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SIB Text Mining at TREC Precision Medicine 2020

Emilie Pasche, Déborah Caucheteur, Luc Mottin, Anaïs Mottaz, Julien Gobeill, Patrick Ruch
2020 Text Retrieval Conference  
TREC 2020 Precision Medicine Track aimed at developing specialized algorithms able to retrieve the best available evidence for a specific cancer treatment.  ...  Our system collected a set of up to 1000 documents per topic and re-ranked the documents based on several strategies: classification of documents as precision medicine-related, classification of documents  ...  Introduction This paper describes the participation of the SIB Text Mining group [1] to the TREC 2020 Precision Medicine Track.  ... 
dblp:conf/trec/PascheCMMGR20 fatcat:wxsm6byoxjgetc3lqfp7ipsziq

SIB Literature Services: RESTful customizable search engines in biomedical literature, enriched with automatically mapped biomedical concepts

Gobeill Julien, Caucheteur Déborah, Michel Pierre-André, Mottin Luc, Pasche Emilie, Ruch Patrick
2020 Nucleic Acids Research  
Thanks to recent efforts by the text mining community, biocurators have now access to plenty of good tools and Web interfaces for identifying and visualizing biomedical entities in literature.  ...  National Library of Medicine and National Institute of Health for improving access to PubMed and PubMedCentral.  ...  Case 2: information retrieval for precision medicine The 2019 TREC Precision Medicine track focused on the case of providing clinical decision support for cancer patients with genetic variations that might  ... 
doi:10.1093/nar/gkaa328 pmid:32379317 pmcid:PMC7319474 fatcat:wnwek6k6fngerlm2txpqc4r2si

14th Annual Biocuration Conference (virtual) - Abstracts from the invited speakers talks and poster session presentations [article]

Federica Quaglia
2021 Zenodo  
Experimental setting 1: The literature retrieval task is tuned and evaluated using the TREC Precision Medicine 2018 and 2019 benchmarks consisting respectively in 50 and 40 topics.  ...  We propose a novel and efficient method using state-of-the-art text mining models to automatically distinguish between consistent GO annotation and the different types of inconsistent GO annotation.  ...  bulk RNA-Seq to provide a unified view of gene expression and analysis tools in Bgee Frederic Bastian 1,2 1 Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland. 2 SIB  ... 
doi:10.5281/zenodo.5570276 fatcat:nlbkkzkhfvhdddqu4ypzh247iy

Biodiversity Community Integrated Knowledge Library (BiCIKL)

Lyubomir Penev, Dimitrios Koureas, Quentin Groom, Jerry Lanfear, Donat Agosti, Ana Casino, Joe Miller, Christos Arvanitidis, Guy Cochrane, Donald Hobern, Olaf Banki, Wouter Addink (+10 others)
2022 Research Ideas and Outcomes  
through provision of access to data, associated tools and services at each separate stage of and along the entire research cycle.  ...  BiCIKL is an European Union Horizon 2020 project that will initiate and build a new European starting community of key research infrastructures, establishing open science practices in the domain of biodiversity  ...  He worked as scientific researcher at the University of Amsterdam, Netherlands Institute for Sea Research, the Alfred Wegener Institute for Polar Research, and as managing director at ETI Biodiversity  ... 
doi:10.3897/rio.8.e81136 fatcat:4owwssl7zzfzna6likizigcv7u


2013 Akademos: Revista de Ştiinţă, Inovare, Cultură şi Artă  
For example the BCS theory gives the universal value 1.43 for the jump of thermal capacity at critical temperature.  ...  Personalised medicines for our citizen -toward more precise medicine for the diagnosis, treatment and prevention of diseases.  ...  Cuvinte-cheie: bioinformatică, microarray, NCBI, reţele de gene, SIB, UDaCoT.  ... 
doaj:42b95484160e486c8af4466843adb7ae fatcat:uftkvn5dyvdhlg5h7wachmcaoe