Results 21 to 30 of about 90,813 (262)

Contextualizing Genes by Using Text-Mined Co-Occurrence Features for Cancer Gene Panel Discovery

Frontiers in Genetics, 2021
Developing a biomedical-explainable and validatable text mining pipeline can help in cancer gene panel discovery. We create a pipeline that can contextualize genes by using text-mined co-occurrence features.
Hui-O Chen, Hui-O Chen, Peng-Chan Lin, Peng-Chan Lin, Peng-Chan Lin, Peng-Chan Lin, Chen-Ruei Liu, Chen-Ruei Liu, Chi-Shiang Wang, Chi-Shiang Wang, Jung-Hsien Chiang, Jung-Hsien Chiang   +11 more
doaj   +1 more source

Large-Scale Biomedical Relation Extraction Across Diverse Relation Types: Model Development and Usability Study on COVID-19

Journal of Medical Internet Research, 2023
BackgroundBiomedical relation extraction (RE) is of great importance for researchers to conduct systematic biomedical studies. It not only helps knowledge mining, such as knowledge graphs and novel knowledge discovery, but also ...
Zeyu Zhang, Meng Fang, Rebecca Wu, Hui Zong, Honglian Huang, Yuantao Tong, Yujia Xie, Shiyang Cheng, Ziyi Wei, M James C Crabbe, Xiaoyan Zhang, Ying Wang   +11 more
doaj   +1 more source

ECO-CollecTF: A Corpus of Annotated Evidence-Based Assertions in Biomedical Manuscripts

Frontiers in Research Metrics and Analytics, 2021
Analysis of high-throughput experiments in the life sciences frequently relies upon standardized information about genes, gene products, and other biological entities.
Elizabeth T. Hobbs, Stephen M. Goralski, Ashley Mitchell, Andrew Simpson, Dorjan Leka, Emmanuel Kotey, Matt Sekira, James B. Munro, Suvarna Nadendla, Rebecca Jackson, Aitor Gonzalez-Aguirre, Martin Krallinger, Martin Krallinger, Michelle Giglio, Ivan Erill   +14 more
doaj   +1 more source

EXACT2: the semantics of biomedical protocols [PDF]

, 2014
© 2014 Soldatova et al.; licensee BioMed Central. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and ...
A Maccagnan, A Pease, A Sackmann, A Sujathaa, Brian B Rudkin, CJ Mungall, Daniel Nadis, Doi, Emma Haddi, Grunwald, H Obokata, I Mura, J Taubert, K Wolstencroft, Larisa N Soldatova, LN Soldatova, LN Soldatova, LN Soldatova, M Courtot, M Hilario, M Schilling, Nigel J Saunders, Piyali S Basu, R Garside, RD King, Ross D King, RR Brinkman, S Mitchell, S Rune, S Shapin, T Bittner, T Klingström, Th Paul, V Rätzel, Véronique Baumlé, W Ceusters, Wolfgang Marwan, Z Xiang   +37 more
core   +3 more sources

PubRunner: A light-weight framework for updating text mining results [version 2; referees: 1 approved, 2 approved with reservations]

F1000Research, 2017
Biomedical text mining promises to assist biologists in quickly navigating the combined knowledge in their domain. This would allow improved understanding of the complex interactions within biological systems and faster hypothesis generation.
Kishore R. Anekalla, J.P. Courneya, Nicolas Fiorini, Jake Lever, Michael Muchow, Ben Busby   +5 more
doaj   +1 more source

DeTEXT: A Database for Evaluating Text Extraction from Biomedical Literature Figures. [PDF]

PLoS ONE, 2015
Hundreds of millions of figures are available in biomedical literature, representing important biomedical experimental evidence. Since text is a rich source of information in figures, automatically extracting such text may assist in the task of mining ...
Xu-Cheng Yin, Chun Yang, Wei-Yi Pei, Haixia Man, Jun Zhang, Erik Learned-Miller, Hong Yu   +6 more
doaj   +1 more source

ChemTextMiner: An open source tool kit for mining medical literature abstracts [PDF]

, 2011
Text mining involves recognizing patterns from a wealth of information hidden latent in unstructured text and deducing explicit relationships among data entities by using data mining tools.
Deepak Pandit, Esha Jain, Ganesh Nainaru, Muthukumarasamy Karthikeyan, Renu Vyas, Sunil Nalwade, Yogesh Pandit   +6 more
core   +2 more sources

Mining Images in Biomedical Publications: Detection and Analysis of Gel Diagrams [PDF]

, 2014
Authors of biomedical publications use gel images to report experimental results such as protein-protein interactions or protein expressions under different conditions. Gel images offer a concise way to communicate such findings, not all of which need to
Krauthammer, Michael, Kuhn, Tobias, Luong, ThaiBinh, Nagy, Mate Levente   +3 more
core   +2 more sources

New directions in biomedical text annotation: definitions, guidelines and corpus construction

BMC Bioinformatics, 2006
Background While biomedical text mining is emerging as an important research area, practical results have proven difficult to achieve. We believe that an important first step towards more accurate text-mining lies in the ability to identify and ...
Rzhetsky Andrey, Wilbur W John, Shatkay Hagit   +2 more
doaj   +1 more source

@Note: A workbench for Biomedical Text Mining

Journal of Biomedical Informatics, 2009
Biomedical Text Mining (BioTM) is providing valuable approaches to the automated curation of scientific literature. However, most efforts have addressed the benchmarking of new algorithms rather than user operational needs. Bridging the gap between BioTM researchers and biologists' needs is crucial to solve real-world problems and promote further ...
Lourenço, Anália, Carreira, Rafael, Carneiro, S., Maia, Paulo, Glez-Peña, Daniel, Fdez-Riverola, Florentino, Ferreira, Eugénio C., Rocha, I., Rocha, Miguel   +8 more
openaire   +3 more sources