Contextual word embedding models such as ELMo (, 2018) and BERT (, 2018) have dramatically improved performance for many natural language processing (NLP) tasks in recent months. However, these models have been minimally explored on specialty corpora, such as clinical text; moreover, in the clinical domain, no publicly-available pre-trained BERT models yet exist. In this work, we address this need by exploring and releasing BERT models for clinical text: one for generic clinical text and another for discharge summaries specifically. We demonstrate that using a domain-specific model yields performance improvements on three common clinical NLP tasks as compared to nonspecific embeddings. These domain-specific models are not as performant on two clinical de-identification tasks, and argue that this is a natural consequence of the differences between de-identified source text and synthetically non de-identified task text.
Traditional word-level vector representations, such as word2vec @cite_7 , GloVe @cite_20 , and fastText @cite_17 , express all possible meanings of a word as a single vector representation and cannot disambiguate the word senses based on the surrounding context. Over the last two years, ELMo @cite_19 and BERT @cite_12 present strong solutions that can provide contextualized word representations. By pre-training on a large text corpus as a language model, ELMo can create a context-sensitive embedding for each word in a given sentence, which will be fed into downstream tasks. Compared to ELMo, BERT is deeper and contains much more parameters, thus possessing greater representation power. More importantly, rather than simply providing word embeddings as features, BERT can be incorporated into a downstream task and gets fine-tuned as an integrated task-specific architecture.
@cite_7 @cite_19 @cite_12 @cite_20 @cite_17
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Neural network-based representations ("embeddings") have dramatically advanced natural language processing (NLP) tasks, including clinical NLP tasks such as concept extraction. Recently, however, more advanced embedding methods and representations (e.g., ELMo, BERT) have further pushed the state-of-the-art in NLP, yet there are no common best practices for how to integrate these representations into clinical tasks. The purpose of this study, then, is to explore the space of possible options in utilizing these new models for clinical concept extraction, including comparing these to traditional word embedding methods (word2vec, GloVe, fastText). Both off-the-shelf, open-domain embeddings and pre-training clinical embeddings from MIMIC-III are evaluated. We explore a battery of embedding methods consisting of traditional word embeddings and contextual embeddings, and compare these on four concept extraction corpora: i2b2 2010, i2b2 2012, SemEval 2014, and SemEval 2015. We also analyze the impact of the pre-training time of a large language model like ELMo or BERT on the extraction performance. Finally, we present an intuitive way to understand the semantic information encoded by contextual embeddings. Contextual embeddings pre-trained on a large clinical corpus achieves new state-of-the-art performances across all concept extraction tasks. The best-performing model outperforms all state-of-the-art methods with respective F1-measures of 90.25, 93.18 (partial), 80.74, and 81.65. We demonstrate the potential of contextual embeddings through the state-of-the-art performance these methods achieve on clinical concept extraction. Additionally, we demonstrate contextual embeddings encode valuable semantic information not accounted for in traditional word representations. Modern deep transfer learning approaches have mainly focused on learning generic feature vectors from one task that are transferable to other tasks, such as word embeddings in language and pretrained convolutional features in vision. However, these approaches usually transfer unary features and largely ignore more structured graphical representations. This work explores the possibility of learning generic latent relational graphs that capture dependencies between pairs of data units (e.g., words or pixels) from large-scale unlabeled data and transferring the graphs to downstream tasks. Our proposed transfer learning framework improves performance on various tasks including question answering, natural language inference, sentiment analysis, and image classification. We also show that the learned graphs are generic enough to be transferred to different embeddings on which the graphs have not been trained (including GloVe embeddings, ELMo embeddings, and task-specific RNN hidden unit), or embedding-free units such as image pixels. Low-dimensional vector embeddings, computed using LSTMs or simpler techniques, are a popular approach for capturing the “meaning” of text and a form of unsupervised learning useful for downstream tasks. However, their power is not theoretically understood. The current paper derives formal understanding by looking at the subcase of linear embedding schemes. Using the theory of compressed sensing we show that representations combining the constituent word vectors are essentially information-preserving linear measurements of Bag-of-n-Grams (BonG) representations of text. This leads to a new theoretical result about LSTMs: low-dimensional embeddings derived from a low-memory LSTM are provably at least as powerful on classification tasks, up to small error, as a linear classifier over BonG vectors, a result that extensive empirical work has thus far been unable to show. Our experiments support these theoretical findings and establish strong, simple, and unsupervised baselines on standard benchmarks that in some cases are state of the art among word-level methods. We also show a surprising new property of word embeddings such as GloVe and word2vec: they form a good sensing matrix for text that is more efficient than random matrices, a standard sparse recovery tool, which may explain why they lead to better representations in practice. Many current natural language processing applications for social media rely on representation learning and utilize pre-trained word embeddings. There currently exist several publicly-available, pre-trained sets of word embeddings, but they contain few or no emoji representations even as emoji usage in social media has increased. In this paper we release emoji2vec, pre-trained embeddings for all Unicode emoji which are learned from their description in the Unicode emoji standard. The resulting emoji embeddings can be readily used in downstream social natural language processing applications alongside word2vec. We demonstrate, for the downstream task of sentiment analysis, that emoji embeddings learned from short descriptions outperforms a skip-gram model trained on a large collection of tweets, while avoiding the need for contexts in which emoji need to appear frequently in order to estimate a representation. Abstract Efficient distributed numerical word representation models (word embeddings) combined with modern machine learning algorithms have recently yielded considerable improvement on automatic document classification tasks. However, the effectiveness of such techniques has not been assessed for the hierarchical text classification (HTC) yet. This study investigates application of those models and algorithms on this specific problem by means of experimentation and analysis. We trained classification models with prominent machine learning algorithm implementations—fastText, XGBoost, SVM, and Keras’ CNN—and noticeable word embeddings generation methods—GloVe, word2vec, and fastText—with publicly available data and evaluated them with measures specifically appropriate for the hierarchical context. FastText achieved an lca F 1 of 0.893 on a single-labeled version of the RCV1 dataset. An analysis indicates that using word embeddings and its flavors is a very promising approach for HTC. We introduce a new language representation model called BERT, which stands for Bidirectional Encoder Representations from Transformers. Unlike recent language representation models, BERT is designed to pre-train deep bidirectional representations from unlabeled text by jointly conditioning on both left and right context in all layers. As a result, the pre-trained BERT model can be fine-tuned with just one additional output layer to create state-of-the-art models for a wide range of tasks, such as question answering and language inference, without substantial task-specific architecture modifications. BERT is conceptually simple and empirically powerful. It obtains new state-of-the-art results on eleven natural language processing tasks, including pushing the GLUE score to 80.5 (7.7 point absolute improvement), MultiNLI accuracy to 86.7 (4.6 absolute improvement), SQuAD v1.1 question answering Test F1 to 93.2 (1.5 point absolute improvement) and SQuAD v2.0 Test F1 to 83.1 (5.1 point absolute improvement). Abstract Documents in computer-readable form can be used to provide information about other documents, i.e. those they cite. To do this efficiently requires procedures for computer recognition of citing statements. This is not easy, especially for multi-sentence citing statements. Computer recognition procedures have been developed which are accurate to the following extent: 73 of the words in statements selected by computer procedures as being citing statements are words which are correctly attributable to the corresponding documents. The retrieval effectiveness of computer-recognized citing statements was tested in the following way. First, for eight retrieval requests in inorganiic chemistry, average recall by search of Chemical Abstracts Service indexing and Chemical Abstracts abstract text words was found to be 50 . Words from citing statements referring to the papers to be retrieved were then added to the index terms and abstract words as additional access points, and searching was repeated. Average recall increased to 70 . Only words from citing statements published within a year of the cited papers were used. The retrieval effect of citing statement words alone (published within a year) without index or abstract terms was the following: average recall was 40 . When just the words of the titles of the cited papers were added to those citing statement words, average recall increased to 50 . Vector-based word representations can help to improve a document classifier.The information of word2vec vectors and bags of words are very complementary.The combination of word2vec and BOW word representations obtains the best results.Word2vec is much more stable than bag of words models in cross-domain experiments. In this paper we show how a vector-based word representation obtained via word2vec can help to improve the results of a document classifier based on bags of words. Both models allow obtaining numeric representations from texts, but they do it very differently. The bag of words model can represent documents by means of widely dispersed vectors in which the indices are words or groups of words. word2vec generates word level representations building vectors that are much more compact, where indices implicitly contain information about the context of word occurrences. Bags of words are very effective for document classification and in our experiments no representation using only word2vec vectors is able to improve their results. However, this does not mean that the information provided by word2vec is not useful for the classification task. When this information is used in combination with the bags of words, the results are improved, showing its complementarity and its contribution to the task. We have also performed cross-domain experiments in which word2vec has shown much more stable behavior than bag of words models. Croatian is poorly resourced and highly inflected language from Slavic language family. Nowadays, research is focusing mostly on English. We created a new word analogy corpus based on the original English Word2vec word analogy corpus and added some of the specific linguistic aspects from Croatian language. Next, we created Croatian WordSim353 and RG65 corpora for a basic evaluation of word similarities. We compared created corpora on two popular word representation models, based on Word2Vec tool and fastText tool. Models has been trained on 1.37B tokens training data corpus and tested on a new robust Croatian word analogy corpus. Results show that models are able to create meaningful word representation. This research has shown that free word order and the higher morphological complexity of Croatian language influences the quality of resulting word embeddings. There is rising interest in vector-space word embeddings and their use in NLP, especially given recent methods for their fast estimation at very large scale. Nearly all this work, however, assumes a single vector per word type ignoring polysemy and thus jeopardizing their usefulness for downstream tasks. We present an extension to the Skip-gram model that efficiently learns multiple embeddings per word type. It differs from recent related work by jointly performing word sense discrimination and embedding learning, by non-parametrically estimating the number of senses per word type, and by its efficiency and scalability. We present new state-of-the-art results in the word similarity in context task and demonstrate its scalability by training with one machine on a corpus of nearly 1 billion tokens in less than 6 hours. Learning distributed word representations has been a popular method for various natural language processing applications such as word analogy and similarity, document classification and sentiment analysis. However, most existing word embedding models only exploit a shallow slide window as the context to predict the target word. Because the semantic of each word is also influenced by its global context, as the distributional models usually induced the word representations from the global co-occurrence matrix, the window-based models are insufficient to capture semantic knowledge. In this paper, we propose a novel hybrid model called mixed word embedding (MWE) based on the well-known word2vec toolbox. Specifically, the proposed MWE model combines the two variants of word2vec, i.e., SKIP-GRAM and CBOW, in a seamless way via sharing a common encoding structure, which is able to capture the syntax information of words more accurately. Furthermore, it incorporates a global text vector into the CBOW variant so as to capture more semantic information. Our MWE preserves the same time complexity as the SKIP-GRAM. To evaluate our MWE model efficiently and adaptively, we study our model on linguistic and application perspectives with both English and Chinese dataset. For linguistics, we conduct empirical studies on word analogies and similarities. The learned latent representations on both document classification and sentiment analysis are considered for application point of view of this work. The experimental results show that our MWE model is very competitive in all tasks as compared with the state-of-the-art word embedding models such as CBOW, SKIP-GRAM, and GloVe. Despite the recent success of neural networks in tasks involving natural language understanding (NLU) there has only been limited progress in some of the fundamental challenges of NLU, such as the disambiguation of the meaning and function of words in context. This work approaches this problem by incorporating contextual information into word representations prior to processing the task at hand. To this end we propose a general-purpose reading architecture that is employed prior to a task-specific NLU model. It is responsible for refining context-agnostic word representations with contextual information and lends itself to the introduction of additional, context-relevant information from external knowledge sources. We demonstrate that previously non-competitive models benefit dramatically from employing contextual representations, closing the gap between general-purpose reading architectures and the state-of-the-art performance obtained with fine-tuned, task-specific architectures. Apart from our empirical results we present a comprehensive analysis of the computed representations which gives insights into the kind of information added during the refinement process. There is a lot of research interest in encoding variable length sentences into fixed length vectors, in a way that preserves the sentence meanings. Two common methods include representations based on averaging word vectors, and representations based on the hidden states of recurrent neural networks such as LSTMs. The sentence vectors are used as features for subsequent machine learning tasks or for pre-training in the context of deep learning. However, not much is known about the properties that are encoded in these sentence representations and about the language information they capture. We propose a framework that facilitates better understanding of the encoded representations. We define prediction tasks around isolated aspects of sentence structure (namely sentence length, word content, and word order), and score representations by the ability to train a classifier to solve each prediction task when using the representation as input. We demonstrate the potential contribution of the approach by analyzing different sentence representation mechanisms. The analysis sheds light on the relative strengths of different sentence embedding methods with respect to these low level prediction tasks, and on the effect of the encoded vector's dimensionality on the resulting representations. We introduce a new type of deep contextualized word representation that models both (1) complex characteristics of word use (e.g., syntax and semantics), and (2) how these uses vary across linguistic contexts (i.e., to model polysemy). Our word vectors are learned functions of the internal states of a deep bidirectional language model (biLM), which is pre-trained on a large text corpus. We show that these representations can be easily added to existing models and significantly improve the state of the art across six challenging NLP problems, including question answering, textual entailment and sentiment analysis. We also present an analysis showing that exposing the deep internals of the pre-trained network is crucial, allowing downstream models to mix different types of semi-supervision signals. Distributed word representations have a rising interest in NLP community. Most of existing models assume only one vector for each individual word, which ignores polysemy and thus degrades their effectiveness for downstream tasks. To address this problem, some recent work adopts multiprototype models to learn multiple embeddings per word type. In this paper, we distinguish the different senses of each word by their latent topics. We present a general architecture to learn the word and topic embeddings efficiently, which is an extension to the Skip-Gram model and can model the interaction between words and topics simultaneously. The experiments on the word similarity and text classification tasks show our model outperforms state-of-the-art methods. Words in natural language follow a Zipfian distribution whereby some words are frequent but most are rare. Learning representations for words in the long tail'' of this distribution requires enormous amounts of data. Representations of rare words trained directly on end tasks are usually poor, requiring us to pre-train embeddings on external data, or treat all rare words as out-of-vocabulary words with a unique representation. We provide a method for predicting embeddings of rare words on the fly from small amounts of auxiliary data with a network trained end-to-end for the downstream task. We show that this improves results against baselines where embeddings are trained on the end task for reading comprehension, recognizing textual entailment and language modeling. We address the task of computing vector space representations for the meaning of word occurrences, which can vary widely according to context. This task is a crucial step towards a robust, vector-based compositional account of sentence meaning. We argue that existing models for this task do not take syntactic structure sufficiently into account. We present a novel structured vector space model that addresses these issues by incorporating the selectional preferences for words' argument positions. This makes it possible to integrate syntax into the computation of word meaning in context. In addition, the model performs at and above the state of the art for modeling the contextual adequacy of paraphrases. A citing sentence is one that appears in a scientific article and cites previous work. Citing sentences have been studied and used in many applications. For example, they have been used in scientific paper summarization, automatic survey generation, paraphrase identification, and citation function classification. Citing sentences that cite multiple papers are common in scientific writing. This observation should be taken into consideration when using citing sentences in applications. For instance, when a citing sentence is used in a summary of a scientific paper, only the fragments of the sentence that are relevant to the summarized paper should be included in the summary. In this paper, we present and compare three different approaches for identifying the fragments of a citing sentence that are related to a given target reference. Our methods are: word classification, sequence labeling, and segment classification. Our experiments show that segment classification achieves the best results. We present a novel word level vector representation based on symmetric patterns (SPs). For this aim we automatically acquire SPs (e.g., “X and Y”) from a large corpus of plain text, and generate vectors where each coordinate represents the cooccurrence in SPs of the represented word with another word of the vocabulary. Our representation has three advantages over existing alternatives: First, being based on symmetric word relationships, it is highly suitable for word similarity prediction. Particularly, on the SimLex999 word similarity dataset, our model achieves a Spearman’s score of 0.517, compared to 0.462 of the state-of-the-art word2vec model. Interestingly, our model performs exceptionally well on verbs, outperforming stateof-the-art baselines by 20.2‐41.5 . Second, pattern features can be adapted to the needs of a target NLP application. For example, we show that we can easily control whether the embeddings derived from SPs deem antonym pairs (e.g. (big,small)) as similar or dissimilar, an important distinction for tasks such as word classification and sentiment analysis. Finally, we show that a simple combination of the word similarity scores generated by our method and by word2vec results in a superior predictive power over that of each individual model, scoring as high as 0.563 in Spearman’s on SimLex999. This emphasizes the differences between the signals captured by each of the models. In this paper we propose a general framework for learning distributed representations of attributes: characteristics of text whose representations can be jointly learned with word embeddings. Attributes can correspond to a wide variety of concepts, such as document indicators (to learn sentence vectors), language indicators (to learn distributed language representations), meta-data and side information (such as the age, gender and industry of a blogger) or representations of authors. We describe a third-order model where word context and attribute vectors interact multiplicatively to predict the next word in a sequence. This leads to the notion of conditional word similarity: how meanings of words change when conditioned on different attributes. We perform several experimental tasks including sentiment classification, cross-lingual document classification, and blog authorship attribution. We also qualitatively evaluate conditional word neighbours and attribute-conditioned text generation.