1,716 research outputs found
Ontologies and Information Extraction
This report argues that, even in the simplest cases, IE is an ontology-driven
process. It is not a mere text filtering method based on simple pattern
matching and keywords, because the extracted pieces of texts are interpreted
with respect to a predefined partial domain model. This report shows that
depending on the nature and the depth of the interpretation to be done for
extracting the information, more or less knowledge must be involved. This
report is mainly illustrated in biology, a domain in which there are critical
needs for content-based exploration of the scientific literature and which
becomes a major application domain for IE
Gene Ontology density estimation and discourse analysis for automatic GeneRiF extraction
<p>Abstract</p> <p>Background</p> <p>This paper describes and evaluates a sentence selection engine that extracts a GeneRiF (Gene Reference into Functions) as defined in ENTREZ-Gene based on a MEDLINE record. Inputs for this task include both a gene and a pointer to a MEDLINE reference. In the suggested approach we merge two independent sentence extraction strategies. The first proposed strategy (LASt) uses argumentative features, inspired by discourse-analysis models. The second extraction scheme (GOEx) uses an automatic text categorizer to estimate the density of Gene Ontology categories in every sentence; thus providing a full ranking of all possible candidate GeneRiFs. A combination of the two approaches is proposed, which also aims at reducing the size of the selected segment by filtering out non-content bearing rhetorical phrases.</p> <p>Results</p> <p>Based on the TREC-2003 Genomics collection for GeneRiF identification, the LASt extraction strategy is already competitive (52.78%). When used in a combined approach, the extraction task clearly shows improvement, achieving a Dice score of over 57% (+10%).</p> <p>Conclusions</p> <p>Argumentative representation levels and conceptual density estimation using Gene Ontology contents appear complementary for functional annotation in proteomics.</p
DutchHatTrick: semantic query modeling, ConText, section detection, and match score maximization
This report discusses the collaborative work of the ErasmusMC, University of Twente, and the University of Amsterdam on the TREC 2011 Medical track. Here, the task is to retrieve patient visits from the University of Pittsburgh NLP Repository for 35 topics. The repository consists of 101,711 patient reports, and a patient visit was recorded in one or more reports
Constructing Datasets for Multi-hop Reading Comprehension Across Documents
Most Reading Comprehension methods limit themselves to queries which can be
answered using a single sentence, paragraph, or document. Enabling models to
combine disjoint pieces of textual evidence would extend the scope of machine
comprehension methods, but currently there exist no resources to train and test
this capability. We propose a novel task to encourage the development of models
for text understanding across multiple documents and to investigate the limits
of existing methods. In our task, a model learns to seek and combine evidence -
effectively performing multi-hop (alias multi-step) inference. We devise a
methodology to produce datasets for this task, given a collection of
query-answer pairs and thematically linked documents. Two datasets from
different domains are induced, and we identify potential pitfalls and devise
circumvention strategies. We evaluate two previously proposed competitive
models and find that one can integrate information across documents. However,
both models struggle to select relevant information, as providing documents
guaranteed to be relevant greatly improves their performance. While the models
outperform several strong baselines, their best accuracy reaches 42.9% compared
to human performance at 74.0% - leaving ample room for improvement.Comment: This paper directly corresponds to the TACL version
(https://transacl.org/ojs/index.php/tacl/article/view/1325) apart from minor
changes in wording, additional footnotes, and appendice
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