Developing an Ontology from the Application Up. - James Malone; Tomasz Adamusiak; Ele Holloway; Misha Kapushesky; Helen E. Parkinson (OWLED, 2009)

ArrayExpress update - from an archive of functional genomics experiments to the atlas of gene expression. - Helen E. Parkinson; Misha Kapushesky; Nikolay Kolesnikov; Gabriella Rustici; Mohammadreza Shojatalab; Niran Abeygunawardena; Hugo Bérubé; Miroslaw Dylag; Ibrahim Emam; Anna Farne; Ele Holloway; Margus Lukk; et al. (Nucleic Acids Res., 2009)

Modeling sample variables with an Experimental Factor Ontology. - James Malone; Ele Holloway; Tomasz Adamusiak; Misha Kapushesky; Jie Zheng 001; Nikolay Kolesnikov; Anna Zhukova; Alvis Brazma; Helen E. Parkinson (Bioinform., 2010)

The MOLGENIS toolkit: rapid prototyping of biosoftware at the push of a button. - Morris A. Swertz; Martijn Dijkstra; Tomasz Adamusiak; K. Joeri van der Velde; Alexandros Kanterakis; Erik T. Roos; Joris Lops; Gudmundur A. Thorisson; Danny Arends; George Byelas; Juha Muilu; Anthony J. Brookes; et al. (BMC Bioinform., 2010)

Rapid Development of an Ontology of Coriell Cell Lines. - Chao Pang; Tomasz Adamusiak; Helen E. Parkinson; James Malone (ICBO, 2011)

ontoCAT: an R package for ontology traversal and search. - Natalja Kurbatova; Tomasz Adamusiak; Pavel Kurnosov; Morris A. Swertz; Misha Kapushesky (Bioinform., 2011)

Anatomy ontologies and potential users: bridging the gap. - Ravensara S. Travillian; Tomasz Adamusiak; Tony Burdett; Michael Gruenberger; John M. Hancock; Ann-Marie Mallon; James Malone; Paul N. Schofield; Helen E. Parkinson (J. Biomed. Semant., 2011)

OntoCAT - simple ontology search and integration in Java, R and REST/JavaScript. - Tomasz Adamusiak; Tony Burdett; Natalja Kurbatova; K. Joeri van der Velde; Niran Abeygunawardena; Despoina Antonakaki; Misha Kapushesky; Helen E. Parkinson; Morris A. Swertz (BMC Bioinform., 2011)

ArrayExpress update - an archive of microarray and high-throughput sequencing-based functional genomics experiments. - Helen E. Parkinson; Ugis Sarkans; Nikolay Kolesnikov; Niran Abeygunawardena; Tony Burdett; Miroslaw Dylag; Ibrahim Emam; Anna Farne; Emma Hastings; Ele Holloway; Natalja Kurbatova; Margus Lukk; et al. (Nucleic Acids Res., 2011)

Quality Assurance in LOINC using Description Logic. - Tomasz Adamusiak; Olivier Bodenreider (AMIA, 2012)

Ontologies Put More Meaning into Meaningful Use. - Tomasz Adamusiak; Naoki Shimoyama; Alexandra Fuiks; Mary Shimoyama (SWAT4LS, 2012)

VarioML framework for comprehensive variation data representation and exchange. - Myles Byrne; Ivo F. A. C. Fokkema; Owen Lancaster; Tomasz Adamusiak; Anni Ahonen-Bishopp; David Atlan; Christophe Béroud; Michael Cornell; Raymond Dalgleish; Andrew Devereau; George P. Patrinos; Morris A. Swertz; et al. (BMC Bioinform., 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)

Gene Expression Atlas update - a value-added database of microarray and sequencing-based functional genomics experiments. - Misha Kapushesky; Tomasz Adamusiak; Tony Burdett; Aedín C. Culhane; Anna Farne; Alexey Filippov; Ele Holloway; Andrey Klebanov; Nataliya Kryvych; Natalja Kurbatova; Pavel Kurnosov; James Malone; et al. (Nucleic Acids Res., 2012)

Inadvertent Disclosure of Protected Health Information (PHI) in Randomly Shifted Date Elements for De-identification. - Tomasz Adamusiak; Mary Shimoyama (AMIA, 2013)

Next generation ontology browser. - Tomasz Adamusiak; Naoki Shimoyama; Marek Tutaj; Mary Shimoyama (ICBO, 2013)

Age and environment-related differences in gait in healthy adults using wearables. - Matthew Czech; Dimitrios J. Psaltos; Hao Zhang 090; Tomasz Adamusiak; Monica Calicchio; Amey Kelekar; Andrew Messere; Koene R. A. Van Dijk; Vesper Ramos; Charmaine Demanuele; Xuemei Cai; Mar Santamaria; et al. (npj Digit. Medicine, 2020)

Wearable-Based Stair Climb Power Estimation and Activity Classification. - Dimitrios J. Psaltos; Fahimeh Mamashli; Tomasz Adamusiak; Charmaine Demanuele; Mar Santamaria; Matthew Czech (Sensors, 2022)