Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: cran: SPARQL

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/SPARQL

SPARQL client
13 versions
Latest release: about 11 years ago
2 dependent packages
0 downloads

Papers Mentioning SPARQL 660

10.1186/1471-2164-11-S4-S24
Algorithms and semantic infrastructure for mutation impact extraction and grounding
Cited by: 33
Author(s): Jonas Bergman Laurila, Nona Naderi, René Witte, Alexandre Riazanov, Alexandre Kouznetsov, Christopher J. O. Baker
Software Mentions: 2
Published: almost 14 years ago
10.1186/s12859-019-2693-9
PGxO and PGxLOD: a reconciliation of pharmacogenomic knowledge of various provenances, enabling further comparison
Cited by: 19
Author(s): Pierre Monnin, Joël Legrand, Graziella Husson, Patrice Ringot, Andon Tchechmedjiev, Clément Jonquet, Amedeo Napoli, Adrien Coulet
Software Mentions: 2
Published: over 5 years ago
10.1093/pcp/pct178
ATTED-II in 2014: Evaluation of Gene Coexpression in Agriculturally Important Plants
Cited by: 92
Author(s): Takeshi Obayashi, Yasunobu Okamura, Satoshi Ito, Shu Tadaka, Yosuke Aoki, Matsuyuki Shirota, Kengo Kinoshita
Software Mentions: 2
Published: almost 11 years ago
10.1093/gigascience/gix029
Calculating the quality of public high-throughput sequencing data to obtain a suitable subset for reanalysis from the Sequence Read Archive
Cited by: 9
Author(s): Toshio Ohta, Takeru Nakazato, Hidemasa Bono
Software Mentions: 2
Published: over 7 years ago
10.1007/s10115-020-01468-x
“Just-in-time” generation of datasets by considering structured representations of given consent for GDPR compliance
Cited by: 5
Author(s): Christophe Debruyne, Harshvardhan J. Pandit, David Lewis, Declan O’Sullivan
Software Mentions: 2
Published: over 4 years ago
10.1007/978-3-030-53199-7_2
Chapter 2 Knowledge Graphs: The Layered Perspective
Cited by: 10
Author(s): Luigi Bellomarini, Emanuel Sallinger, Sahar Vahdati
Software Mentions: 2
Published: almost 5 years ago
10.1007/s13218-020-00686-3
Ontologies and Data Management: A Brief Survey
Cited by: 16
Author(s): Thomas Schneider, Mantas Šimkus
Software Mentions: 2
Published: over 4 years ago
10.7717/peerj-cs.318
ShExML: improving the usability of heterogeneous data mapping languages for first-time users
Cited by: 14
Author(s): Herminio García-González, Iovka Boneva, Sławek Staworko, José Emilio Labra Gayo, Juan Manuel Cueva Lovelle
Software Mentions: 2
Published: almost 4 years ago
10.3390/ijms161226148
Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders
Cited by: 41
Author(s): Martin Hofmann-Apitius, G. Ball, Stephan Gebel, Shweta Bagewadi, Bernard de Bono, Reinhard Schneider, Matt Page, Alpha Tom Kodamullil, Erfan Younesi, Christian Ebeling, Jesper Tegnér, Luc Canard
Software Mentions: 2
Published: almost 9 years ago
10.1038/sdata.2018.271
Genome-wide polyadenylation site mapping datasets in the rice blast fungus Magnaporthe oryzae
Cited by: 3
Author(s): Marco Marconi, Ane Sesma, Julio Rodríguez‐Romero, María Lourdes Rosano González, Mark D. Wilkinson
Software Mentions: 2
Published: almost 6 years ago
10.1186/1471-2105-12-S10-S17
Scenario driven data modelling: a method for integrating diverse sources of data and data streams
Cited by: 4
Author(s): Shelton D. Griffith, Daniel J. Quest, Thomas Brettin, Robert W. Cottingham
Software Mentions: 2
Published: about 13 years ago
10.1186/2041-1480-4-40
The Ontology of Vaccine Adverse Events (OVAE) and its usage in representing and analyzing adverse events associated with US-licensed human vaccines
Cited by: 36
Author(s): Erica Marcos, Bin Zhao, Yongqun He
Software Mentions: 2
Published: almost 11 years ago
10.1371/journal.pone.0252869
Streetonomics: Quantifying culture using street names
Cited by: 2
Author(s): Melanie Bancilhon, Marios Constantinides, Edyta P. Bogucka, Luca Maria Aiello, Daniele Quercia
Software Mentions: 2
Published: over 3 years ago
10.1186/1758-2946-3-16
Semantic Web integration of Cheminformatics resources with the SADI framework
Cited by: 31
Author(s): Leonid L. Chepelev, Michel Dumontier
Software Mentions: 2
Published: over 13 years ago
10.1016/j.csbj.2021.01.037
Intestinal microbiota alterations by dietary exposure to chemicals from food cooking and processing. Application of data science for risk prediction
Cited by: 4
Author(s): Sergio Ruiz-Saavedra, Herminio García-González, Silvia Arboleya, Nuria Salazar, José Emilio Labra Gayo, Irene Dı́az, Miguel Gueimonde, Sonia González
Software Mentions: 2
Published: almost 4 years ago
10.2196/jmir.2043
Building a Transnational Biosurveillance Network Using Semantic Web Technologies: Requirements, Design, and Preliminary Evaluation
Cited by: 31
Author(s): Douglas Teodoro, Emilie Pasche, Julien Gobeill, Stéphane Emonet, Patrick Ruch, Christian Lovis
Software Mentions: 2
Published: over 12 years ago
10.1186/s13326-021-00249-x
Linking common human diseases to their phenotypes; development of a resource for human phenomics
Cited by: 6
Author(s): Şenay Kafkas, Sara Althubaiti, Georgios V. Gkoutos, Robert Hoehndorf, Paul N. Schofield
Software Mentions: 2
Published: about 3 years ago
10.1038/s41597-019-0286-0
Experiment design driven FAIRification of omics data matrices, an exemplar
Cited by: 12
Author(s): Philippe Rocca-Serra, Susanna-Assunta Sansone
Software Mentions: 2
Published: almost 5 years ago
10.1186/2041-1480-4-37
PAV ontology: provenance, authoring and versioning
Cited by: 53
Author(s): Paolo Ciccarese, Stian Soiland‐Reyes, Khalid Belhajjame, Alasdair J. G. Gray, Carole Goble, Tim W. Clark
Software Mentions: 2
Published: almost 12 years ago
10.1186/s12911-017-0424-6
Orchestrating differential data access for translational research: a pilot implementation
Cited by: 5
Author(s): Marco Brandizi, Olga Melnichuk, Raffael Bild, Florian Kohlmayer, Benedicto Rodriguez-Castro, Helmut Spengler, Klaus A. Kuhn, Wolfgang Kuchinke, Christian Ohmann, Timo Mustonen, Mikael Lindén, Tommi Nyrönen, Ilkka Lappalainen, Alvis Brāzma, Ugis Sarkans
Software Mentions: 2
Published: over 7 years ago
10.1186/s12859-015-0469-4
An evidence-based approach to identify aging-related genes in Caenorhabditis elegans
Cited by: 9
Author(s): Alison Callahan, Juan José Cifuentes, Michel Dumontier
Software Mentions: 2
Published: almost 10 years ago
10.1093/database/baw040
RegenBase: a knowledge base of spinal cord injury biology for translational research
Cited by: 10
Author(s): Alison Callahan, Saminda Abeyruwan, Hassan Al-Ali, Kazuhiko Sakurai, Adam R. Ferguson, Phillip G. Popovich, Nigam H. Shah, Ubbo Visser, John L. Bixby, Vance Lemmon
Software Mentions: 2
Published: almost 9 years ago
10.1093/database/baz067
SOCCOMAS: a FAIR web content management system that uses knowledge graphs and that is based on semantic programming
Cited by: 6
Author(s): Lars Vogt, Roman Baum, Philipp Bhatty, Christian Köhler, Sandra Meid, Björn Quast, Peter Grobe
Software Mentions: 2
Published: almost 6 years ago
10.1371/journal.pone.0040946
Identifying Novel Drug Indications through Automated Reasoning
Cited by: 16
Author(s): Luis Tari, Nguyen Vo, Shanshan Liang, Jagruti Patel, Chitta Baral, James J. Cai
Software Mentions: 2
Published: over 12 years ago
10.1093/database/bau123
Determining similarity of scientific entities in annotation datasets
Cited by: 2
Author(s): Guillermo Palma, María-Esther Vidal, Eric S. Haag, Louiqa Raschid, Andreas Thor
Software Mentions: 2
Published: almost 10 years ago
10.1093/database/baab046
Functionathon: a manual data mining workflow to generate functional hypotheses for uncharacterized human proteins and its application by undergraduate students
Cited by: 7
Author(s): Paula D. Duek, Camille Mary, Monique Zahn-Zabal, Amos Marc Bairoch, Lydie Lane
Software Mentions: 2
Published: almost 4 years ago
10.1093/database/bax025
WikiGenomes: an open web application for community consumption and curation of gene annotation data in Wikidata
Cited by: 25
Author(s): Tim Putman, Sebastien Lelong, Sebastian Burgstaller-Muehlbacher, Andra Waagmeester, Colin Diesh, Nathan Dunn, Monica Muñoz-Torres, Gregory S. Stupp, Chunlei Wu, Andrew I. Su, Benjamin M. Good
Software Mentions: 2
Published: almost 8 years ago
10.1186/s13326-019-0199-z
Integrating terminologies into standard SQL: a new approach for research on routine data
Cited by: 6
Author(s): André Sander, Roland R. Wauer
Software Mentions: 2
Published: over 5 years ago
10.1038/s41598-018-21417-7
Improving prediction of heart transplantation outcome using deep learning techniques
Cited by: 46
Author(s): Dennis Medved, Mattias Ohlsson, Peter Höglund, Bodil Andersson, Pierre Nugues, Johan Nilsson
Software Mentions: 2
Published: over 6 years ago
10.1038/s41598-018-24457-1
Integrative annotation and knowledge discovery of kinase post-translational modifications and cancer-associated mutations through federated protein ontologies and resources
Cited by: 22
Author(s): Liang-Chin Huang, Karen Ross, Timothy R. Baffi, Harold J. Drabkin, Krys J. Kochut, Zheng Ruan, Peter D’Eustachio, Daniel McSkimming, Cecilia N. Arighi, Chuming Chen, Darren A. Natale, Cynthia L. Smith, Pascale Gaudet, Alexandra C. Newton, Cathy H. Wu, Natarajan Kannan
Software Mentions: 2
Published: over 6 years ago
10.1186/1471-2105-9-S5-S1
Ontology Design Patterns for bio-ontologies: a case study on the Cell Cycle Ontology
Cited by: 67
Author(s): Mikel Egaña Aranguren, Erick Antezana, Martin Kuiper, Robert Stevens
Software Mentions: 2
Published: over 16 years ago
10.1038/s41598-019-54445-y
Metabolic shift induced by synthetic co-cultivation promotes high yield of chain elongated acids from syngas
Cited by: 40
Author(s): Martijn Diender, Ivette Parera Olm, Marten Gelderloos, Jasper J. Koehorst, Peter J. Schaap, Alfons Johannes Maria Stams, Diana Z. Sousa
Software Mentions: 2
Published: almost 5 years ago
10.1186/s13326-019-0197-1
Seeing the whole picture: integrated pre-surgery reports with PreOptique
Cited by: 1
Author(s): Guillermo Vega-Gorgojo, Laura Slaughter, Martin Giese
Software Mentions: 2
Published: over 5 years ago
10.1186/s12859-017-1979-z
Comparison, alignment, and synchronization of cell line information between CLO and EFO
Cited by: 4
Author(s): Edison Ong, Sirarat Sarntivijai, Simon Jupp, Helen Parkinson, Yongqun He
Software Mentions: 2
Published: almost 7 years ago
10.1186/1471-2105-13-S1-S10
A semantic web framework to integrate cancer omics data with biological knowledge
Cited by: 18
Author(s): Matthew Holford, James P. McCusker, Kei‐Hoi Cheung, Michael Krauthammer
Software Mentions: 2
Published: almost 13 years ago
10.2196/jmir.3650
Medical Content Searching, Retrieving, and Sharing Over the Internet: Lessons Learned From the mEducator Through a Scenario-Based Evaluation
Cited by: 3
Author(s): Άθως Αντωνιάδης, Iolie Nicolaidou, Dimitris Spachos, Jarkko Mylläri, Daniela Giordano, Eleni Dafli, Evangelia Mitsopoulou, Christos N. Schizas, Constantinos S. Pattichis, Maria Nikolaidou, Panagiotis D. Bamidis
Software Mentions: 2
Published: about 9 years ago
10.1186/s13326-018-0176-y
DMTO: a realistic ontology for standard diabetes mellitus treatment
Cited by: 53
Author(s): Shaker El–Sappagh, Daehan Kwak, Farman Ali, Kyung Sup Kwak
Software Mentions: 2
Published: almost 7 years ago
10.1186/2041-1480-3-16
Profiling structured product labeling with NDF-RT and RxNorm
Cited by: 14
Author(s): Qian Zhu, Guoqian Jiang, Christopher G. Chute
Software Mentions: 2
Published: almost 13 years ago
10.1093/database/bav028
DisGeNET: a discovery platform for the dynamical exploration of human diseases and their genes
Cited by: 762
Author(s): Janet Piñero, Núria Queralt-Rosiñach, Àlex Bravo, Jordi Deu-Pons, Anna Bauer-Mehren, Martín Baron, Ferrán Sanz, Laura I. Furlong
Software Mentions: 2
Published: over 9 years ago
10.7717/peerj-cs.335
Search, access, and explore life science nanopublications on the Web
Cited by: 1
Author(s): Fabio Giachelle, Dennis Dosso, Gianmaria Silvello
Software Mentions: 2
Published: almost 4 years ago
10.12688/hrbopenres.12851.2
Data linkage in medical science using the resource description framework: the AVERT model
Cited by: 5
Author(s): Brian P. Reddy, Brett Houlding, Lucy Hederman, Mark Canney, Christophe Debruyne, Ciaran O'Brien, Alan Meehan, Declan O’Sullivan, Mark A. Little
Software Mentions: 2
Published: over 5 years ago
10.1155/2015/724196
A Novel Way to Relate Ontology Classes
Cited by: 4
Author(s): Ami T. Choksi, Devesh C. Jinwala
Software Mentions: 2
Published: almost 10 years ago
10.1155/2015/931258
Semantic Clustering of Search Engine Results
Cited by: 5
Author(s): Sara Saad Soliman, Mahmoud Elsayed, Yasser Hassan
Software Mentions: 2
Published: almost 10 years ago
10.1002/ggn2.10050
Design of a FAIR digital data health infrastructure in Africa for COVID‐19 reporting and research
Cited by: 21
Author(s): Mirjam van Reisen, Francisca Oladipo, M.J.W. Stokmans, Mouhamed Mpezamihgo, Joseph Bamidele Awotunde, Erik Schultes, Mariam Basajja, Aliya Aktau, Samson Yohannes Amare, Getu Tadele Taye, Putu Hadi Purnama Jati, Kudakwashe Chindoza, Morgane Wirtz, M. El Ghardallou, Gertjan van Stam, Wondimu Ayele, Reginald Nalugala, Ibrahim Abdullahi, Obinna Osigwe, John Graybeal, Araya Abrha Medhanyie, Abdullahi Abubakar Kawu, Fenghong Liu, Katy Wolstencroft, Erik Flikkenschild, Yi Chun Lin, Joëlle Stocker, Mark A. Musen
Software Mentions: 2
Published: over 3 years ago
10.1093/database/bay101
A survey of ontology learning techniques and applications
Cited by: 114
Author(s): Muhammad Nabeel Asim, Muhammad Wasim, Muhammad Usman Ghani Khan, Waqar Mahmood, Hafiza Mahnoor Abbasi
Software Mentions: 2
Published: almost 7 years ago
10.1093/database/bau064
Processing biological literature with customizable Web services supporting interoperable formats
Cited by: 12
Author(s): Rafał Rak, Riza Theresa Batista-Navarro, Jacob Carter, Andrew Rowley, Sophia Ananiadou
Software Mentions: 2
Published: over 10 years ago
10.1007/978-3-030-59833-4_5
QueDI: From Knowledge Graph Querying to Data Visualization
Cited by: 4
Author(s): Renato De Donato, Martina Garofalo, Delfina Malandrino, Maria Angela Pellegrino, Andrea Petta, Vittorio Scarano
Software Mentions: 2
Published: almost 5 years ago
10.1007/978-3-030-59833-4_4
Semantic Annotation, Representation and Linking of Survey Data
Cited by: 0
Author(s): Felix Bensmann, Andrea Papenmeier, Dagmar Kern, Benjamin Zapilko, Stefan Dietze
Software Mentions: 2
Published: almost 5 years ago
10.1007/978-3-030-59833-4_1
The New DBpedia Release Cycle: Increasing Agility and Efficiency in Knowledge Extraction Workflows
Cited by: 7
Author(s): Marvin Hofer, Sebastian Hellmann, Milan Dojchinovski, Johannes Frey
Software Mentions: 2
Published: almost 5 years ago
10.1007/978-3-030-59833-4_3
A Knowledge Retrieval Framework for Household Objects and Actions with External Knowledge
Cited by: 8
Author(s): Alexandros Vassiliades, Nick Bassiliades, Filippos Gouidis, Theodore Patkos
Software Mentions: 2
Published: almost 5 years ago
10.1186/s13326-017-0160-y
Using semantics for representing experimental protocols
Cited by: 8
Author(s): Olga Giraldo, Alexander García, Federico López, Óscar Corcho
Software Mentions: 2
Published: about 7 years ago
10.1093/database/baaa015
Structured reviews for data and knowledge-driven research
Cited by: 5
Author(s): Núria Queralt-Rosiñach, Gregory S. Stupp, Tong Shu Li, Michael Mayers, Maureen E. Hoatlin, Matthew Might, Benjamin M. Good, Andrew I. Su
Software Mentions: 2
Published: almost 5 years ago
10.1186/s13023-021-02004-y
The de novo FAIRification process of a registry for vascular anomalies
Cited by: 6
Author(s): Karlijn H. J. Groenen, Annika Jacobsen, Martijn G. Kersloot, Bruna dos Santos Vieira, David van Enckevort, Rajaram Kaliyaperumal, Derk L. Arts, Peter A.C. ’t Hoen, Ronald Cornet, Marco Roos, Leo Schultze Kool
Software Mentions: 1
Published: about 3 years ago
10.1152/ajplung.00139.2017
LungMAP: The Molecular Atlas of Lung Development Program
Cited by: 154
Author(s): Mary-Anne Ardini-Poleske, Robert Clark, Charles Ansong, James P. Carson, Richard A. Corley, Gail H. Deutsch, James S. Hagood, Naftali Kaminski, Thomas J. Mariani, S. Steven Potter, Gloria S. Pryhuber, David Warburton, Jeffrey A. Whitsett, Scott M. Palmer, Namasivayam Ambalavanan
Software Mentions: 1
Published: about 7 years ago
10.1186/1471-2105-9-S9-S5
ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining
Cited by: 33
Author(s): Tianxiao Huan, Andrey Sivachenko, Scott H. Harrison, Jake Y. Chen
Software Mentions: 1
Published: over 16 years ago
10.1186/1471-2105-12-S4-S6
Deploying mutation impact text-mining software with the SADI Semantic Web Services framework
Cited by: 12
Author(s): Alexandre Riazanov, Jonas Bergman Laurila, Christopher J. O. Baker
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2105-13-S1-S1
Semantic Web Applications and Tools for the Life Sciences: SWAT4LS 2010
Cited by: 1
Author(s): Albert Burger, Adrian Paschke, Paolo Romano, M. Scott Marshall, Andrea Splendiani
Software Mentions: 1
Published: almost 13 years ago
10.1186/s12859-017-1531-1
SPANG: a SPARQL client supporting generation and reuse of queries for distributed RDF databases
Cited by: 7
Author(s): Hirokazu Chiba, Ikuo Uchiyama
Software Mentions: 1
Published: almost 8 years ago
10.1186/1471-2105-12-S1-S51
Semantically enabled and statistically supported biological hypothesis testing with tissue microarray databases
Cited by: 2
Author(s): Young Soo Song, Chan Hee Park, Hee Soon Chung, Hyunjung Shin, Jihun Kim, Ju Han Kim
Software Mentions: 1
Published: almost 14 years ago
10.1186/1471-2105-13-S1-S5
Populous: a tool for building OWL ontologies from templates
Cited by: 38
Author(s): Simon Jupp, Matthew Horridge, Luigi Iannone, Julie Klein, Stuart Owen, Joost P. Schanstra, Katy Wolstencroft, Robert Stevens
Software Mentions: 1
Published: almost 13 years ago
10.1186/s12859-017-1999-8
Inferring ontology graph structures using OWL reasoning
Cited by: 22
Author(s): Miguel Ángel Rodríguez-García, Robert Hoehndorf
Software Mentions: 1
Published: almost 7 years ago
10.1186/1471-2105-13-S4-S7
Towards linked open gene mutations data
Cited by: 10
Author(s): Achille Zappa, Andrea Splendiani, Paolo Romano
Software Mentions: 1
Published: over 12 years ago
10.1186/1471-2105-14-126
Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases
Cited by: 5
Author(s): Julien Wollbrett, Pierre Larmande, Frédéric de Lamotte, Manuel Ruiz
Software Mentions: 1
Published: over 11 years ago
10.1186/s12859-019-2729-1
ODAE: Ontology-based systematic representation and analysis of drug adverse events and its usage in study of adverse events given different patient age and disease conditions
Cited by: 9
Author(s): Hong Yu, Solomiya Nysak, Noemi Garg, Edison Ong, Xianwei Ye, Xiangyan Zhang, Yongqun He
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2105-13-S1-S3
Gauging triple stores with actual biological data
Cited by: 14
Author(s): Vladimir Mironov, Nirmala Seethappan, Ward Blondé, Erick Antezana, Andrea Splendiani, Martin Kuiper
Software Mentions: 1
Published: almost 13 years ago
10.1186/s12859-019-2723-7
OSCI: standardized stem cell ontology representation and use cases for stem cell investigation
Cited by: 5
Author(s): Yongqun He, William D. Duncan, Daniel J. Cooper, Jens Hansen, Ravi Iyengar, Edison Ong, Kendal Walker, Omar Tibi, Sam Smith, Lucas M. Serra, Jie Zheng, Sirarat Sarntivijai, Stephan C. Schürer, K. Sue O’Shea, Alexander D. Diehl
Software Mentions: 1
Published: over 5 years ago
10.1186/s12859-015-0456-9
Aber-OWL: a framework for ontology-based data access in biology
Cited by: 66
Author(s): Robert Hoehndorf, Luke T. Slater, Paul N. Schofield, Georgios V. Gkoutos
Software Mentions: 1
Published: almost 10 years ago
10.1186/1471-2105-10-S10-S10
A journey to Semantic Web query federation in the life sciences
Cited by: 53
Author(s): Kei‐Hoi Cheung, H. Robert Frost, M. Scott Marshall, Eric Prud’hommeaux, Matthias Samwald, Jun Zhao, Adrian Paschke
Software Mentions: 1
Published: about 15 years ago
10.1186/1471-2105-12-303
Prototype semantic infrastructure for automated small molecule classification and annotation in lipidomics
Cited by: 22
Author(s): Leonid L. Chepelev, Alexandre Riazanov, Alexandre Kouznetsov, Hong Sang Low, Michel Dumontier, Christopher J. O. Baker
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2105-15-S4-S2
DNAVaxDB: the first web-based DNA vaccine database and its data analysis
Cited by: 17
Author(s): Rebecca Racz, Xinna Li, Mukti Patel, Zuoshuang Xiang, Yongqun He
Software Mentions: 1
Published: over 10 years ago
10.1186/1471-2105-12-461
A unified framework for managing provenance information in translational research
Cited by: 21
Author(s): Satya S. Sahoo, Vinh Nguyen, Olivier Bodenreider, Priti Parikh, Todd Minning, Amit P. Sheth
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2105-8-S3-S6
Towards Semantic e-Science for Traditional Chinese Medicine
Cited by: 24
Author(s): Huajun Chen, Yuxin Mao, Xiaoqing Zheng, Meng Cui, Yi Feng, Shuiguang Deng, Aining Yin, Chunying Zhou, Jingming Tang, Xiaohong Jiang, Zhaohui Wu
Software Mentions: 1
Published: over 17 years ago
10.1186/1471-2105-10-S5-S4
Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships
Cited by: 56
Author(s): Xiumei Qu, Ranga Chandra Gudivada, Anil G. Jegga, Eric Neumann, Bruce J. Aronow
Software Mentions: 1
Published: over 15 years ago
10.1186/1471-2105-12-S15-S1
Towards mainstreaming of biodiversity data publishing: recommendations of the GBIF Data Publishing Framework Task Group
Cited by: 22
Author(s): Tom Moritz, Sanjay Krishnan, Dave Roberts, Peter Ingwersen, Donat Agosti, Lyubomir Penev, Matthew Cockerill, Vishwas Chavan
Software Mentions: 1
Published: almost 13 years ago
10.1186/1471-2105-12-256
Semantic inference using chemogenomics data for drug discovery
Cited by: 16
Author(s): Qian Zhu, Yongtao Sun, Sashikiran Challa, Ying Ding, Michael S. Lajiness, David Wild
Software Mentions: 1
Published: over 13 years ago
10.1186/1471-2105-8-S3-S2
Advancing translational research with the Semantic Web
Cited by: 254
Author(s): Alan Ruttenberg, Tim W. Clark, William J. Bug, Matthias Samwald, Olivier Bodenreider, Helen Chen, Donald Doherty, Kerstin Forsberg, Yong Gao, Vipul Kashyap, June Kinoshita, Joanne S. Luciano, M. Scott Marshall, Chimezie Ogbuji, Jonathan Rees, Susie Stephens, George S. K. Wong, Elizabeth Wu, Davide Zaccagnini, Tonya Hongsermeier, Eric Neumann, Iván Herman, Kei‐Hoi Cheung
Software Mentions: 1
Published: over 17 years ago
10.1186/1471-2105-10-S10-S9
Structuring and extracting knowledge for the support of hypothesis generation in molecular biology
Cited by: 16
Author(s): Marco Roos, M. Scott Marshall, Andrew Gibson, Martijn J. Schuemie, Edgar Meij, Sophia Katrenko, Willem Robert van Hage, Konstantinos F. Krommydas, Pieter Adriaans
Software Mentions: 1
Published: about 15 years ago
10.1186/s12859-019-2987-y
Model annotation and discovery with the Physiome Model Repository
Cited by: 20
Author(s): Dewan M. Sarwar, Reza Kalbasi, John H. Gennari, Brian E. Carlson, Maxwell Lewis Neal, Bernard de Bono, Koray Atalağ, Peter Hunter, David Nickerson
Software Mentions: 1
Published: about 5 years ago
10.1186/s12859-019-2724-6
The cell line ontology-based representation, integration and analysis of cell lines used in China
Cited by: 4
Author(s): Hongjie Pan, Xiaocui Bian, Sheng Yang, Yongqun He, Xiaolin Yang, Yuqin Liu
Software Mentions: 1
Published: over 5 years ago
10.1186/1471-2105-13-71
Cancer bioinformatics: A new approach to systems clinical medicine
Cited by: 64
Author(s): Duojiao Wu, Catherine M. Rice, Xiangdong Wang
Software Mentions: 1
Published: over 12 years ago
10.1186/1471-2105-13-S1-S2
SPARQL Assist language-neutral query composer
Cited by: 10
Author(s): Erin McCarthy, Benjamin P. Vandervalk, Mark D. Wilkinson
Software Mentions: 1
Published: almost 13 years ago
10.1186/s12859-017-1981-5
Ontological representation, integration, and analysis of LINCS cell line cells and their cellular responses
Cited by: 10
Author(s): Edison Ong, Jiehong Xie, Zhaohui Ni, Qingping Liu, Sirarat Sarntivijai, Yuling Lin, Daniel J. Cooper, Raymond Terryn, Vasileios Stathias, Caty Chung, Stephan C. Schürer, Yongqun He
Software Mentions: 1
Published: almost 7 years ago
10.1186/s12859-015-0559-3
KaBOB: ontology-based semantic integration of biomedical databases
Cited by: 63
Author(s): Kevin Livingston, Michael Bada, William A. Baumgartner, Lawrence Hunter
Software Mentions: 1
Published: over 9 years ago
10.1186/s12859-021-04008-8
Ontology-guided segmentation and object identification for developmental mouse lung immunofluorescent images
Cited by: 0
Author(s): Anna Maria Masci, S. M. White, Ben Neely, Maryanne Ardini-Polaske, Carol Hill, Ravi S. Misra, Bruce J. Aronow, Nathan Gaddis, Lina Yang, Susan E. Wert, Scott M. Palmer, Cliburn Chan
Software Mentions: 1
Published: over 3 years ago
10.1186/s12859-019-3002-3
ROBOT: A Tool for Automating Ontology Workflows
Cited by: 81
Author(s): Rebecca Jackson, James P. Balhoff, Eric Douglass, Nomi L. Harris, Christopher J. Mungall, James A. Overton
Software Mentions: 1
Published: over 5 years ago
10.1186/1472-6963-11-26
An ontology-based nurse call management system (oNCS) with probabilistic priority assessment
Cited by: 17
Author(s): Femke Ongenae, Dries Myny, Tom Dhaene, Tom Defloor, Dirk Van Goubergen, Piet Verhoeve, Johan Decruyenaere, Filip De Turck
Software Mentions: 1
Published: almost 14 years ago
10.1186/1755-8794-7-S1-S12
Automatic detection and resolution of measurement-unit conflicts in aggregated data
Cited by: 4
Author(s): Soroush Samadian, Bruce M. McManus, Mark D. Wilkinson
Software Mentions: 1
Published: over 10 years ago
10.1186/s12911-019-0798-8
QAnalysis: a question-answer driven analytic tool on knowledge graphs for leveraging electronic medical records for clinical research
Cited by: 20
Author(s): Tong Ruan, Yueqi Huang, Xuli Liu, Yuhang Xia, Ju Gao
Software Mentions: 1
Published: over 5 years ago
10.1186/s12911-021-01524-8
Pragmatic MDR: a metadata repository with bottom-up standardization of medical metadata through reuse
Cited by: 4
Author(s): Stefan Hegselmann, Michael Storck, Sophia Geßner, Philipp Neuhaus, Julian Varghese, Philipp Bruland, Alexandra Meidt, Cornelia Mertens, Sarah Riepenhausen, Sonja Baier, Benedikt Stöcker, Jörg Henke, Carsten Oliver Schmidt, Martin Dugas
Software Mentions: 1
Published: over 3 years ago
10.1186/s12911-020-01287-8
Friend of a Friend with Benefits ontology (FOAF+): extending a social network ontology for public health
Cited by: 6
Author(s): Muhammad Amith, Kayo Fujimoto, Rebecca L. Mauldin, Cui Tao
Software Mentions: 1
Published: almost 4 years ago
10.1186/1472-6947-10-65
AGUIA: autonomous graphical user interface assembly for clinical trials semantic data services
Cited by: 5
Author(s): Miria C. Correa, Helena F. Deus, Ana Tereza Ribeiro de Vasconcelos, Yuki Hayashi, Jaffer A. Ajani, Srikrishna Patnana, Jonas S. Almeida
Software Mentions: 1
Published: about 14 years ago
10.1186/s12911-019-0859-z
Architecture and usability of OntoKeeper, an ontology evaluation tool
Cited by: 11
Author(s): Muhammad Amith, Frank J. Manion, Chunnian Liang, Marcelline R. Harris, Dennis Wang, Yongqun He, Cui Tao
Software Mentions: 1
Published: over 5 years ago
10.1186/s12911-020-01280-1
How to interact with medical terminologies? Formative usability evaluations comparing three approaches for supporting the use of MedDRA by pharmacovigilance specialists
Cited by: 1
Author(s): Romaric Marcilly, Laura Douzé, Sébastien Ferré, Bissan Audeh, Carlos Bobed, Agnés Lillo‐Le Louët, Jean-Baptiste Lamy, Cédric Bousquet
Software Mentions: 1
Published: about 4 years ago
10.1186/1753-6561-9-S5-A3
PubAnnotation-query: a search tool for corpora with multi-layers of annotation
Cited by: 6
Author(s): Jin-Dong Kim, K. Bretonnel Cohen, Jung‐Jae Kim
Software Mentions: 1
Published: over 9 years ago
10.1186/1756-0500-4-313
The RICORDO approach to semantic interoperability for biomedical data and models: strategy, standards and solutions
Cited by: 34
Author(s): Bernard de Bono, Robert Hoehndorf, Sarala M. Wimalaratne, Georgios V. Gkoutos, Pierre Grenon
Software Mentions: 1
Published: about 13 years ago
10.1186/1752-0509-5-38
Knowledge management for Systems Biology a general and visually driven framework applied to translational medicine
Cited by: 47
Author(s): Dieter Maier, Wenzel Kalus, Martin Wolff, Susana G. Kalko, Josep Roca, Igor Marín de Mas, Nahid Turan, Marta Cascante, Francesco Falciani, Miguel Hernández, Jordi Villà­-Freixa, Sascha Losko
Software Mentions: 1
Published: almost 14 years ago
10.1186/s12918-017-0510-5
Ontology-based systematic representation and analysis of traditional Chinese drugs against rheumatism
Cited by: 6
Author(s): Qingping Liu, Jiahao Wang, Yan Zhu, Yongqun He
Software Mentions: 1
Published: almost 7 years ago
10.1186/1752-0509-5-7
BiologicalNetworks - tools enabling the integration of multi-scale data for the host-pathogen studies
Cited by: 17
Author(s): Sergey Kozhenkov, Mayya Sedova, Yulia Dubinina, Amarnath Gupta, Animesh Ray, Julia Ponomarenko, Michael Baitaluk
Software Mentions: 1
Published: almost 14 years ago
10.1186/s12918-014-0091-5
BioModels linked dataset
Cited by: 12
Author(s): Sarala M. Wimalaratne, Pierre Grenon, Henning Hermjakob, Nicolas Le Novère, Camille Laibe
Software Mentions: 1
Published: over 10 years ago
10.1186/1756-0381-3-3
Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration
Cited by: 11
Author(s): Rex T. Nelson, Shulamit Avraham, Randy C. Shoemaker, Gregory D. May, Doreen Ware, Damian D. G. Gessler
Software Mentions: 1
Published: over 14 years ago