scholarly journals Indonesian Sentence Boundary Detection using Deep Learning Approaches

2021 ◽  
Vol 4 (1) ◽  
pp. 38
Author(s):  
Joan Santoso ◽  
Esther Irawati Setiawan ◽  
Christian Nathaniel Purwanto ◽  
Fachrul Kurniawan
Keyword(s):  
Deep Learning ◽  
Language Processing ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Learning Approaches ◽  
Named Entity ◽  
Sequence Labeling ◽  
Part Of Speech ◽  
Sentence Patterns ◽  
Sentence Boundary

Detecting the sentence boundary is one of the crucial pre-processing steps in natural language processing. It can define the boundary of a sentence since the border between a sentence, and another sentence might be ambiguous. Because there are multiple separators and dynamic sentence patterns, using a full stop at the end of a sentence is sometimes inappropriate. This research uses a deep learning approach to split each sentence from an Indonesian news document. Hence, there is no need to define any handcrafted features or rules. In Part of Speech Tagging and Named Entity Recognition, we use sequence labeling to determine sentence boundaries. Two labels will be used, namely O as a non-boundary token and E as the last token marker in the sentence. To do this, we used the Bi-LSTM approach, which has been widely used in sequence labeling. We have proved that our approach works for Indonesian text using pre-trained embedding in Indonesian, as in previous studies. This study achieved an F1-Score value of 98.49 percent. When compared to previous studies, the achieved performance represents a significant increase in outcomes..

scholarly journals Learning Task-Specific Representation for Novel Words in Sequence Labeling

2019 ◽  
Author(s):  
Minlong Peng ◽  
Qi Zhang ◽  
Xiaoyu Xing ◽  
Tao Gui ◽  
Jinlan Fu ◽  
...  
Keyword(s):  
Empirical Studies ◽  
Named Entity Recognition ◽  
Learning Task ◽  
Training Data ◽  
Entity Recognition ◽  
Named Entity ◽  
Part Of Speech Tagging ◽  
Sequence Labeling ◽  
Part Of Speech ◽  
Word Representation

Word representation is a key component in neural-network-based sequence labeling systems. However, representations of unseen or rare words trained on the end task are usually poor for appreciable performance. This is commonly referred to as the out-of-vocabulary (OOV) problem. In this work, we address the OOV problem in sequence labeling using only training data of the task. To this end, we propose a novel method to predict representations for OOV words from their surface-forms (e.g., character sequence) and contexts. The method is specifically designed to avoid the error propagation problem suffered by existing approaches in the same paradigm. To evaluate its effectiveness, we performed extensive empirical studies on four part-of-speech tagging (POS) tasks and four named entity recognition (NER) tasks. Experimental results show that the proposed method can achieve better or competitive performance on the OOV problem compared with existing state-of-the-art methods.

Advances in Computational Linguistics and Text Processing Frameworks

2020 ◽  
pp. 217-244
Author(s):  
Ayush Srivastav ◽  
Hera Khan ◽  
Amit Kumar Mishra
Keyword(s):  
Neural Networks ◽  
Natural Language Processing ◽  
Natural Language ◽  
Computational Linguistics ◽  
Language Processing ◽  
Text Processing ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Named Entity ◽  
Part Of Speech

The chapter provides an eloquent account of the major methodologies and advances in the field of Natural Language Processing. The most popular models that have been used over time for the task of Natural Language Processing have been discussed along with their applications in their specific tasks. The chapter begins with the fundamental concepts of regex and tokenization. It provides an insight to text preprocessing and its methodologies such as Stemming and Lemmatization, Stop Word Removal, followed by Part-of-Speech tagging and Named Entity Recognition. Further, this chapter elaborates the concept of Word Embedding, its various types, and some common frameworks such as word2vec, GloVe, and fastText. A brief description of classification algorithms used in Natural Language Processing is provided next, followed by Neural Networks and its advanced forms such as Recursive Neural Networks and Seq2seq models that are used in Computational Linguistics. A brief description of chatbots and Memory Networks concludes the chapter.

scholarly journals An Arabic Dataset for Disease Named Entity Recognition with Multi-Annotation Schemes

Data ◽  
2020 ◽  
Vol 5 (3) ◽  
pp. 60
Author(s):  
Nasser Alshammari ◽  
Saad Alanazi
Keyword(s):  
Language Processing ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Definite Article ◽  
Linguistic Features ◽  
Annotation Scheme ◽  
Named Entity ◽  
Part Of Speech ◽  
Annotation Process ◽  
Arabic Natural Language Processing

This article outlines a novel data descriptor that provides the Arabic natural language processing community with a dataset dedicated to named entity recognition tasks for diseases. The dataset comprises more than 60 thousand words, which were annotated manually by two independent annotators using the inside–outside (IO) annotation scheme. To ensure the reliability of the annotation process, the inter-annotator agreements rate was calculated, and it scored 95.14%. Due to the lack of research efforts in the literature dedicated to studying Arabic multi-annotation schemes, a distinguishing and a novel aspect of this dataset is the inclusion of six more annotation schemes that will bridge the gap by allowing researchers to explore and compare the effects of these schemes on the performance of the Arabic named entity recognizers. These annotation schemes are IOE, IOB, BIES, IOBES, IE, and BI. Additionally, five linguistic features, including part-of-speech tags, stopwords, gazetteers, lexical markers, and the presence of the definite article, are provided for each record in the dataset.

scholarly journals Biomedical named entity recognition using deep neural networks with contextual information

2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Hyejin Cho ◽  
Hyunju Lee
Keyword(s):  
Deep Learning ◽  
Short Term Memory ◽  
Contextual Information ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Learning Approaches ◽  
Short Term ◽  
Term Memory ◽  
Named Entity ◽  
Long Short Term Memory

Abstract Background In biomedical text mining, named entity recognition (NER) is an important task used to extract information from biomedical articles. Previously proposed methods for NER are dictionary- or rule-based methods and machine learning approaches. However, these traditional approaches are heavily reliant on large-scale dictionaries, target-specific rules, or well-constructed corpora. These methods to NER have been superseded by the deep learning-based approach that is independent of hand-crafted features. However, although such methods of NER employ additional conditional random fields (CRF) to capture important correlations between neighboring labels, they often do not incorporate all the contextual information from text into the deep learning layers. Results We propose herein an NER system for biomedical entities by incorporating n-grams with bi-directional long short-term memory (BiLSTM) and CRF; this system is referred to as a contextual long short-term memory networks with CRF (CLSTM). We assess the CLSTM model on three corpora: the disease corpus of the National Center for Biotechnology Information (NCBI), the BioCreative II Gene Mention corpus (GM), and the BioCreative V Chemical Disease Relation corpus (CDR). Our framework was compared with several deep learning approaches, such as BiLSTM, BiLSTM with CRF, GRAM-CNN, and BERT. On the NCBI corpus, our model recorded an F-score of 85.68% for the NER of diseases, showing an improvement of 1.50% over previous methods. Moreover, although BERT used transfer learning by incorporating more than 2.5 billion words, our system showed similar performance with BERT with an F-scores of 81.44% for gene NER on the GM corpus and a outperformed F-score of 86.44% for the NER of chemicals and diseases on the CDR corpus. We conclude that our method significantly improves performance on biomedical NER tasks. Conclusion The proposed approach is robust in recognizing biological entities in text.

Research on Chinese Named Entity Recognition Based on Ontology

2012 ◽  
Vol 195-196 ◽  
pp. 1180-1185
Author(s):  
Wei Li Chang ◽  
Fang Luo ◽  
Ji Lai Qian
Keyword(s):  
Language Processing ◽  
Conditional Random Fields ◽  
Critical Role ◽  
Named Entity Recognition ◽  
Recall Rate ◽  
Entity Recognition ◽  
Named Entity ◽  
Part Of Speech ◽  
Speech Features ◽  
Precision Rate

As a critical role in many Natural Language Processing (NLP) applications, such as Information Extraction, Machine Translation etc, Chinese Named Entity Recognition (NER) remains a challenging task because of its characteristics. This paper proposes a method of Chinese NER, which combining Conditional Random Fields (CRFs) model with domain ontology as a semantic feature besides word and part of speech features. Experiments were made to compare the two kinds of feature templates, and the precision rate and recall rate of Chinese NER rose to 90.86% and 88.23%, which showed remarkable performance of the proposed approach. Combination of ontology and CRFs method increased effectively the precision and recall of Chinese NER.

scholarly journals Deep learning in clinical natural language processing: a methodical review

2019 ◽  
Vol 27 (3) ◽  
pp. 457-470 ◽  
Author(s):  
Stephen Wu ◽  
Kirk Roberts ◽  
Surabhi Datta ◽  
Jingcheng Du ◽  
Zongcheng Ji ◽  
...  
Keyword(s):  
Neural Networks ◽  
Deep Learning ◽  
Natural Language Processing ◽  
Natural Language ◽  
Computational Linguistics ◽  
Language Processing ◽  
Recurrent Neural Networks ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Named Entity

Abstract Objective This article methodically reviews the literature on deep learning (DL) for natural language processing (NLP) in the clinical domain, providing quantitative analysis to answer 3 research questions concerning methods, scope, and context of current research. Materials and Methods We searched MEDLINE, EMBASE, Scopus, the Association for Computing Machinery Digital Library, and the Association for Computational Linguistics Anthology for articles using DL-based approaches to NLP problems in electronic health records. After screening 1,737 articles, we collected data on 25 variables across 212 papers. Results DL in clinical NLP publications more than doubled each year, through 2018. Recurrent neural networks (60.8%) and word2vec embeddings (74.1%) were the most popular methods; the information extraction tasks of text classification, named entity recognition, and relation extraction were dominant (89.2%). However, there was a “long tail” of other methods and specific tasks. Most contributions were methodological variants or applications, but 20.8% were new methods of some kind. The earliest adopters were in the NLP community, but the medical informatics community was the most prolific. Discussion Our analysis shows growing acceptance of deep learning as a baseline for NLP research, and of DL-based NLP in the medical community. A number of common associations were substantiated (eg, the preference of recurrent neural networks for sequence-labeling named entity recognition), while others were surprisingly nuanced (eg, the scarcity of French language clinical NLP with deep learning). Conclusion Deep learning has not yet fully penetrated clinical NLP and is growing rapidly. This review highlighted both the popular and unique trends in this active field.

scholarly journals A hybrid deep learning framework for bacterial named entity recognition with domain features

2019 ◽  
Vol 20 (S16) ◽  
Author(s):  
Xusheng Li ◽  
Chengcheng Fu ◽  
Ran Zhong ◽  
Duo Zhong ◽  
Tingting He ◽  
...  
Keyword(s):  
Deep Learning ◽  
Short Term Memory ◽  
Named Entity Recognition ◽  
Biomedical Literature ◽  
Entity Recognition ◽  
Named Entity ◽  
Learning Framework ◽  
Part Of Speech ◽  
Interaction Extraction ◽  
Memory Network

Abstract Background Microbes have been shown to play a crucial role in various ecosystems. Many human diseases have been proved to be associated with bacteria, so it is essential to extract the interaction between bacteria for medical research and application. At the same time, many bacterial interactions with certain experimental evidences have been reported in biomedical literature. Integrating this knowledge into a database or knowledge graph could accelerate the progress of biomedical research. A crucial and necessary step in interaction extraction (IE) is named entity recognition (NER). However, due to the specificity of bacterial naming, there are still challenges in bacterial named entity recognition. Results In this paper, we propose a novel method for bacterial named entity recognition, which integrates domain features into a deep learning framework combining bidirectional long short-term memory network and convolutional neural network. When domain features are not added, F1-measure of the model achieves 89.14%. After part-of-speech (POS) features and dictionary features are added, F1-measure of the model achieves 89.7%. Hence, our model achieves an advanced performance in bacterial NER with the domain features. Conclusions We propose an efficient method for bacterial named entity recognition which combines domain features and deep learning models. Compared with the previous methods, the effect of our model has been improved. At the same time, the process of complex manual extraction and feature design are significantly reduced.

scholarly journals A Comparison of Architectures and Pretraining Methods for Contextualized Multilingual Word Embeddings

2020 ◽  
Vol 34 (05) ◽  
pp. 9090-9097
Author(s):  
Niels Van der Heijden ◽  
Samira Abnar ◽  
Ekaterina Shutova
Keyword(s):  
Language Processing ◽  
State Of The Art ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Word Embeddings ◽  
Named Entity ◽  
Pos Tagging ◽  
Part Of Speech ◽  
Joint Training ◽  
Comprehensive Comparison

The lack of annotated data in many languages is a well-known challenge within the field of multilingual natural language processing (NLP). Therefore, many recent studies focus on zero-shot transfer learning and joint training across languages to overcome data scarcity for low-resource languages. In this work we (i) perform a comprehensive comparison of state-of-the-art multilingual word and sentence encoders on the tasks of named entity recognition (NER) and part of speech (POS) tagging; and (ii) propose a new method for creating multilingual contextualized word embeddings, compare it to multiple baselines and show that it performs at or above state-of-the-art level in zero-shot transfer settings. Finally, we show that our method allows for better knowledge sharing across languages in a joint training setting.

scholarly journals Deep learning with language models improves named entity recognition for PharmaCoNER

2021 ◽  
Vol 22 (S1) ◽  
Author(s):  
Cong Sun ◽  
Zhihao Yang ◽  
Lei Wang ◽  
Yin Zhang ◽  
Hongfei Lin ◽  
...  
Keyword(s):  
Deep Learning ◽  
Language Processing ◽  
Domain Knowledge ◽  
Named Entity Recognition ◽  
Model Performance ◽  
Relation Extraction ◽  
Entity Recognition ◽  
Language Models ◽  
Named Entity ◽  
Biomedical Texts

Abstract Background The recognition of pharmacological substances, compounds and proteins is essential for biomedical relation extraction, knowledge graph construction, drug discovery, as well as medical question answering. Although considerable efforts have been made to recognize biomedical entities in English texts, to date, only few limited attempts were made to recognize them from biomedical texts in other languages. PharmaCoNER is a named entity recognition challenge to recognize pharmacological entities from Spanish texts. Because there are currently abundant resources in the field of natural language processing, how to leverage these resources to the PharmaCoNER challenge is a meaningful study. Methods Inspired by the success of deep learning with language models, we compare and explore various representative BERT models to promote the development of the PharmaCoNER task. Results The experimental results show that deep learning with language models can effectively improve model performance on the PharmaCoNER dataset. Our method achieves state-of-the-art performance on the PharmaCoNER dataset, with a max F1-score of 92.01%. Conclusion For the BERT models on the PharmaCoNER dataset, biomedical domain knowledge has a greater impact on model performance than the native language (i.e., Spanish). The BERT models can obtain competitive performance by using WordPiece to alleviate the out of vocabulary limitation. The performance on the BERT model can be further improved by constructing a specific vocabulary based on domain knowledge. Moreover, the character case also has a certain impact on model performance.

scholarly journals Towards the Construction of a Gold Standard Biomedical Corpus for the Romanian Language

Data ◽  
2018 ◽  
Vol 3 (4) ◽  
pp. 53 ◽  
Author(s):  
Maria Mitrofan ◽  
Verginica Barbu Mititelu ◽  
Grigorina Mitrofan
Keyword(s):  
Language Processing ◽  
Gold Standard ◽  
Named Entity Recognition ◽  
Entity Recognition ◽  
Language Resources ◽  
Named Entities ◽  
Named Entity ◽  
Pos Tagging ◽  
Part Of Speech ◽  
Biomedical Named Entity Recognition

Gold standard corpora (GSCs) are essential for the supervised training and evaluation of systems that perform natural language processing (NLP) tasks. Currently, most of the resources used in biomedical NLP tasks are mainly in English. Little effort has been reported for other languages including Romanian and, thus, access to such language resources is poor. In this paper, we present the construction of the first morphologically and terminologically annotated biomedical corpus of the Romanian language (MoNERo), meant to serve as a gold standard for biomedical part-of-speech (POS) tagging and biomedical named entity recognition (bioNER). It contains 14,012 tokens distributed in three medical subdomains: cardiology, diabetes and endocrinology, extracted from books, journals and blogposts. In order to automatically annotate the corpus with POS tags, we used a Romanian tag set which has 715 labels, while diseases, anatomy, procedures and chemicals and drugs labels were manually annotated for bioNER with a Cohen Kappa coefficient of 92.8% and revealed the occurrence of 1877 medical named entities. The automatic annotation of the corpus has been manually checked. The corpus is publicly available and can be used to facilitate the development of NLP algorithms for the Romanian language.

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