Publications

S. P. Satheesan et al., “Extensible Framework for Analysis of Farm Practices and Programs,” PEARC, 2019.

S. Puthanveetil, A. Craig, and Y. Zhang, “A Historical Big Data Analysis to Understand the Social Construction of Juvenile Delinquency in the United States,” eScience, 2019.

C. Wang et al., “Social Media Intelligence and Learning Environment: an Open Source Framework for Social Media Data Collection, Analysis and Curation,” eScience, 2019.

C. Willis, M. Lambert, R. Kalyanam, K. Coakley, K. McHenry, and C. Kirkpatrick, “Labs Workbench: A Scalable Platform for Research Data Access, Education, and Training,” SCGI, 2019.

P. Kumar, L. Marini, M. Pitcel, L. Keefer, and K. McHenry, “Design of an Observatory Data System and Open Source Sharing with Active Curation and Machine Learning,” GSA, 2019.

K. Chard et al., “Implementing Computational Reproducibility in the Whole Tale Environment,” P-RECS’19, 2019.

D. Katz, K. McHenry, C. Reinking, and R. Haines, “Research Software Development & Management in Universities: Case Studies from Manchester’s RSDS Group, Illinois’ NCSA, and Notre Dame’s CRC,” ACM/IEEE International Conference on Software Engineering, International Workshop on Software Engineering for Science (SE4Science), 2019.

P. Nguyen et al., “Bracelet: Edge-Cloud Microservice Infrastructure for Aging Scientific Instruments,” International Conference on Computing, Networking and Communications (ICNC), 2019.

R. Kooper et al., “Developing and Adapting Data Management Services Across Multiple Virtual Observatories,” AGU, 2018.

L. Marini et al., “Using Docker to Ease the Sharing and Running of Code in the PEcAn Project,” AGU, 2018.

M. Ruiz et al., “A Prediction System for Vector-Borne Diseases : a Use Case for Weekly Estimation of West Nile Virus Risk,” AGU, 2018.

W. Thomas et al., “Petabytes in Practice: Working with Collections as Data at Scale,” Workshop on Cyberinfrastructure and Machine Learning for Digital Libraries and Archives, JCDL, 2018.

S. Satheesan et al., “Brown Dog: Making the Digital World a Better Place, a Few Files at a Time,” PEARC, 2018.

L. Marini et al., “Clowder: Open Source Data Management for Long Tail Data,” PEARC, 2018.

M. Burnette et al., “TERRA-REF Data Processing Infrastructure,” PEARC, 2018.

M. Simeone, C. Morris, K. McHenry, and R. Markley, “The Canoe and the Superpixel: Image Analysis of the Changing Shorelines on Historical Maps of the Great Lakes M. Simeone, C. Morris, K. McHenry, and R. Markley,” Journal18, 2018 [Online]. Available: http://www.journal18.org/issue5/the-canoe-and-the-superpixel-image-analysis-of-the-changing-shorelines-on-historical-maps-of-the-great-lakes/

D. Li, B. Deal, X. Zhou, M. Slavenas, and W. Sullivan, “Moving Beyond the Neighborhood: Daily Exposure to Nature and Adolescents’ Mood,” Landscape and Urban Planning, 2018 [Online]. Available: https://www.sciencedirect.com/science/article/pii/S0169204618300318

P. Suppakittpaisarn, B. Jiang, M. Slavenas, and W. Sullivan, “Does Density of Green Infrastructure Predict Preference?,” Urban Forestry & Urban Greening, 2018 [Online]. Available: https://www.researchgate.net/publication/323514146_DOES_DENSITY_OF_GREEN_INFRASTRUCTURE_PREDICT_PREFERENCE

R. Kooper, M. Burnette, J. Maloney, and D. LeBauer, “Data Flow for the TERRA-REF Project,” presented at the AGU, 2017.

S. Satheesan et al., “Brown Dog: A Data Transformation Ecosystem for Research - Advancing from Beta to 1.0,” presented at the AGU, 2017.

I. Gutierrez-Polo et al., “Monitoring Water Quality in the Great Lakes leveraging Geo-Temporal Cyberinfrastructure,” presented at the IEEE eScience, 2017.

A. Langmead, P. Rodriguez, S. Puthanveetil Satheesan, and A. Craig, “Extracting Meaningful Data from Decomposing Bodies,” presented at the PEARC, 2017.

A. Langmead, P. Rodriguez, S. Puthanveetil Satheesan, and A. Craig, “Extracting Meaningful Data from Decomposing Bodies,” in Workshop on Computer Vision in Digital Humanities, Digital Humanities, 2017.

C. Willis, M. Lambert, K. McHenry, and C. Kirkpatrick, “Container-Based Analysis Environments for Low-Barrier Access to Research Data,” PEARC, 2017.

P. Nguyen et al., “4CeeD: Real-time Acquisition and Analysis Framework for Materials-related Cyber-Physical Environments,” 17th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing, 2017.

N. Kenyon et al., “Timing of Mesenchymal Stem Cell Infusions Affects Rejection Free and Overall Islet Allograft Survival,” presented at the American Transplant Congress, 2017.

P. Rodriguez, S. Puthanveetil Satheesan, J. Will, E. Wuerffel, and A. Craig, “Extracting, Assimilating, and Sharing the Results of Image Analysis on the FSA/OWI Photography Collection,” presented at the PEARC, 2017.

C. Sophocleous, L. Marini, R. Georgiou, M. Elfarargy, and K. McHenry, “Medici 2: A Scalable Content Management System for Cultural Heritage Datasets,” Code4Lib, 2017 [Online]. Available: http://journal.code4lib.org/articles/12317

J. Cutcher-Gershenfeld et al., “Five ways consortia can catalyse open science,” Nature, 2017 [Online]. Available: http://www.nature.com/news/five-ways-consortia-can-catalyse-open-science-1.21706

M. Elag, P. Kumar, L. Marini, J. Myers, M. Hedstrom, and B. Plale, “Identification and characterization of information-networks in long-tail data collections,” Environmental Modelling & Software, 2017.

P. Jiang, M. Elaga, P. Kumar, S. Peckham, L. Marini, and R. Liu, “A service-oriented architecture for coupling web service models using the Basic Model Interface (BMI),” Environmental Modelling & Software, 2017 [Online]. Available: http://www.sciencedirect.com/science/article/pii/S1364815216311525

K. McHenry et al., “DIBBs Brown Dog - The Need for and Challenges of a Science Driven Data Transformation Service,” in DIBBs PI Workshop, 2017.

Y. Zhao et al., “Automatic Glomerulus Extraction in Whole Slide Images Towards Computer Aided Diagnosis,” 2016 IEEE 12th International Conference on e-Science (e-Science), 2016.

S. Padhy et al., “An Architecture for Automatic Deployment of Brown Dog Services At Scale into Diverse Computing Infrastructures,” in XSEDE, 2016.

N. Makhoul, C. Navarro, J. Lee, and A. Abi-Youness, “Assessment of seismic damage to buildings in resilient Byblos City,” International Journal of Disaster Risk Reduction, 2016 [Online]. Available: http://www.sciencedirect.com/science/article/pii/S221242091530217X

M. Slavenas, E. Wuerffel, P. Rodriguez, J. Will, and A. Craig, “Image Analysis and Infrastructure Support for Mining the Farm Security Administration – Office of War Information Photography Collection,” in XSEDE, 2016.

G. Jansen, R. Marciano, S. Padhy, and K. McHenry, “Designing Scalable Cyberinfrastructure for Meta- data Extraction in Billion-Record Archives,” in iPRES, 2016.

K. McHenry et al., “Brown Dog - A Science Driven Data Transformation Service,” in XSEDE Gateways, 2016.

S. Padhy et al., “Autocuration Cyberinfrastrucutre for Scientific Discovery and Preservation,” in IEEE eScience, 2015.

S. Padhy et al., “Brown Dog: Leveraging Everything Towards Autocuration,” in IEEE Big Data, 2015.

V. Kuhn, A. Craig, M. Simeone, S. P. Satheesan, and L. Marini, “The VAT: Enhanced Video Analysis,” in XSEDE, 2015.

M. Poole, N. Lambert, S. Satheesan, A. Das, A. Yahja, and M. Hasegawa-Johnson, GroupScope: A Framework and Tools for Large Scale Study of Social Processes. 2015.

N. Kenyon et al., “Mesenchymal Stem Cells Enhance Rejection Free and Overall Islet Allograft Survival,” in American Transplant Congress, 2015.

M. Dietze et al., “Chasing the long tail of environmental data: PEcAn is nuts about Brown Dog,” in AGU, 2015.

M. Dietze et al., “A Quantitative Assessment of a Terrestrial Biosphere Model’s Data Needs Across North American Biomes,” Journal of Geophysical Research - Biogeosciences, 2014.

L. Diesendruck, R. Kooper, L. Marini, and K. McHenry, “Using Lucene to Index and Search the Digitized 1940 US Census,” Concurrency and Computation: Practice and Experience, 2014.

E. Black et al., “Using Hidden Markov Models to Determine Changes in Subject Data Over Time, Studying the Immunoregulatory Effect of Mesenchymal Stem Cells,” in IEEE eScience, 2014 [Online]. Available: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4461877/

E. Cowdery, R. Kooper, D. LeBauer, A. Desai, J. Mantooth, and M. Dietze, “The PEcAn Project: Accessible Tools for On-demand Ecosystem Modeling,” in AGU, San Francisco, 2014.

S. Rivera et al., “Proposing a Framework for Crowd-Sourced Green Infrastructure Design,” in International Environmental Modelling and Software Society, 2014.

D. Berman et al., “Multiple Mesenchymal Stem Cell (MSC) Infusions May Be Required to Enhance Engraftment of Allogeneic Islets in Nonhuman Primates,” in Cutting Edge of Transplantation, 2014.