number of labeled data. Finally, we demonstrate Ditto's effectiveness on a real-world large-scale EM task. On matching two company datasets consisting of 789K and 412K records, Ditto achieves a high F1 score of 96.5%.

Towards Efficient Methods in Medical Question Answering using Knowledge Graph Embeddings

In Natural Language Processing (NLP), Machine Reading Comprehension (MRC) is the task of answering a question based on a given context. To handle questions in the medical domain, modern language models such as BioBERT, SciBERT and even ChatGPT are trained on vast amounts of in-domain medical corpora. However, in-domain pre-training is expensive in terms of time and resources. In this paper, we propose a resource-efficient approach for injecting domain knowledge into a model without relying on such domain-specific pre-training. Knowledge graphs are powerful resources for accessing medical information. Building on existing work, we introduce a method using Multi-Layer Perceptrons (MLPs) for aligning and integrating embeddings extracted from medical knowledge graphs with the embedding spaces of pre-trained language models (LMs). The aligned embeddings are fused with open-domain LMs BERT and RoBERTa that are fine-tuned for two MRC tasks, span detection (COVID-QA) and multiple-choice questions (PubMedQA). We compare our method to prior techniques that rely on a vocabulary overlap for embedding alignment and show how our method circumvents this requirement to deliver better performance. On both datasets, our method allows BERT/RoBERTa to either perform on par (occasionally exceeding) with stronger domain-specific models or show improvements in general over prior techniques. With the proposed approach, we signal an alternative method to in-domain pre-training to achieve domain proficiency.

Well-Read Students Learn Better: On the Importance of Pre-training Compact Models

Recent developments in natural language representations have been accompanied by large and expensive models that leverage vast amounts of general-domain text through self-supervised pre-training. Due to the cost of applying such models to down-stream tasks, several model compression techniques on pre-trained language representations have been proposed (Sun et al., 2019; Sanh, 2019). However, surprisingly, the simple baseline of just pre-training and fine-tuning compact models has been overlooked. In this paper, we first show that pre-training remains important in the context of smaller architectures, and fine-tuning pre-trained compact models can be competitive to more elaborate methods proposed in concurrent work. Starting with pre-trained compact models, we then explore transferring task knowledge from large fine-tuned models through standard knowledge distillation. The resulting simple, yet effective and general algorithm, Pre-trained Distillation, brings further improvements. Through extensive experiments, we more generally explore the interaction between pre-training and distillation under two variables that have been under-studied: model size and properties of unlabeled task data. One surprising observation is that they have a compound effect even when sequentially applied on the same data. To accelerate future research, we will make our 24 pre-trained miniature BERT models publicly available.

ERNIE-Gram: Pre-Training with Explicitly N-Gram Masked Language Modeling for Natural Language Understanding

Coarse-grained linguistic information, such as named entities or phrases, facilitates adequately representation learning in pre-training. Previous works mainly focus on extending the objective of BERT's Masked Language Modeling (MLM) from masking individual tokens to contiguous sequences of n tokens. We argue that such contiguously masking method neglects to model the intra-dependencies and inter-relation of coarse-grained linguistic information. As an alternative, we propose ERNIE-Gram, an explicitly n-gram masking method to enhance the integration of coarse-grained information into pre-training. In ERNIE-Gram, n-grams are masked and predicted directly using explicit n-gram identities rather than contiguous sequences of n tokens. Furthermore, ERNIE-Gram employs a generator model to sample plausible n-gram identities as optional n-gram masks and predict them in both coarse-grained and fine-grained manners to enable comprehensive n-gram prediction and relation modeling. We pre-train ERNIE-Gram on English and Chinese text corpora and fine-tune on 19 downstream tasks. Experimental results show that ERNIE-Gram outperforms previous pre-training models like XLNet and RoBERTa by a large margin, and achieves comparable results with state-of-the-art methods. The source codes and pre-trained models have been released at https://github.com/PaddlePaddle/ERNIE.