RPPAML/RIMS: A metadata format and an information management system for reverse phase protein arrays. - Romesh Stanislaus; Mark Carey; Helena F. Deus; Kevin R. Coombes; Bryan T. J. Hennessy; Gordon B. Mills; Jonas S. Almeida (BMC Bioinform., 2008)

DASMiner: discovering and integrating data from DAS sources. - Diogo F. Veiga; Helena F. Deus; Caner Akdemir; Ana Tereza Ribeiro de Vasconcelos; Jonas S. Almeida (BMC Syst. Biol., 2009)

Provenance of Microarray Experiments for a Better Understanding of Experiment Results. - Helena F. Deus; Jun Zhao 003; Satya S. Sahoo; Matthias Samwald; Eric Prud'hommeaux; Michael Miller 001; M. Scott Marshall; Kei-Hoi Cheung (SWPM@ISWC, 2010)

S3DB core: a framework for RDF generation and management in bioinformatics infrastructures. - Jonas S. Almeida; Helena F. Deus; Wolfgang Maass 002 (BMC Bioinform., 2010)

Exposing the cancer genome atlas as a SPARQL endpoint. - Helena F. Deus; Diogo F. Veiga; Pablo R. Freire; John N. Weinstein; Gordon B. Mills; Jonas S. Almeida (J. Biomed. Informatics, 2010)

AGUIA: autonomous graphical user interface assembly for clinical trials semantic data services. - Miria C. Correa; Helena F. Deus; Ana Tereza Ribeiro de Vasconcelos; Yuki Hayashi; Jaffer A. Ajani; Srikrishna V. Patnana; Jonas S. Almeida (BMC Medical Informatics Decis. Mak., 2010)

S3QL: A distributed domain specific language for controlled semantic integration of life sciences data. - Helena F. Deus; Miria C. Correa; Romesh Stanislaus; Maria Miragaia; Wolfgang Maass 002; Hermínia de Lencastre; Ronan Fox; Jonas S. Almeida (BMC Bioinform., 2011)

SemScape: Visualizating Semantic Web Data Landscapes with Cytoscape 3.0. - Andrea Splendiani; Andra Waagmeester; Carina Haupt; Helena F. Deus (SWAT4LS, 2012)

Translating standards into practice - One Semantic Web API for Gene Expression. - Helena F. Deus; Eric Prud'hommeaux; Michael Miller 001; Jun Zhao 003; James Malone; Tomasz Adamusiak; Jamie P. McCusker; Sudeshna Das 001; Philippe Rocca-Serra; Ronan Fox; M. Scott Marshall (J. Biomed. Informatics, 2012)

Emerging practices for mapping and linking life sciences data using RDF - A case series. - M. Scott Marshall; Richard D. Boyce; Helena F. Deus; Jun Zhao 003; Egon L. Willighagen; Matthias Samwald; Elgar Pichler; Janos G. Hajagos; Eric Prud'hommeaux; Susie Stephens (J. Web Semant., 2012)

TCGA Toolbox: an Open Web App Framework for Distributing Big Data Analysis Pipelines for Cancer Genomics. - David E. Robbins; Alexander Grüneberg; Helena F. Deus; Murat M. Tanik; Jonas S. Almeida (BCB, 2013)

Looking into Reactome through Biopax Lens. - Laleh Kazemzadeh; Helena F. Deus; Michel Dumontier; Frank Barry (CSWS, 2013)

Linked cancer genome atlas database. - Muhammad Saleem 002; Shanmukha S. Padmanabhuni; Axel-Cyrille Ngonga Ngomo; Jonas S. Almeida; Stefan Decker; Helena F. Deus (I-SEMANTICS, 2013)

DAW: Duplicate-AWare Federated Query Processing over the Web of Data. - Muhammad Saleem 002; Axel-Cyrille Ngonga Ngomo; Josiane Xavier Parreira; Helena F. Deus; Manfred Hauswirth (ISWC (1), 2013)

A self-updating road map of The Cancer Genome Atlas. - David E. Robbins; Alexander Grüneberg; Helena F. Deus; Murat M. Tanik; Jonas S. Almeida (Bioinform., 2013)

Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient. - 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; et al. (BMC Bioinform., 2013)

A Roadmap for Navigating the Life Sciences Linked Open Data Cloud. - Ali Hasnain; Syeda Sana e Zainab; Maulik R. Kamdar; Qaiser Mehmood 001; Claude N. Warren Jr.; Qurratal Ain Fatimah; Helena F. Deus; Muntazir Mehdi; Stefan Decker (JIST, 2014)

Linked Biomedical Dataspace: Lessons Learned Integrating Data for Drug Discovery. - 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 (ISWC (1), 2014)

TopFed: TCGA Tailored Federated Query Processing and Linking to LOD. - Muhammad Saleem 002; Shanmukha S. Padmanabhuni; Axel-Cyrille Ngonga Ngomo; Aftab Iqbal; Jonas S. Almeida; Stefan Decker; Helena F. Deus (J. Biomed. Semant., 2014)

ReVeaLD: A user-driven domain-specific interactive search platform for biomedical research. - Maulik R. Kamdar; Dimitris Zeginis; Ali Hasnain; Stefan Decker; Helena F. Deus (J. Biomed. Informatics, 2014)

A collaborative methodology for developing a semantic model for interlinking Cancer Chemoprevention linked-data sources. - Dimitris Zeginis; Ali Hasnain; Nikolaos Loutas; Helena Futscher Deus; Ronan Fox; Konstantinos A. Tarabanis (Semantic Web, 2014)

Big linked cancer data: Integrating linked TCGA and PubMed. - Muhammad Saleem 002; Maulik R. Kamdar; Aftab Iqbal; Shanmukha S. Padmanabhuni; Helena F. Deus; Axel-Cyrille Ngonga Ngomo (J. Web Semant., 2014)

Combining pattern matching with word embeddings for the extraction of experimental variables from scientific literature. - Helena F. Deus; Corey A. Harper; Darin McBeath; Ron Daniel Jr. 001 (IEEE BigData, 2017)

Use of Internal Testing Data to Help Determine Compensation for Crowdsourcing Tasks. - Michael Lauruhn; Paul Groth; Corey A. Harper; Helena F. Deus (HumL@ISWC, 2018)

Big Semantic Data Processing in the Life Sciences Domain. - Helena F. Deus (Encyclopedia of Big Data Technologies, 2019)