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OCMiner: Text Processing, Annotation and Relation Extraction for the Life Sciences

Timo Böhme, Matthias Irmer, Anett Püschel, Claudia Bobach, Ulf Laube, Lutz Weber
2014 Workshop on Semantic Web Applications and Tools for Life Sciences  
Several linguistic options allow adjusting the quality of annotation results which can be specialized and fine-tuned for the recognition of Life Science terms.  ...  We present OCMiner, a high-performance text processing system for large document collections of scientific publications.  ...  A particular challenge in recognizing Life Science terms in free text is chemical named entity recognition.  ... 
dblp:conf/swat4ls/BohmeIPBLW14 fatcat:mi6kutn4xnd7vigtqhbcslifxq

Social and Semantic Web Technologies for the Text-to-Knowledge Translation Process in Biomedicine [chapter]

Carlos Cano, Alberto Labarga, Armando Blanco, Leonid Peshki
2011 Biomedical Engineering, Trends, Research and Technologies  
Blanco are supported by the projects P08-TIC-4299 of J.  ...  ., Sevilla and TIN2009-13489 of DGICT, Madrid Manual curation is not sufficient for annotation of genomic databases, Bioinformatics References  ...  This module also includes resources for carrying out an initial automatic annotation of the retrieved publications using Named Entity Recognition (NER) and automatic text-mining systems.  ... 
doi:10.5772/13560 fatcat:cmrfewlbhze3zmj55o3fbfozfi

Semedico: A Comprehensive Semantic Search Engine for the Life Sciences

Erik Faessler, Udo Hahn
2017 Proceedings of ACL 2017, System Demonstrations  
SEMEDICO is a semantic search engine designed to support literature search in the life sciences by integrating the semantics of the domain at all stages of the search process-from query formulation via  ...  query processing up to the presentation of results.  ...  Resources Used in SEMEDICO Literature input for SEMEDICO comes from two sources, viz. more than 27 million life science abstracts from MEDLINE/PUBMED 45 and approximately 1,5 million life science full  ... 
doi:10.18653/v1/p17-4016 dblp:conf/acl/FaesslerH17 fatcat:folqg7czdbdsdo5z6uqfnw2e5a

Modal Keywords, Ontologies, and Reasoning for Video Understanding [chapter]

Alejandro Jaimes, Belle L. Tseng, John R. Smith
2003 Lecture Notes in Computer Science  
Our framework consists of an expert system that uses a rule-based engine, domain knowledge, visual detectors (for objects and scenes), and metadata (text from automatic speech recognition, related text  ...  For video understanding, the following operations are performed automatically: scene cut detection, automatic speech recognition, feature extraction, and visual detection (e.g., sky, face, indoor).  ...  The authors would like to thank the IBM TREC 2002 team for their valuable contributions. References  ... 
doi:10.1007/3-540-45113-7_25 fatcat:yup2ep6gfbahfadczhhsftcrsm

Semi-Automatic Analyzer To Detect Authorial Intentions In Scientific Documents

Kanso Hassan, Elhore Ali, Soule-Dupuy Chantal, Tazi Said
2008 Zenodo  
In this article, we present intentions recognition system is based on a semi-automatic method of extraction the intentional information starting from a corpus of text.  ...  An experiments on scientific publications in the field of computer science was considered to validate this approach.  ...  It is used for a dictionary (WordWeb2), an expert system (SearchAide), a software for automatic annotation of texts, etc.  ... 
doi:10.5281/zenodo.1329498 fatcat:rb7ytdys2rgm3gt7rrmvofj5fa

Literature Mining Solutions for Life Science Research

Jörg Hakenberg, Goran Nenadic, Dietrich Rebholz-Schuhmann, Jin-Dong Kim
2013 Advances in Bioinformatics  
Acknowledgment e guest editors wish to thank all authors for their contributions to this special issue, as well as the numerous reviewers who supported the authors and us with their invaluable feedback  ...  In a meta-analysis using automatic text analysis, they address questions such as how informative an abstract is compared to the full text; and how peers and authors might view the major contributions of  ...  e authors introduce the major concepts that life science researchers should be familiar with getting the best out of existing text mining solutions, and survey key tools and research.  ... 
doi:10.1155/2013/320436 pmid:23365570 pmcid:PMC3556398 fatcat:auy5vbcddfbwldfu3pfriasd5q

Application of Biomedical Text Mining [chapter]

Lejun Gong
2018 Artificial Intelligence - Emerging Trends and Applications  
Then, it describes the biomedical text-mining technology, namely natural language processing, including the several components.  ...  The aim is to provide a way to quickly understand biomedical text mining for some researchers.  ...  Ontology-based mining systems attempt to map a terminology in text to a concept in an ontology. Kim et al.  ... 
doi:10.5772/intechopen.75924 fatcat:5o27ptssi5fwzbelnpktkwplby

Automatic Image Annotation Using Semantic Text Analysis [chapter]

Dongjin Choi, Pankoo Kim
2012 Lecture Notes in Computer Science  
Many techniques have been suggested for automatic image annotation in the last few years. Many researches focused on the method to extract possible annotation using low-level image features.  ...  The proposed method shows that text analysis is another possible technique to annotate image automatically for detecting unintended web documents.  ...  This research was financially supported by the Ministry of Education, Science Technology (MEST) and National Research Foundation of Korea (NRF) through the Human Resource Training Project for Regional  ... 
doi:10.1007/978-3-642-32498-7_36 fatcat:tgti4ijbejf7nmbb5ri33gvu7u

A Text Mining Framework for Accelerating the Semantic Curation of Literature [chapter]

Riza Batista-Navarro, Jennifer Hammock, William Ulate, Sophia Ananiadou
2016 Lecture Notes in Computer Science  
Aiming to accelerate the development of a corpus of biodiversity documents, we propose a text mining framework that hastens curation through an iterative feedback-loop process of (1) manual annotation,  ...  and (2) training and application of statistical concept recognition models.  ...  In order to support the development of advanced NER techniques for the purpose of automatically categorising concepts in BHL documents, we pursued the construction of a gold standard annotated corpus of  ... 
doi:10.1007/978-3-319-43997-6_44 fatcat:ukx2okm6gvhbtidetkaw2exmd4

BiTeM at CLEF eHealth Evaluation Lab 2016 Task 2: Multilingual Information Extraction

Luc Mottin, Julien Gobeill, Anaïs Mottaz, Emilie Pasche, Arnaud Gaudinat, Patrick Ruch
2016 Conference and Labs of the Evaluation Forum  
Our method is based on an Automatic Text Categorization (ATC) system.  ...  BiTeM/SIB Text Mining (http://bitem.hesge.ch/) is a University research group carrying over activities in semantic and text analytics applied to health and life sciences.  ...  Our approach was to integrate an existing automatics categorizer (Ruch 2006) in the processing of corpora.  ... 
dblp:conf/clef/MottinGMPGR16 fatcat:epbrigpagfenjeeehfwipdfyjy

Notes on a Linguistic Description as the Basis for Automatic Image Understanding

Ryszard Tadeusiewicz, Marek Ogiela, Piotr Szczepaniak
2009 International Journal of Applied Mathematics and Computer Science  
Notes on a Linguistic Description as the Basis for Automatic Image Understanding The main paradigm of image understanding and a concept for its practical machine realisation are presented.  ...  The crucial elements of the presented approach are the formalisation of human knowledge about the class of images that are to be automatically interpreted, a linguistic description and the realization  ...  Acknowledgment This work has been partly supported by the Polish Ministry of Science and Higher Education under Grant No. N 51900732/0978.  ... 
doi:10.2478/v10006-009-0013-7 fatcat:5q3bqww5grglznihsf5fph3fba

An Integrated Approach to Biomedical Term Identification Systems

Pilar López-Úbeda, Manuel Carlos Díaz-Galiano, Arturo Montejo-Ráez, María-Teresa Martín-Valdivia, L. Alfonso Ureña-López
2020 Applied Sciences  
By applying several Natural Language Processing (NLP) technologies, we have developed a prototype that offers an easy interface for helping to understand biomedical specialized terminology present in Spanish  ...  Moreover, the system generates a conceptual graph which semantically relates all the terms found in the text.  ...  Figure 4 shows an example of how the system marks the entities detected in a text.  ... 
doi:10.3390/app10051726 fatcat:ct7kc3opinfvvaf2mka6wtugm4

COVID-19 preVIEW: Semantic Search to Explore COVID-19 Research Preprints [chapter]

Lisa Langnickel, Roman Baum, Johannes Darms, Sumit Madan, Juliane Fluck
2021 Studies in Health Technology and Informatics  
The system integrates collections from several different preprint servers that are used in the biomedical domain to publish non-peer-reviewed work, thereby enabling one central access point for the users  ...  In order to support semantic search functionality, we integrated a text mining workflow for indexing with relevant terminologies.  ...  Klaus Lippert (ZB MED, Information Centre for Life Sciences) for the support in software development.  ... 
doi:10.3233/shti210124 pmid:34042709 fatcat:gwmby6vepvd7vk6fc4huljxcou

Lessons for the Future from a Decade of Informedia Video Analysis Research [chapter]

Alexander G. Hauptmann
2005 Lecture Notes in Computer Science  
While speech processing has been the most influential component in the success of the Informedia project, other modalities can be critical in various situations.  ...  The base technology developed by the Informedia project combines speech, image and natural language understanding to automatically transcribe, segment and index broadcast video for intelligent search and  ...  The paper benefited tremendously from discussions at the March 2005 Dagstuhl Seminar on the future of multimedia and I would like to particularly thank Marcel Worring, Marc Davis, Lloyd Rutledge, Mubarak  ... 
doi:10.1007/11526346_1 fatcat:h5pd3twzwraxniomnqofh6qaxq

Word Recognition System Using ANN

Dr. J.Kejiya Rani
2016 International Journal Of Engineering And Computer Science  
Recognition of handwritten Hindi text. Developments of OCR systems for the Indian language scripts are gaining importance because of their large market potential.  ...  This paper deals with the concept of Optical Character Recognition (OCR) and its various stages like pre-processing, segmentation, feature extraction, classification and post-processing.  ...  Figure 1 . 1 : 11 Different types of character recognition systems In the past, researchers tried to develop the OCR for printed Hindi text.  ... 
doi:10.18535/ijecs/v5i12.15 fatcat:cubiohi26ze23lnvnppzypq2p4
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