Mark A. Miller

Publication Activity (10 Years)

Years Active: 2004-2024
Publications (10 Years): 15

Top Topics

Biomedical Ontologies

Semantically Rich

Top Venues

Publications

Marcin P. Joachimiak, Mark A. Miller, J. Harry Caufield, Ryan Ly, Nomi L. Harris, Andrew J. Tritt, Christopher J. Mungall, Kristofer E. Bouchard
The Artificial Intelligence Ontology: LLM-assisted construction of AI concept hierarchies. CoRR (2024)
Randi Vita, Jie Zheng, Rebecca C. Jackson, Damion M. Dooley, James A. Overton, Mark A. Miller, Daniel C. Berrios, Richard H. Scheuermann, Yongqun He, Hande Küçük-McGinty, Mathias Brochhausen, Aisyah Yu Lin, Sagar B. Jain, Marcus C. Chibucos, John Judkins, Michelle G. Giglio, Irene Y. Feng, Gully Burns, Matthew H. Brush, Bjoern Peters, Christian J. Stoeckert Jr.
Standardization of assay representation in the Ontology for Biomedical Investigations. Database J. Biol. Databases Curation 2021 (2021)
Prasad Calyam, Nancy Wilkins-Diehr, Mark A. Miller, Emre H. Brookes, Ritu Arora, Amit Chourasia, Douglas M. Jennewein, Viswanath Nandigam, M. Drew LaMar, Sean B. Cleveland, Greg Newman, Shaowen Wang, Ilya Zaslavsky, Michael A. Cianfrocco, Kevin M. Ellett, David Tarboton, Keith G. Jeffery, Zhiming Zhao, Juan González-Aranda, Mark J. Perri, Gregory E. Tucker, Leonardo Candela, Tamás Kiss, Sandra Gesing
Measuring success for a future vision: Defining impact in science gateways/virtual research environments. Concurr. Comput. Pract. Exp. 33 (19) (2021)
Mark A. Miller, Rebecca C. Jackson, Christopher J. Mungall
Bringing Schemas to the Schemaless. ICBO (2021)
William D. Duncan, Faiza Ahmed, Fnu Anubhav, Jeffrey Baumes, Jonathan Beezley, Mark Borkum, Lisa M. Bramer, Shane Canon, Patrick S. G. Chain, Danielle Christianson, Yuri Corilo, Karen Davenport, Brandon Davis, Meghan Drake, Kjiersten Fagnan, Mark Flynn, David Hays, Bin Hu, Marcel Huntemann, Julia Kelliher, Sofya Lebedeva, Po-E Li, Mary Lipton, Chien-Chi Lo, Douglas Mans, Stanton Martin, Lee Ann McCue, David Millard, Kayd Miller, Nigel Mouncey, Paul D. Piehowski, Elais Player Jackson, Anastasiya Prymolenna, Samuel O. Purvine, Tbk Reddy, Rachel Richardson, Migun Shakya, Montana Smith, Jagadish Chandrabose Sundaramurthi, Mark A. Miller, Deepak R. Unni, Pajau Vangay, Bruce Wilson, Donald Winston, Elisha A. Wood-Charlson, Yan Xu, Emiley A. Eloe-Fadrosh, Christopher J. Mungall
Leveraging Ontologies within the National Microbiome Data Collaborative. ICBO (2021)
Mark A. Miller, Hayden Freedman, Christian J. Stoeckert Jr.
A Robust, Self-Training Classifier for Medication Strings, with Quantitative and Semantic Confidence Metrics. ICBO/ODLS (2020)
Hayden Freedman, Mark A. Miller, Heather Williams, Christian J. Stoeckert Jr.
Scaling and Querying a Semantically Rich, Electronic Healthcare Graph. ICBO/ODLS (2020)
Kenneth Yoshimoto, Nicholas T. Carnevale, Subhashini Sivagnanam, Amitava Majumdar, Mark A. Miller
Web of Trust Tool for Gateway User Vetting. PEARC (2019)
Mark A. Miller, Christian J. Stoeckert Jr.
A Collaborative, Realism-Based, Electronic Healthcare Graph: Public Data, Common Data Models, and Practical Instantiation. ICBO (2019)
Marlon E. Pierce, Mark A. Miller, Emre H. Brookes, Mona Wong, Yan Liu, Enis Afgan, Sandra Gesing, Maytal Dahan, Suresh Marru, Tony Walker
Towards a Science Gateway Reference Architecture. IWSG (2018)
Christian J. Stoeckert Jr., David L. Birtwell, Hayden Freedman, Mark A. Miller, Heather Williams
Transforming and Unifying Research with Biomedical Ontologies: The Penn TURBO Project. ICBO (2018)
Ignazio Carbone, James B. White, Jolanta Miadlikowska, A. Elizabeth Arnold, Mark A. Miller
T-BAS: Tree-Based Alignment Selector toolkit for phylogenetic-based placement, alignment downloads and metadata visualization: an example with the Pezizomycotina tree of life. Bioinform. 33 (8) (2017)
Supun Nakandala, Suresh Marru, Marlon E. Pierce, Sudhakar Pamidighantam, Kenneth Yoshimoto, Terri Schwartz, Subhashini Sivagnanam, Amitava Majumdar, Mark A. Miller
Apache Airavata Sharing Service: A Tool for Enabling User Collaboration in Science Gateways. PEARC (2017)
Daniel S. Katz, Sou-Cheng T. Choi, Kyle E. Niemeyer, James Hetherington, Frank Löffler, Dan Gunter, Ray Idaszak, Steven R. Brandt, Mark A. Miller, Sandra Gesing, Nick D. Jones, Nic Weber, Suresh Marru, Gabrielle Allen, Birgit Penzenstadler, Colin C. Venters, Ethan Davis, Lorraine J. Hwang, Ilian T. Todorov, Abani K. Patra, Miguel de Val-Borro
Report on the Third Workshop on Sustainable Software for Science: Practice and Experiences (WSSSPE3). CoRR (2016)
Mark A. Miller, Terri Schwartz, Wayne Pfeiffer
User behavior and usage patterns for a highly accessed science gateway. XSEDE (2016)
Mark A. Miller, Terri Schwartz, Paul Hoover, Kenneth Yoshimoto, Subhashini Sivagnanam, Amitava Majumdar
The CIPRES workbench: a flexible framework for creating science gateways. XSEDE (2015)
Suresh Marru, Rion Dooley, Nancy Wilkins-Diehr, Marlon E. Pierce, Mark A. Miller, Sudhakar Pamidighantam, Julie Wernert
Authoring a Science Gateway Cookbook. CLUSTER (2013)
Mark A. Miller, Terri Schwartz, Wayne Pfeiffer
Embedding CIPRES science gateway capabilities in phylogenetics software environments. XSEDE (2013)
Mark A. Miller, Wayne Pfeiffer, Terri Schwartz
The CIPRES science gateway: enabling high-impact science for phylogenetics researchers with limited resources. XSEDE (2012)
Mark A. Miller, Wayne Pfeiffer, Terri Schwartz
The CIPRES science gateway: a community resource for phylogenetic analyses. TG (2011)
Mark A. Miller, Nick G. Kingsbury
Image Modeling Using Interscale Phase Properties of Complex Wavelet Coefficients. IEEE Trans. Image Process. 17 (9) (2008)
Mark A. Miller, Nick G. Kingsbury
Image Denoising Using Derotated Complex Wavelet Coefficients. IEEE Trans. Image Process. 17 (9) (2008)
Rami Rifaieh, Roger Unwin, Jeremy Carver, Mark A. Miller
SWAMI: Integrating Biological Databases and Analysis Tools Within User Friendly Environment. DILS (2007)
Mark A. Miller, Nick G. Kingsbury
Statistical Image Modelling Using Interscale Phase Relationships of Complex Wavelet Coefficients. ICASSP (2) (2006)
Mark A. Miller, Nick G. Kingsbury, Richard W. Hobbs
Seismic Imaging Using Complex Wavelets. ICASSP (2) (2005)
Mark A. Miller, Nick G. Kingsbury, Richard W. Hobbs
Seismic image reconstruction using complex wavelets. Computational Imaging (2005)
Atif Shahab, Danny Chuon, Toyotaro Suzumura, Wilfred W. Li, Robert W. Byrnes, Kouji Tanaka, Larry Ang, Satoshi Matsuoka, Philip E. Bourne, Mark A. Miller, Peter W. Arzberger
Grid Portal Interface for Interactive Use and Monitoring of High-Throughput Proteome Annotation. LSGRID (2004)
Wilfred W. Li, Robert W. Byrnes, Jim Hayes, Adam Birnbaum, Vicente M. Reyes, Atif Shahab, Coleman Mosley, Dmitry Pekurovsky, Greg B. Quinn, Ilya N. Shindyalov, Henri Casanova, Larry Ang, Fran Berman, Peter W. Arzberger, Mark A. Miller, Philip E. Bourne
The Encyclopedia of Life Project: Grid Software and Deployment. New Gener. Comput. 22 (2) (2004)
Adam Birnbaum, James Hayes, Wilfred W. Li, Mark A. Miller, Peter W. Arzberger, Philip E. Bourne, Henri Casanova
Grid Workflow Software for a High-Throughput Proteome Annotation Pipeline. LSGRID (2004)
Ilkay Altintas, Adam Birnbaum, Kim K. Baldridge, Wibke Sudholt, Mark A. Miller, Céline Amoreira, Yohann Potier, Bertram Ludäscher
A Framework for the Design and Reuse of Grid Workflows. SAG (2004)