ymoslem/acl-abstracts huggingface dataset:
Dedicated Language Resources for Interdisciplinary Research on Multiword Expressions: Best Thing since Sliced Bread (2020)

Multiword expressions such as idioms (beat about the bush), collocations (plastic surgery) and lexical bundles (in the middle of) are challenging for disciplines like Natural Language Processing (NLP), psycholinguistics and second language acquisition, , due to their more or less fixed character. Idiomatic expressions are especially problematic, because they convey a figurative meaning that cannot always be inferred from the literal meanings of the component words. Researchers acknowledge that important properties that characterize idioms such as frequency of exposure, familiarity, transparency, and imageability, should be taken into account in research, but these are typically properties that rely on subjective judgments. This is probably one of the reasons why many studies that investigated idiomatic expressions collected limited information about idiom properties for very small numbers of idioms only. In this paper we report on cross-boundary work aimed at developing a set of tools and language resources that are considered crucial for this kind of multifaceted research. We discuss the results of our research and suggest possible avenues for future research
Detecting Multiword Expression Type Helps Lexical Complexity Assessment (2020)

Multiword expressions (MWEs) represent lexemes that should be treated as single lexical units due to their idiosyncratic nature. Multiple NLP applications have been shown to benefit from MWE identification, however the research on lexical complexity of MWEs is still an under-explored area. In this work, we re-annotate the Complex Word Identification Shared Task 2018 dataset of Yimam et al. (2017), which provides complexity scores for a range of lexemes, with the types of MWEs. We release the MWE-annotated dataset with this paper, and we believe this dataset represents a valuable resource for the text simplification community. In addition, we investigate which types of expressions are most problematic for native and non-native readers. Finally, we show that a lexical complexity assessment system benefits from the information about MWE types.
Introducing RONEC - the Romanian Named Entity Corpus (2020)

We present RONEC - the Named Entity Corpus for the Romanian language. The corpus contains over 26000 entities in {\textasciitilde}5000 annotated sentences, belonging to 16 distinct classes. The sentences have been extracted from a copy-right free newspaper, covering several styles. This corpus represents the first initiative in the Romanian language space specifically targeted for named entity recognition. It is available in BRAT and CoNLL-U Plus formats, and it is free to use and extend at github.com/dumitrescustefan/ronec
A Semi-supervised Approach for De-identification of Swedish Clinical Text (2020)

An abundance of electronic health records (EHR) is produced every day within healthcare. The records possess valuable information for research and future improvement of healthcare. Multiple efforts have been done to protect the integrity of patients while making electronic health records usable for research by removing personally identifiable information in patient records. Supervised machine learning approaches for de-identification of EHRs need annotated data for training, annotations that are costly in time and human resources. The annotation costs for clinical text is even more costly as the process must be carried out in a protected environment with a limited number of annotators who must have signed confidentiality agreements. In this paper is therefore, a semi-supervised method proposed, for automatically creating high-quality training data. The study shows that the method can be used to improve recall from 84.75{\%} to 89.20{\%} without sacrificing precision to the same extent, dropping from 95.73{\%} to 94.20{\%}. The model`s recall is arguably more important for de-identification than precision.
A Chinese Corpus for Fine-grained Entity Typing (2020)

Fine-grained entity typing is a challenging task with wide applications. However, most existing datasets for this task are in English. In this paper, we introduce a corpus for Chinese fine-grained entity typing that contains 4,800 mentions manually labeled through crowdsourcing. Each mention is annotated with free-form entity types. To make our dataset useful in more possible scenarios, we also categorize all the fine-grained types into 10 general types. Finally, we conduct experiments with some neural models whose structures are typical in fine-grained entity typing and show how well they perform on our dataset. We also show the possibility of improving Chinese fine-grained entity typing through cross-lingual transfer learning.
Czech Historical Named Entity Corpus v 1.0 (2020)

As the number of digitized archival documents increases very rapidly, named entity recognition (NER) in historical documents has become very important for information extraction and data mining. For this task an annotated corpus is needed, which has up to now been missing for Czech. In this paper we present a new annotated data collection for historical NER, composed of Czech historical newspapers. This corpus is freely available for research purposes. For this corpus, we have defined relevant domain-specific named entity types and created an annotation manual for corpus labelling. We further conducted some experiments on this corpus using recurrent neural networks. We experimented with randomly initialized embeddings and static and dynamic fastText word embeddings. We achieved 0.73 F1 score with a bidirectional LSTM model using static fastText embeddings.
CodE Alltag 2.0 --- A Pseudonymized German-Language Email Corpus (2020)

The vast amount of social communication distributed over various electronic media channels (tweets, blogs, emails, etc.), so-called user-generated content (UGC), creates entirely new opportunities for today`s NLP research. Yet, data privacy concerns implied by the unauthorized use of these text streams as a data resource are often neglected. In an attempt to reconciliate the diverging needs of unconstrained raw data use and preservation of data privacy in digital communication, we here investigate the automatic recognition of privacy-sensitive stretches of text in UGC and provide an algorithmic solution for the protection of personal data via pseudonymization. Our focus is directed at the de-identification of emails where personally identifying information does not only refer to the sender but also to those people, locations, dates, and other identifiers mentioned in greetings, boilerplates and the content-carrying body of emails. We evaluate several de-identification procedures and systems on two hitherto non-anonymized German-language email corpora (CodE AlltagS+d and CodE AlltagXL), and generate fully pseudonymized versions for both (CodE Alltag 2.0) in which personally identifying information of all social actors addressed in these mails has been camouflaged (to the greatest extent possible).
A Dataset of German Legal Documents for Named Entity Recognition (2020)

We describe a dataset developed for Named Entity Recognition in German federal court decisions. It consists of approx. 67,000 sentences with over 2 million tokens. The resource contains 54,000 manually annotated entities, mapped to 19 fine-grained semantic classes: person, judge, lawyer, country, city, street, landscape, organization, company, institution, court, brand, law, ordinance, European legal norm, regulation, contract, court decision, and legal literature. The legal documents were, furthermore, automatically annotated with more than 35,000 TimeML-based time expressions. The dataset, which is available under a CC-BY 4.0 license in the CoNNL-2002 format, was developed for training an NER service for German legal documents in the EU project Lynx.
Sensitive Data Detection and Classification in Spanish Clinical Text: Experiments with BERT (2020)

Massive digital data processing provides a wide range of opportunities and benefits, but at the cost of endangering personal data privacy. Anonymisation consists in removing or replacing sensitive information from data, enabling its exploitation for different purposes while preserving the privacy of individuals. Over the years, a lot of automatic anonymisation systems have been proposed; however, depending on the type of data, the target language or the availability of training documents, the task remains challenging still. The emergence of novel deep-learning models during the last two years has brought large improvements to the state of the art in the field of Natural Language Processing. These advancements have been most noticeably led by BERT, a model proposed by Google in 2018, and the shared language models pre-trained on millions of documents. In this paper, we use a BERT-based sequence labelling model to conduct a series of anonymisation experiments on several clinical datasets in Spanish. We also compare BERT with other algorithms. The experiments show that a simple BERT-based model with general-domain pre-training obtains highly competitive results without any domain specific feature engineering.
Named Entities in Medical Case Reports: Corpus and Experiments (2020)

We present a new corpus comprising annotations of medical entities in case reports, originating from PubMed Central`s open access library. In the case reports, we annotate cases, conditions, findings, factors and negation modifiers. Moreover, where applicable, we annotate relations between these entities. As such, this is the first corpus of this kind made available to the scientific community in English. It enables the initial investigation of automatic information extraction from case reports through tasks like Named Entity Recognition, Relation Extraction and (sentence/paragraph) relevance detection. Additionally, we present four strong baseline systems for the detection of medical entities made available through the annotated dataset.
Hedwig: A Named Entity Linker (2020)

Named entity linking is the task of identifying mentions of named things in text, such as {\textquotedblleft}Barack Obama{\textquotedblright} or {\textquotedblleft}New York{\textquotedblright}, and linking these mentions to unique identifiers. In this paper, we describe Hedwig, an end-to-end named entity linker, which uses a combination of word and character BILSTM models for mention detection, a Wikidata and Wikipedia-derived knowledge base with global information aggregated over nine language editions, and a PageRank algorithm for entity linking. We evaluated Hedwig on the TAC2017 dataset, consisting of news texts and discussion forums, and we obtained a final score of 59.9{\%} on CEAFmC+, an improvement over our previous generation linker Ugglan, and a trilingual entity link score of 71.9{\%}.
An Experiment in Annotating Animal Species Names from ISTEX Resources (2020)

To exploit scientific publications from global research for TDM purposes, the ISTEX platform enriched its data with value-added information to ease access to its full-text documents. We built an experiment to explore new enrichment possibilities in documents focussing on scientific named entities recognition which could be integrated into ISTEX resources. This led to testing two detection tools for animal species names in a corpus of 100 documents in zoology. This makes it possible to provide the French scientific community with an annotated reference corpus available for use to measure these tools' performance.
Where are we in Named Entity Recognition from Speech? (2020)

Named entity recognition (NER) from speech is usually made through a pipeline process that consists in (i) processing audio using an automatic speech recognition system (ASR) and (ii) applying a NER to the ASR outputs. The latest data available for named entity extraction from speech in French were produced during the ETAPE evaluation campaign in 2012. Since the publication of ETAPE`s campaign results, major improvements were done on NER and ASR systems, especially with the development of neural approaches for both of these components. In addition, recent studies have shown the capability of End-to-End (E2E) approach for NER / SLU tasks. In this paper, we propose a study of the improvements made in speech recognition and named entity recognition for pipeline approaches. For this type of systems, we propose an original 3-pass approach. We also explore the capability of an E2E system to do structured NER. Finally, we compare the performances of ETAPE`s systems (state-of-the-art systems in 2012) with the performances obtained using current technologies. The results show the interest of the E2E approach, which however remains below an updated pipeline approach.
Tagging Location Phrases in Text (2020)

For over thirty years researchers have studied the problem of automatically detecting named entities in written language. Throughout this time the majority of such work has focused on detection and classification of entities into coarse-grained types like: PERSON, ORGANIZATION, and LOCATION. Less attention has been focused on non-named mentions of entities, including non-named location phrases such as {\textquotedblleft}the medical clinic in Telonge{\textquotedblright} or {\textquotedblleft}2 km below the Dolin Maniche bridge{\textquotedblright}. In this work we describe the Location Phrase Detection task to identify such spans. Our key accomplishments include: developing a sequential tagging approach; crafting annotation guidelines; building annotated datasets for English and Russian news; and, conducting experiments in automated detection of location phrases with both statistical and neural taggers. This work is motivated by extracting rich location information to support situational awareness during humanitarian crises such as natural disasters.
ScienceExamCER: A High-Density Fine-Grained Science-Domain Corpus for Common Entity Recognition (2020)

Named entity recognition identifies common classes of entities in text, but these entity labels are generally sparse, limiting utility to downstream tasks. In this work we present ScienceExamCER, a densely-labeled semantic classification corpus of 133k mentions in the science exam domain where nearly all (96{\%}) of content words have been annotated with one or more fine-grained semantic class labels including taxonomic groups, meronym groups, verb/action groups, properties and values, and synonyms. Semantic class labels are drawn from a manually-constructed fine-grained typology of 601 classes generated through a data-driven analysis of 4,239 science exam questions. We show an off-the-shelf BERT-based named entity recognition model modified for multi-label classification achieves an accuracy of 0.85 F1 on this task, suggesting strong utility for downstream tasks in science domain question answering requiring densely-labeled semantic classification.
NorNE: Annotating Named Entities for Norwegian (2020)

This paper presents NorNE, a manually annotated corpus of named entities which extends the annotation of the existing Norwegian Dependency Treebank. Comprising both of the official standards of written Norwegian (Bokm{\r{a}}l and Nynorsk), the corpus contains around 600,000 tokens and annotates a rich set of entity types including persons, organizations, locations, geo-political entities, products, and events, in addition to a class corresponding to nominals derived from names. We here present details on the annotation effort, guidelines, inter-annotator agreement and an experimental analysis of the corpus using a neural sequence labeling architecture.
Tag Me If You Can! Semantic Annotation of Biodiversity Metadata with the QEMP Corpus and the BiodivTagger (2020)

Dataset Retrieval is gaining importance due to a large amount of research data and the great demand for reusing scientific data. Dataset Retrieval is mostly based on metadata, structured information about the primary data. Enriching these metadata with semantic annotations based on Linked Open Data (LOD) enables datasets, publications and authors to be connected and expands the search on semantically related terms. In this work, we introduce the BiodivTagger, an ontology-based Information Extraction pipeline, developed for metadata from biodiversity research. The system recognizes biological, physical and chemical processes, environmental terms, data parameters and phenotypes as well as materials and chemical compounds and links them to concepts in dedicated ontologies. To evaluate our pipeline, we created a gold standard of 50 metadata files (QEMP corpus) selected from five different data repositories in biodiversity research. To the best of our knowledge, this is the first annotated metadata corpus for biodiversity research data. The results reveal a mixed picture. While materials and data parameters are properly matched to ontological concepts in most cases, some ontological issues occurred for processes and environmental terms.
Towards a Versatile Medical-Annotation Guideline Feasible Without Heavy Medical Knowledge: Starting From Critical Lung Diseases (2020)

Applying natural language processing (NLP) to medical and clinical texts can bring important social benefits by mining valuable information from unstructured text. A popular application for that purpose is named entity recognition (NER), but the annotation policies of existing clinical corpora have not been standardized across clinical texts of different types. This paper presents an annotation guideline aimed at covering medical documents of various types such as radiography interpretation reports and medical records. Furthermore, the annotation was designed to avoid burdensome requirements related to medical knowledge, thereby enabling corpus development without medical specialists. To achieve these design features, we specifically focus on critical lung diseases to stabilize linguistic patterns in corpora. After annotating around 1100 electronic medical records following the annotation scheme, we demonstrated its feasibility using an NER task. Results suggest that our guideline is applicable to large-scale clinical NLP projects.
Creating a Dataset for Named Entity Recognition in the Archaeology Domain (2020)

In this paper, we present the development of a training dataset for Dutch Named Entity Recognition (NER) in the archaeology domain. This dataset was created as there is a dire need for semantic search within archaeology, in order to allow archaeologists to find structured information in collections of Dutch excavation reports, currently totalling around 60,000 (658 million words) and growing rapidly. To guide this search task, NER is needed. We created rigorous annotation guidelines in an iterative process, then instructed five archaeology students to annotate a number of documents. The resulting dataset contains {\textasciitilde}31k annotations between six entity types (artefact, time period, place, context, species {\&} material). The inter-annotator agreement is 0.95, and when we used this data for machine learning, we observed an increase in F1 score from 0.51 to 0.70 in comparison to a machine learning model trained on a dataset created in prior work. This indicates that the data is of high quality, and can confidently be used to train NER classifiers.
Development of a Medical Incident Report Corpus with Intention and Factuality Annotation (2020)

Medical incident reports (MIRs) are documents that record what happened in a medical incident. A typical MIR consists of two sections: a structured categorical part and an unstructured text part. Most texts in MIRs describe what medication was intended to be given and what was actually given, because what happened in an incident is largely due to discrepancies between intended and actual medications. Recognizing the intention of clinicians and the factuality of medication is essential to understand the causes of medical incidents and avoid similar incidents in the future. Therefore, we are developing an MIR corpus with annotation of intention and factuality as well as of medication entities and their relations. In this paper, we present our annotation scheme with respect to the definition of medication entities that we take into account, the method to annotate the relations between entities, and the details of the intention and factuality annotation. We then report the annotated corpus consisting of 349 Japanese medical incident reports.
ProGene - A Large-scale, High-Quality Protein-Gene Annotated Benchmark Corpus (2020)

Genes and proteins constitute the fundamental entities of molecular genetics. We here introduce ProGene (formerly called FSU-PRGE), a corpus that reflects our efforts to cope with this important class of named entities within the framework of a long-lasting large-scale annotation campaign at the Jena University Language {\&} Information Engineering (JULIE) Lab. We assembled the entire corpus from 11 subcorpora covering various biological domains to achieve an overall subdomain-independent corpus. It consists of 3,308 MEDLINE abstracts with over 36k sentences and more than 960k tokens annotated with nearly 60k named entity mentions. Two annotators strove for carefully assigning entity mentions to classes of genes/proteins as well as families/groups, complexes, variants and enumerations of those where genes and proteins are represented by a single class. The main purpose of the corpus is to provide a large body of consistent and reliable annotations for supervised training and evaluation of machine learning algorithms in this relevant domain. Furthermore, we provide an evaluation of two state-of-the-art baseline systems {---} BioBert and flair {---} on the ProGene corpus. We make the evaluation datasets and the trained models available to encourage comparable evaluations of new methods in the future.
DaNE: A Named Entity Resource for Danish (2020)

We present a named entity annotation for the Danish Universal Dependencies treebank using the CoNLL-2003 annotation scheme: DaNE. It is the largest publicly available, Danish named entity gold annotation. We evaluate the quality of our annotations intrinsically by double annotating the entire treebank and extrinsically by comparing our annotations to a recently released named entity annotation of the validation and test sections of the Danish Universal Dependencies treebank. We benchmark the new resource by training and evaluating competitive architectures for supervised named entity recognition (NER), including FLAIR, monolingual (Danish) BERT and multilingual BERT. We explore cross-lingual transfer in multilingual BERT from five related languages in zero-shot and direct transfer setups, and we show that even with our modestly-sized training set, we improve Danish NER over a recent cross-lingual approach, as well as over zero-shot transfer from five related languages. Using multilingual BERT, we achieve higher performance by fine-tuning on both DaNE and a larger Bokm{\r{a}}l (Norwegian) training set compared to only using DaNE. However, the highest performance isachieved by using a Danish BERT fine-tuned on DaNE. Our dataset enables improvements and applicability for Danish NER beyond cross-lingual methods. We employ a thorough error analysis of the predictions of the best models for seen and unseen entities, as well as their robustness on un-capitalized text. The annotated dataset and all the trained models are made publicly available.