Lexical patterns, features and knowledge resources for coreference resolution in clinical notes

Generation of entity coreference chains provides a means to extract linked narrative events from clinical notes, but despite being a well-researched topic in natural language processing, general- purpose coreference tools perform poorly on clinical texts. This paper presents a knowledge-centric and pattern-based approach to resolving coreference across a wide variety of clinical records comprising discharge summaries, progress notes, pathology, radiology and surgical reports from two corpora (Ontology Development and Information Extraction (ODIE) and i2b2/VA). In addition, a method for generating coreference chains using progressively pruned linked lists is demonstrated that reduces the search space and facilitates evaluation by a number of metrics. Independent evaluation results show an F-measure for each corpus of 79.2% and 87.5%, respectively, which offers performance at least as good as human annotators, greatly increased performance over general- purpose tools, and improvement on previously reported clinical coreference systems. The system uses a number of open-source components that are available to download

Automatic Identification of Addresses: A Systematic Literature Review

Cruz, P., Vanneschi, L., Painho, M., & Rita, P. (2022). Automatic Identification of Addresses: A Systematic Literature Review. ISPRS International Journal of Geo-Information, 11(1), 1-27. https://doi.org/10.3390/ijgi11010011 -----------------------------------------------------------------------The work by Leonardo Vanneschi, Marco Painho and Paulo Rita was supported by Fundação para a Ciência e a Tecnologia (FCT) within the Project: UIDB/04152/2020—Centro de Investigação em Gestão de Informação (MagIC). The work by Prof. Leonardo Vanneschi was also partially supported by FCT, Portugal, through funding of project AICE (DSAIPA/DS/0113/2019).Address matching continues to play a central role at various levels, through geocoding and data integration from different sources, with a view to promote activities such as urban planning, location-based services, and the construction of databases like those used in census operations. However, the task of address matching continues to face several challenges, such as non-standard or incomplete address records or addresses written in more complex languages. In order to better understand how current limitations can be overcome, this paper conducted a systematic literature review focused on automated approaches to address matching and their evolution across time. The Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines were followed, resulting in a final set of 41 papers published between 2002 and 2021, the great majority of which are after 2017, with Chinese authors leading the way. The main findings revealed a consistent move from more traditional approaches to deep learning methods based on semantics, encoder-decoder architectures, and attention mechanisms, as well as the very recent adoption of hybrid approaches making an increased use of spatial constraints and entities. The adoption of evolutionary-based approaches and privacy preserving methods stand as some of the research gaps to address in future studies.publishersversionpublishe

TransParsCit: A Transformer-Based Citation Parser Trained on Large-Scale Synthesized Data

Accurately parsing citation strings is key to automatically building large-scale citation graphs, so a robust citation parser is an essential module in academic search engines. One limitation of the state-of-the-art models (such as ParsCit and Neural-ParsCit) is the lack of a large-scale training corpus. Manually annotating hundreds of thousands of citation strings is laborious and time-consuming. This thesis presents a novel transformer-based citation parser by leveraging the GIANT dataset, consisting of 1 billion synthesized citation strings covering over 1500 citation styles. As opposed to handcrafted features, our model benefits from word embeddings and character-based embeddings by combining the bidirectional long shortterm memory (BiLSTM) with the Transformer and Conditional Random Forest (CRF). We varied the training data size from 500 to 1M and investigated the impact of training size on the performance. We evaluated our models on standard CORA benchmark and observed an increase in F1-score as the training size increased. The best performance happened when the training size was around 220K, achieving an F1-score of up to 100% on key citation fields. To our best knowledge, this is the first citation parser trained on a largescale synthesized dataset. Project codes and documentation can be found on this GitHub repository: https://github.com/lamps-lab/Citation-Parser