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Journal Articles
- 2014
[j14]Muhammad Saleem, Shanmukha S. Padmanabhuni
, Axel-Cyrille Ngonga Ngomo, Aftab Iqbal, Jonas S. Almeida, Stefan Decker, Helena F. Deus:
TopFed: TCGA Tailored Federated Query Processing and Linking to LOD. J. Biomed. Semant. 5: 47 (2014)- [j13]Maulik R. Kamdar, Dimitris Zeginis, Ali Hasnain, Stefan Decker, Helena F. Deus:
ReVeaLD: A user-driven domain-specific interactive search platform for biomedical research. J. Biomed. Informatics 47: 112-130 (2014) - [j12]Dimitris Zeginis, Ali Hasnain, Nikolaos Loutas, Helena Futscher Deus, Ronan Fox, Konstantinos A. Tarabanis:
A collaborative methodology for developing a semantic model for interlinking Cancer Chemoprevention linked-data sources. Semantic Web 5(2): 127-142 (2014) - [j11]Muhammad Saleem, Maulik R. Kamdar, Aftab Iqbal, Shanmukha S. Padmanabhuni, Helena F. Deus, Axel-Cyrille Ngonga Ngomo:
Big linked cancer data: Integrating linked TCGA and PubMed. J. Web Semant. 27-28: 34-41 (2014) - 2013
- [j10]David E. Robbins, Alexander Grüneberg, Helena F. Deus, Murat M. Tanik, Jonas S. Almeida:
A self-updating road map of The Cancer Genome Atlas. Bioinform. 29(10): 1333-1340 (2013) - [j9]Arlin Stoltzfus, Hilmar Lapp, Naim Matasci, Helena F. Deus, Brian Sidlauskas, Christian M. Zmasek, Gaurav Vaidya, Enrico Pontelli, Karen Cranston, Rutger A. Vos, Campbell O. Webb, Luke J. Harmon, Meg Pirrung, Brian C. O'Meara, Matthew W. Pennell, Siavash Mirarab, Michael S. Rosenberg, James P. Balhoff, Holly M. Bik, Tracy A. Heath, Peter E. Midford, Joseph W. Brown, Emily Jane McTavish, Jeet Sukumaran, Mark Westneat, Michael E. Alfaro, Aaron Steele, Greg Jordan:
Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient. BMC Bioinform. 14: 158 (2013) - 2012
- [j8]Helena F. Deus, Eric Prud'hommeaux, Michael Miller, Jun Zhao, James Malone, Tomasz Adamusiak, Jamie P. McCusker, Sudeshna Das, Philippe Rocca-Serra, Ronan Fox, M. Scott Marshall:
Translating standards into practice - One Semantic Web API for Gene Expression. J. Biomed. Informatics 45(4): 782-794 (2012) - [j7]M. Scott Marshall, Richard D. Boyce, Helena F. Deus, Jun Zhao, Egon L. Willighagen, Matthias Samwald, Elgar Pichler, Janos G. Hajagos, Eric Prud'hommeaux, Susie Stephens:
Emerging practices for mapping and linking life sciences data using RDF - A case series. J. Web Semant. 14: 2-13 (2012) - 2011
- [j6]Helena F. Deus, Miria C. Correa, Romesh Stanislaus, Maria Miragaia, Wolfgang Maass, Hermínia de Lencastre, Ronan Fox, Jonas S. Almeida:
S3QL: A distributed domain specific language for controlled semantic integration of life sciences data. BMC Bioinform. 12: 285 (2011) - 2010
- [j5]Jonas S. Almeida, Helena F. Deus, Wolfgang Maass:
S3DB core: a framework for RDF generation and management in bioinformatics infrastructures. BMC Bioinform. 11: 387 (2010) - [j4]Helena F. Deus, Diogo F. Veiga, Pablo R. Freire, John N. Weinstein, Gordon B. Mills, Jonas S. Almeida:
Exposing the cancer genome atlas as a SPARQL endpoint. J. Biomed. Informatics 43(6): 998-1008 (2010) - [j3]Miria C. Correa, Helena F. Deus, Ana Tereza Ribeiro de Vasconcelos, Yuki Hayashi, Jaffer A. Ajani, Srikrishna V. Patnana, Jonas S. Almeida:
AGUIA: autonomous graphical user interface assembly for clinical trials semantic data services. BMC Medical Informatics Decis. Mak. 10: 65 (2010) - 2009
- [j2]Diogo F. Veiga, Helena F. Deus, Caner Akdemir, Ana Tereza Ribeiro de Vasconcelos, Jonas S. Almeida:
DASMiner: discovering and integrating data from DAS sources. BMC Syst. Biol. 3: 109 (2009) - 2008
- [j1]Romesh Stanislaus, Mark Carey, Helena F. Deus, Kevin R. Coombes, Bryan T. J. Hennessy, Gordon B. Mills, Jonas S. Almeida:
RPPAML/RIMS: A metadata format and an information management system for reverse phase protein arrays. BMC Bioinform. 9 (2008)
Conference and Workshop Papers
- 2018
- [c11]Michael Lauruhn, Paul Groth, Corey A. Harper, Helena F. Deus:
Use of Internal Testing Data to Help Determine Compensation for Crowdsourcing Tasks. HumL@ISWC 2018: 27-37 - 2017
- [c10]Helena F. Deus, Corey A. Harper, Darin McBeath, Ron Daniel Jr.:
Combining pattern matching with word embeddings for the extraction of experimental variables from scientific literature. IEEE BigData 2017: 4287-4292 - 2014
- [c9]Ali Hasnain, Syeda Sana e Zainab, Maulik R. Kamdar, Qaiser Mehmood, Claude N. Warren Jr., Qurratal Ain Fatimah, Helena F. Deus, Muntazir Mehdi, Stefan Decker:
A Roadmap for Navigating the Life Sciences Linked Open Data Cloud. JIST 2014: 97-112 - [c8]Ali Hasnain, Maulik R. Kamdar, Panagiotis Hasapis, Dimitris Zeginis, Claude N. Warren Jr., Helena F. Deus, Dimitrios Ntalaperas, Konstantinos A. Tarabanis, Muntazir Mehdi, Stefan Decker:
Linked Biomedical Dataspace: Lessons Learned Integrating Data for Drug Discovery. ISWC (1) 2014: 114-130 - 2013
- [c7]David E. Robbins, Alexander Grüneberg, Helena F. Deus, Murat M. Tanik, Jonas S. Almeida:
TCGA Toolbox: an Open Web App Framework for Distributing Big Data Analysis Pipelines for Cancer Genomics. BCB 2013: 62 - [c6]Laleh Kazemzadeh, Helena F. Deus, Michel Dumontier, Frank Barry:
Looking into Reactome through Biopax Lens. CSWS 2013: 37-40 - [c5]Muhammad Saleem, Shanmukha S. Padmanabhuni, Axel-Cyrille Ngonga Ngomo, Jonas S. Almeida, Stefan Decker, Helena F. Deus:
Linked cancer genome atlas database. I-SEMANTICS 2013: 129-134 - [c4]Muhammad Saleem, Axel-Cyrille Ngonga Ngomo, Josiane Xavier Parreira, Helena F. Deus, Manfred Hauswirth:
DAW: Duplicate-AWare Federated Query Processing over the Web of Data. ISWC (1) 2013: 574-590 - 2012
- [c3]Andrea Splendiani, Andra Waagmeester, Carina Haupt, Helena F. Deus:
SemScape: Visualizating Semantic Web Data Landscapes with Cytoscape 3.0. SWAT4LS 2012 - 2011
- [c2]Helena F. Deus, Jun Zhao, Jamie P. McCusker, Ronan Fox, Eric Prud'hommeaux, James Malone, Sudeshna Das, Michael Miller, Tomasz Adamusiak, Philippe Rocca-Serra, M. Scott Marshall:
Translating standards into practice: one semantic web API for gene expression. SWAT4LS 2011: 6-7 - 2010
- [c1]Helena F. Deus, Jun Zhao, Satya S. Sahoo, Matthias Samwald, Eric Prud'hommeaux, Michael Miller, M. Scott Marshall, Kei-Hoi Cheung:
Provenance of Microarray Experiments for a Better Understanding of Experiment Results. SWPM@ISWC 2010
Reference Works
- 2019
- [r1]Helena F. Deus:
Big Semantic Data Processing in the Life Sciences Domain. Encyclopedia of Big Data Technologies 2019
Coauthor Index
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