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ORCIDJournal of Biomedical Semantics, Volume 6
Volume 6, 2015
- Senay Kafkas
, Jee-Hyub Kim, Xingjun Pi, Johanna R. McEntyre:
Database citation in supplementary data linked to Europe PubMed Central full text biomedical articles. 1 - Junguk Hur, Arzucan Özgür, Zuoshuang Xiang, Yongqun He:
Development and application of an interaction network ontology for literature mining of vaccine-associated gene-gene interactions. 2 - Kiyoko F. Aoki-Kinoshita, Akira R. Kinjo, Mizuki Morita, Yoshinobu Igarashi, Yi-an Chen, Yasumasa Shigemoto, Takatomo Fujisawa, Yukie Akune, Takeo Katoda, Anna Kokubu, Takaaki Mori, Mitsuteru Nakao, Shuichi Kawashima, Shinobu Okamoto, Toshiaki Katayama, Soichi Ogishima:
Implementation of linked data in the life sciences at BioHackathon 2011. 3 - Zuoshuang Xiang, Jie Zheng, Yu Lin, Yongqun He:
Ontorat: automatic generation of new ontology terms, annotations, and axioms based on ontology design patterns. 4 - Eleni Mina, Mark Thompson, Rajaram Kaliyaperumal, Jun Zhao, Eelke van der Horst, Zuotian Tatum, Kristina M. Hettne, Erik A. Schultes, Barend Mons, Marco Roos:
Nanopublications for exposing experimental data in the life-sciences: a Huntington's Disease case study. 5 - Robert Hoehndorf, Michael Gruenberger, Georgios V. Gkoutos, Paul N. Schofield:
Similarity-based search of model organism, disease and drug effect phenotypes. 6 - Senay Kafkas, Xingjun Pi, Nikos Marinos, Francesco Talo', Andrew Morrison, Johanna R. McEntyre:
Section level search functionality in Europe PMC. 7 - Xiao Fu, Riza Theresa Batista-Navarro, Rafal Rak, Sophia Ananiadou:
Supporting the annotation of chronic obstructive pulmonary disease (COPD) phenotypes with text mining workflows. 8 - Christopher S. Funk, Indika Kahanda, Asa Ben-Hur, Karin M. Verspoor:
Evaluating a variety of text-mined features for automatic protein function prediction with GOstruct. 9 - Janna Hastings, Nina Jeliazkova, Gareth I. Owen, Georgia Tsiliki, Cristian R. Munteanu, Christoph Steinbeck, Egon L. Willighagen:
eNanoMapper: harnessing ontologies to enable data integration for nanomaterial risk assessment. 10 - Cynthia L. Smith, Janan T. Eppig:
Expanding the mammalian phenotype ontology to support automated exchange of high throughput mouse phenotyping data generated by large-scale mouse knockout screens. 11 - Patrick Lambrix, Fang Wei-Kleiner, Zlatan Dragisic:
Completing the is-a structure in light-weight ontologies. 12 - Rainer Winnenburg, Jonathan M. Mortensen, Olivier Bodenreider:
Using description logics to evaluate the consistency of drug-class membership relations in NDF-RT. 13 - Mary Regina Boland, Nicholas P. Tatonetti, George Hripcsak:
Development and validation of a classification approach for extracting severity automatically from electronic health records. 14 - Kristina Doing-Harris, Yarden Livnat, Stéphane M. Meystre:
Automated concept and relationship extraction for the semi-automated ontology management (SEAM) system. 15 - Hugo Leroux, Laurent Lefort:
Semantic enrichment of longitudinal clinical study data using the CDISC standards and the semantic statistics vocabularies. 16 - Irene Papatheodorou, Anika Oellrich, Damian Smedley:
Linking gene expression to phenotypes via pathway information. 17 - Rainer Winnenburg, Alfred Sorbello, Olivier Bodenreider:
Exploring adverse drug events at the class level. 18 - Lee B. Peters, Nathan J. Bahr, Olivier Bodenreider:
Evaluating drug-drug interaction information in NDF-RT and DrugBank. 19 - Rebekka Alm, Dagmar Waltemath, Markus Wolfien, Olaf Wolkenhauer, Ron Henkel:
Annotation-based feature extraction from sets of SBML models. 20 - Tudor Groza, Tania Tudorache, Peter N. Robinson, Andreas Zankl:
Capturing domain knowledge from multiple sources: the rare bone disorders use case. 21 - Alina Petrova, Yue Ma, George Tsatsaronis, Maria Kissa, Felix Distel, Franz Baader, Michael Schroeder:
Formalizing biomedical concepts from textual definitions. 22 - Muhammad Amith, Yang Gong, Rachel Cunningham, Julie Boom, Cui Tao:
Developing VISO: Vaccine Information Statement Ontology for patient education. 23 - Nigel Collier, Anika Oellrich, Tudor Groza:
Concept selection for phenotypes and diseases using learn to rank. 24 - Michael J. Cairelli, Marcelo Fiszman, Han Zhang, Thomas C. Rindflesch:
Networks of neuroinjury semantic predications to identify biomarkers for mild traumatic brain injury. 25 - Victor Christen, Michael Hartung, Anika Groß:
Region Evolution eXplorer - A tool for discovering evolution trends in ontology regions. 26 - Peggy Cellier, Thierry Charnois, Marc Plantevit, Christophe Rigotti, Bruno Crémilleux, Olivier Gandrillon, Jirí Kléma, Jean-Luc Manguin:
Sequential pattern mining for discovering gene interactions and their contextual information from biomedical texts. 27 - Dirk Weissenborn, Michael Schroeder, George Tsatsaronis:
Discovering relations between indirectly connected biomedical concepts. 28 - Geraint Duck, Aleksandar Kovacevic, David L. Robertson, Robert Stevens, Goran Nenadic:
Ambiguity and variability of database and software names in bioinformatics. 29 - Asami Suzuki, Takako Takai-Igarashi, Jun Nakaya, Hiroshi Tanaka:
Development of an Ontology for Periodontitis. 30 - Amir H. Asiaee, Todd Minning, Prashant Doshi, Rick L. Tarleton:
A framework for ontology-based question answering with application to parasite immunology. 31 - Fiona Cunningham, Barry Moore, Nicole Ruiz-Schultz, Graham R. S. Ritchie, Karen Eilbeck:
Improving the Sequence Ontology terminology for genomic variant annotation. 32 - Yuji Zhang, Puqiang Wu, Yi Luo, Cui Tao:
Identification of sex-associated network patterns in Vaccine-Adverse Event Association Network in VAERS. 33 - Irena Spasic, Bo Zhao, Christopher Jones, Kate Button:
KneeTex: an ontology-driven system for information extraction from MRI reports. 34 - Mikhail K. Levin, Lindsay G. Cowell:
owlcpp: a C++ library for working with OWL ontologies. 35 - Pierre-Yves Rabattu, Benoit Massé, Federico Ulliana, Marie-Christine Rousset, Damien Rohmer, Jean-Claude Léon, Olivier Palombi:
My Corporis Fabrica Embryo: An ontology-based 3D spatio-temporal modeling of human embryo development. 36 - Yu Lin, Zuoshuang Xiang, Yongqun He:
Ontology-based representation and analysis of host-Brucella interactions. 37 - Toyofumi Fujiwara, Yasunori Yamamoto:
Colil: a database and search service for citation contexts in the life sciences domain. 38 - Jesse C. J. van Dam, Jasper J. Koehorst, Peter J. Schaap, Vítor A. P. Martins dos Santos, María Suárez-Diez:
RDF2Graph a tool to recover, understand and validate the ontology of an RDF resource. 39 - Larisa N. Soldatova, Nigel Collier, Anika Oellrich, Tudor Groza, Karin Verspoor, Philippe Rocca-Serra, Michel Dumontier, Nigam H. Shah:
Special issue on bio-ontologies and phenotypes. 40 - Alexandr Uciteli, Heinrich Herre:
OntoStudyEdit: a new approach for ontology-based representation and management of metadata in clinical and epidemiological research. 41
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