Research papers and code for "Matthew E. Peters":
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.

* NAACL 2018. Originally posted to openreview 27 Oct 2017. v2 updated for NAACL camera ready
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Contextual word representations derived from pre-trained bidirectional language models (biLMs) have recently been shown to provide significant improvements to the state of the art for a wide range of NLP tasks. However, many questions remain as to how and why these models are so effective. In this paper, we present a detailed empirical study of how the choice of neural architecture (e.g. LSTM, CNN, or self attention) influences both end task accuracy and qualitative properties of the representations that are learned. We show there is a tradeoff between speed and accuracy, but all architectures learn high quality contextual representations that outperform word embeddings for four challenging NLP tasks. Additionally, all architectures learn representations that vary with network depth, from exclusively morphological based at the word embedding layer through local syntax based in the lower contextual layers to longer range semantics such coreference at the upper layers. Together, these results suggest that unsupervised biLMs, independent of architecture, are learning much more about the structure of language than previously appreciated.

* EMNLP 2018
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Contextual word representations derived from large-scale neural language models are successful across a diverse set of NLP tasks, suggesting that they encode useful and transferable features of language. To shed light on the linguistic knowledge they capture, we study the representations produced by several recent pretrained contextualizers (variants of ELMo, the OpenAI transformer language model, and BERT) with a suite of sixteen diverse probing tasks. We find that linear models trained on top of frozen contextual representations are competitive with state-of-the-art task-specific models in many cases, but fail on tasks requiring fine-grained linguistic knowledge (e.g., conjunct identification). To investigate the transferability of contextual word representations, we quantify differences in the transferability of individual layers within contextualizers, especially between recurrent neural networks (RNNs) and transformers. For instance, higher layers of RNNs are more task-specific, while transformer layers do not exhibit the same monotonic trend. In addition, to better understand what makes contextual word representations transferable, we compare language model pretraining with eleven supervised pretraining tasks. For any given task, pretraining on a closely related task yields better performance than language model pretraining (which is better on average) when the pretraining dataset is fixed. However, language model pretraining on more data gives the best results.

* 22 pages, 4 figures; to appear at NAACL 2019. Converted appendices to two-column format for camera-ready
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Pre-trained word embeddings learned from unlabeled text have become a standard component of neural network architectures for NLP tasks. However, in most cases, the recurrent network that operates on word-level representations to produce context sensitive representations is trained on relatively little labeled data. In this paper, we demonstrate a general semi-supervised approach for adding pre- trained context embeddings from bidirectional language models to NLP systems and apply it to sequence labeling tasks. We evaluate our model on two standard datasets for named entity recognition (NER) and chunking, and in both cases achieve state of the art results, surpassing previous systems that use other forms of transfer or joint learning with additional labeled data and task specific gazetteers.

* To appear in ACL 2017
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Modeling human language requires the ability to not only generate fluent text but also encode factual knowledge. However, traditional language models are only capable of remembering facts seen at training time, and often have difficulty recalling them. To address this, we introduce the knowledge graph language model (KGLM), a neural language model with mechanisms for selecting and copying facts from a knowledge graph that are relevant to the context. These mechanisms enable the model to render information it has never seen before, as well as generate out-of-vocabulary tokens. We also introduce the Linked WikiText-2 dataset, a corpus of annotated text aligned to the Wikidata knowledge graph whose contents (roughly) match the popular WikiText-2 benchmark. In experiments, we demonstrate that the KGLM achieves significantly better performance than a strong baseline language model. We additionally compare different language model's ability to complete sentences requiring factual knowledge, showing that the KGLM outperforms even very large language models in generating facts.

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Background: The trend towards large-scale studies including population imaging poses new challenges in terms of quality control (QC). This is a particular issue when automatic processing tools, e.g. image segmentation methods, are employed to derive quantitative measures or biomarkers for later analyses. Manual inspection and visual QC of each segmentation isn't feasible at large scale. However, it's important to be able to automatically detect when a segmentation method fails so as to avoid inclusion of wrong measurements into subsequent analyses which could lead to incorrect conclusions. Methods: To overcome this challenge, we explore an approach for predicting segmentation quality based on Reverse Classification Accuracy, which enables us to discriminate between successful and failed segmentations on a per-cases basis. We validate this approach on a new, large-scale manually-annotated set of 4,800 cardiac magnetic resonance scans. We then apply our method to a large cohort of 7,250 cardiac MRI on which we have performed manual QC. Results: We report results used for predicting segmentation quality metrics including Dice Similarity Coefficient (DSC) and surface-distance measures. As initial validation, we present data for 400 scans demonstrating 99% accuracy for classifying low and high quality segmentations using predicted DSC scores. As further validation we show high correlation between real and predicted scores and 95% classification accuracy on 4,800 scans for which manual segmentations were available. We mimic real-world application of the method on 7,250 cardiac MRI where we show good agreement between predicted quality metrics and manual visual QC scores. Conclusions: We show that RCA has the potential for accurate and fully automatic segmentation QC on a per-case basis in the context of large-scale population imaging as in the UK Biobank Imaging Study.

* 14 pages, 7 figures, Journal of Cardiovascular Magnetic Resonance
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Cardiovascular magnetic resonance (CMR) imaging is a standard imaging modality for assessing cardiovascular diseases (CVDs), the leading cause of death globally. CMR enables accurate quantification of the cardiac chamber volume, ejection fraction and myocardial mass, providing information for diagnosis and monitoring of CVDs. However, for years, clinicians have been relying on manual approaches for CMR image analysis, which is time consuming and prone to subjective errors. It is a major clinical challenge to automatically derive quantitative and clinically relevant information from CMR images. Deep neural networks have shown a great potential in image pattern recognition and segmentation for a variety of tasks. Here we demonstrate an automated analysis method for CMR images, which is based on a fully convolutional network (FCN). The network is trained and evaluated on a large-scale dataset from the UK Biobank, consisting of 4,875 subjects with 93,500 pixelwise annotated images. The performance of the method has been evaluated using a number of technical metrics, including the Dice metric, mean contour distance and Hausdorff distance, as well as clinically relevant measures, including left ventricle (LV) end-diastolic volume (LVEDV) and end-systolic volume (LVESV), LV mass (LVM); right ventricle (RV) end-diastolic volume (RVEDV) and end-systolic volume (RVESV). By combining FCN with a large-scale annotated dataset, the proposed automated method achieves a high performance on par with human experts in segmenting the LV and RV on short-axis CMR images and the left atrium (LA) and right atrium (RA) on long-axis CMR images.

* Accepted for publication by Journal of Cardiovascular Magnetic Resonance
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This paper describes AllenNLP, a platform for research on deep learning methods in natural language understanding. AllenNLP is designed to support researchers who want to build novel language understanding models quickly and easily. It is built on top of PyTorch, allowing for dynamic computation graphs, and provides (1) a flexible data API that handles intelligent batching and padding, (2) high-level abstractions for common operations in working with text, and (3) a modular and extensible experiment framework that makes doing good science easy. It also includes reference implementations of high quality approaches for both core semantic problems (e.g. semantic role labeling (Palmer et al., 2005)) and language understanding applications (e.g. machine comprehension (Rajpurkar et al., 2016)). AllenNLP is an ongoing open-source effort maintained by engineers and researchers at the Allen Institute for Artificial Intelligence.

* Describes the initial version of AllenNLP. Many features and models have been added since the first release. This is the paper to cite if you use AllenNLP in your research. Updated 5/31/2018 with version accepted to the NLP OSS workshop help at ACL 2018
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We describe a deployed scalable system for organizing published scientific literature into a heterogeneous graph to facilitate algorithmic manipulation and discovery. The resulting literature graph consists of more than 280M nodes, representing papers, authors, entities and various interactions between them (e.g., authorships, citations, entity mentions). We reduce literature graph construction into familiar NLP tasks (e.g., entity extraction and linking), point out research challenges due to differences from standard formulations of these tasks, and report empirical results for each task. The methods described in this paper are used to enable semantic features in www.semanticscholar.org

* To appear in NAACL 2018 industry track
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In the recent years, convolutional neural networks have transformed the field of medical image analysis due to their capacity to learn discriminative image features for a variety of classification and regression tasks. However, successfully learning these features requires a large amount of manually annotated data, which is expensive to acquire and limited by the available resources of expert image analysts. Therefore, unsupervised, weakly-supervised and self-supervised feature learning techniques receive a lot of attention, which aim to utilise the vast amount of available data, while at the same time avoid or substantially reduce the effort of manual annotation. In this paper, we propose a novel way for training a cardiac MR image segmentation network, in which features are learnt in a self-supervised manner by predicting anatomical positions. The anatomical positions serve as a supervisory signal and do not require extra manual annotation. We demonstrate that this seemingly simple task provides a strong signal for feature learning and with self-supervised learning, we achieve a high segmentation accuracy that is better than or comparable to a U-net trained from scratch, especially at a small data setting. When only five annotated subjects are available, the proposed method improves the mean Dice metric from 0.811 to 0.852 for short-axis image segmentation, compared to the baseline U-net.

* Accepted by MICCAI 2019
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