5 documents found, page 1 of 1
Next generation community assessment of biomedical entity recognition web serve...
Pérez-Pérez, Martin; Pérez-Rodríguez, Gael; Blanco-Míguez, Aitor; Fdez-Riverola, Florentino; Valencia, Alfonso; Krallinger, Martin; Lourenço, AnáliaShared tasks and community challenges represent key instruments to promote research, collaboration and determine the state of the art of biomedical and chemical text mining technologies. Traditionally, such tasks relied on the comparison of automatically generated results against a so-called Gold Standard dataset of manually labelled textual data, regardless of efficiency and robustness of the underlying implem...
Evaluation of chemical and gene/protein entity recognition systems at BioCreati...
Pérez-Pérez, Martin; Rabal, Obdulia; Pérez-Rodríguez, Gael; Vazquez, Miguel; Fdez-Riverola, Florentino; Oyarzabal, Julen; Valencia, AlfonsoThis paper presents the results of the BioCreative V.5 offline tasks related to the evaluation of the performance as well as assess progress made by strategies used for the automatic recognition of mentions of chemical names and gene in running text of medicinal chemistry patent abstracts. A total of 21 teams submitted results for at least one of these tasks. The CEMP (chemical entity mention in patents) task e...
Information retrieval and text mining technologies for chemistry
Krallinger, Martin; Rabal, Obdulia; Lourenço, Anália; Oyarzabal, Julen; Valencia, AlfonsoEfficient access to chemical information contained in scientific literature, patents, technical reports, or the web is a pressing need shared by researchers and patent attorneys from different chemical disciplines. Retrieval of important chemical information in most cases starts with finding relevant documents for a particular chemical compound or family. Targeted retrieval of chemical documents is closely conn...
Benchmarking biomedical text mining web servers at BioCreative V.5: the technic...
Pérez-Pérez, Martin; Pérez-Rodríguez, Gael; Blanco-Míguez, Aitor; Fdez-Riverola, Florentino; Valencia, Alfonso; Krallinger, Martin; Lourenço, AnáliaThe TIPS track consisted in a novel experimental task under the umbrella of the BioCreative text mining challenges with the aim to, for the first time ever, carry out a text mining challenge with particular focus on the continuous assessment of technical aspects of text annotation web servers, specifically of biomedical online named entity recognition systems. A total of 13 teams registered annotation servers, ...
The BioCreative V.5 evaluation workshop: tasks, organization, sessions and topics
Krallinger, Martin; Pérez-Pérez, Martín; Pérez-Rodríguez, Gael; Blanco-Míguez, Aitor; Fdez-Riverola, Florentino; Capella-Gutierrez, SalvadorThe BioCreative (Critical Assessment of Information Extraction in Biology) is a community-wide effort with the aim of evaluating biomedical text mining and information extraction tools. It is organized in the form of shared tasks or challenges. The evaluation workshop linked to each BioCreative event serves to analyze the results obtained for each track, and to present the used Gold Standard datasets/evaluation...