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ORCIDDustin Machi
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2020 – today
- 2024
[j10]Parantapa Bhattacharya, Dustin Machi, Jiangzhuo Chen, Stefan Hoops, Bryan Lewis, Henning S. Mortveit, Srinivasan Venkatramanan, Mandy L. Wilson, Achla Marathe, Przemyslaw J. Porebski, Brian Klahn, Joseph Outten, Anil Vullikanti, Dawen Xie, Abhijin Adiga, Shawn Brown, Christopher L. Barrett, Madhav V. Marathe:
Novel multi-cluster workflow system to support real-time HPC-enabled epidemic science: Investigating the impact of vaccine acceptance on COVID-19 spread. J. Parallel Distributed Comput. 191: 104899 (2024)- 2023
- [j9]Parantapa Bhattacharya
, Jiangzhuo Chen, Stefan Hoops, Dustin Machi, Bryan L. Lewis, Srinivasan Venkatramanan, Mandy L. Wilson, Brian Klahn, Aniruddha Adiga, Benjamin Hurt, Joseph Outten, Abhijin Adiga, Andrew S. Warren, Young Yun Baek, Przemyslaw J. Porebski, Achla Marathe, Dawen Xie, Samarth Swarup, Anil Vullikanti, Henning S. Mortveit, Stephen G. Eubank, Christopher L. Barrett, Madhav Vinayak Marathe:
Data-driven scalable pipeline using national agent-based models for real-time pandemic response and decision support. Int. J. High Perform. Comput. Appl. 37(1): 4-27 (2023) - [j8]Robert D. Olson, Rida Assaf, Thomas S. Brettin, Neal Conrad, Clark Cucinell, James J. Davis, Donald M. Dempsey, Allan Dickerman, Emily M. Dietrich, Ronald W. Kenyon, Mehmet Kuscuoglu, Elliot J. Lefkowitz, Jian Lu, Dustin Machi, Catherine Macken, Chunhong Mao, Anna Maria Niewiadomska, Marcus Nguyen, Gary J. Olsen, Jamie C. Overbeek, Bruce D. Parrello, Victoria Parrello, Jacob s Porter, Gordon D. Pusch, Maulik Shukla, Indresh Singh, Lucy Stewart, Gene Tan, Chris Thomas, Margo VanOeffelen, Veronika Vonstein, Zachary S. Wallace, Andrew S. Warren, Alice R. Wattam, Fangfang Xia, Hyun Seung Yoo, Yun Zhang, Christian M. Zmasek, Richard H. Scheuermann, Rick L. Stevens:
Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR. Nucleic Acids Res. 51(D1): 678-689 (2023) - [c14]Swapna Thorve, Aparna Kishore, Dustin Machi, S. S. Ravi, Madhav V. Marathe:
A Network Synthesis and Analytics Pipeline with Applications to Sustainable Energy in Smart Grid. e-Science 2023: 1-10 - 2022
- [c13]Tanvir Ferdousi, Aparna Kishore, Lucas Machi, Dustin Machi, Chris J. Kuhlman, S. S. Ravi:
A Web-Based System for Contagion Simulations on Networked Populations. e-Science 2022: 306-315 - 2021
- [j7]Margo VanOeffelen, Marcus Nguyen, Derya Aytan-Aktug, Thomas S. Brettin, Emily M. Dietrich, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Robert Olson, Gordon D. Pusch, Maulik Shukla, Rick Stevens, Veronika Vonstein, Andrew S. Warren, Alice R. Wattam, Hyun Seung Yoo, James J. Davis:
A genomic data resource for predicting antimicrobial resistance from laboratory-derived antimicrobial susceptibility phenotypes. Briefings Bioinform. 22(6) (2021) - [c12]Parantapa Bhattacharya, Dustin Machi, Jiangzhuo Chen, Stefan Hoops, Bryan L. Lewis, Henning S. Mortveit, Srinivasan Venkatramanan, Mandy L. Wilson, Achla Marathe, Przemyslaw J. Porebski, Brian Klahn, Joseph Outten, Anil Vullikanti, Dawen Xie, Abhijin Adiga, Shawn Brown, Christopher L. Barrett, Madhav V. Marathe:
AI-Driven Agent-Based Models to Study the Role of Vaccine Acceptance in Controlling COVID-19 Spread in the US. IEEE BigData 2021: 1566-1574 - [c11]Aparna Kishore, Lucas Machi, Chris J. Kuhlman, Dustin Machi, S. S. Ravi:
A Framework for Simulating Multiple Contagions Over Multiple Networks. COMPLEX NETWORKS 2021: 241-252 - [c10]Dustin Machi, Parantapa Bhattacharya, Stefan Hoops, Jiangzhuo Chen, Henning S. Mortveit, Srinivasan Venkatramanan, Bryan L. Lewis, Mandy L. Wilson, Arindam Fadikar, Tom Maiden, Christopher L. Barrett, Madhav V. Marathe:
Scalable Epidemiological Workflows to Support COVID-19 Planning and Response. IPDPS 2021: 639-650 - [c9]Golda Barrow, Chris J. Kuhlman, Dustin Machi, S. S. Ravi:
Interactive Demonstrations and Hands-On Use of thenet.science Cyberinfrastructure for Network Science Chairs' Welcome and Tutorial Summary. WebSci (Companion) 2021: 137 - [c8]Henry L. Carscadden, Lucas Machi, Aparna Kishore, Chris J. Kuhlman, Dustin Machi, S. S. Ravi:
ExecutionManager: A Software System to Control Execution of Third-Party Software that Performs Network Computations. WSC 2021: 1-12 - [c7]Henry L. Carscadden, Lucas Machi, Chris J. Kuhlman, Dustin Machi, S. S. Ravi:
GraphTrans: A Software System for Network Conversions for Simulation, Structural Analysis, and Graph Operations. WSC 2021: 1-12 - [c6]Joshua D. Priest, Aparna Kishore, Lucas Machi, Chris J. Kuhlman, Dustin Machi, S. S. Ravi:
CSonNet: An Agent-Based Modeling Software System for Discrete Time Simulation. WSC 2021: 1-12 - 2020
- [j6]James J. Davis, Alice R. Wattam, Ramy K. Aziz, Thomas S. Brettin, Ralph Butler, Rory Butler, Philippe Chlenski, Neal Conrad, Allan Dickerman, Emily M. Dietrich, Joseph L. Gabbard, Svetlana Gerdes, Andrew Guard, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Daniel E. Murphy-Olson, Marcus Nguyen, Eric K. Nordberg, Gary J. Olsen, Robert Olson, Jamie C. Overbeek, Ross A. Overbeek, Bruce D. Parrello, Gordon D. Pusch, Maulik Shukla, Chris Thomas, Margo VanOeffelen, Veronika Vonstein, Andrew S. Warren, Fangfang Xia, Dawen Xie, Hyun Seung Yoo, Rick Stevens:
The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities. Nucleic Acids Res. 48(Database-Issue): D606-D612 (2020) - [j5]Vanessa Cedeno-Mieles, Zhihao Hu, Yihui Ren, Xinwei Deng, Abhijin Adiga, Christopher L. Barrett, Noshir Contractor, Saliya Ekanayake, Joshua M. Epstein, Brian J. Goode, Gizem Korkmaz, Chris J. Kuhlman, Dustin Machi, Michael W. Macy, Madhav V. Marathe, Naren Ramakrishnan, S. S. Ravi, Parang Saraf, Nathan Self:
Networked experiments and modeling for producing collective identity in a group of human subjects using an iterative abduction framework. Soc. Netw. Anal. Min. 10(1): 11 (2020) - [c5]Akhil Sai Peddireddy, Dawen Xie, Pramod Patil, Mandy L. Wilson, Dustin Machi, Srinivasan Venkatramanan, Brian Klahn, Przemyslaw J. Porebski, Parantapa Bhattacharya, Shirish Dumbre, Erin Raymond, Madhav V. Marathe:
From 5Vs to 6Cs: Operationalizing Epidemic Data Management with COVID-19 Surveillance. IEEE BigData 2020: 1380-1387
2010 – 2019
- 2019
- [j4]Dionysios A. Antonopoulos, Rida Assaf, Ramy Karam Aziz, Thomas S. Brettin, Christopher Bun, Neal Conrad, James J. Davis, Emily M. Dietrich, Terry Disz, Svetlana Gerdes, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Daniel E. Murphy-Olson, Eric K. Nordberg, Gary J. Olsen, Robert Olson, Ross A. Overbeek, Bruce D. Parrello, Gordon D. Pusch, John Santerre, Maulik Shukla, Rick L. Stevens, Margo VanOeffelen, Veronika Vonstein, Andrew S. Warren, Alice R. Wattam, Fangfang Xia, Hyun Seung Yoo:
PATRIC as a unique resource for studying antimicrobial resistance. Briefings Bioinform. 20(4): 1094-1102 (2019) - [c4]Vanessa Cedeno-Mieles, Zhihao Hu, Xinwei Deng, Yihui Ren, Abhijin Adiga, Christopher L. Barrett, Saliya Ekanayake, Gizem Korkmaz, Chris J. Kuhlman, Dustin Machi, Madhav V. Marathe, S. S. Ravi, Brian J. Goode, Naren Ramakrishnan, Parang Saraf, Nathan Self, Noshir Contractor, Joshua M. Epstein, Michael W. Macy:
Mechanistic and data-driven agent-based models to explain human behavior in online networked group anagram games. ASONAM 2019: 357-364 - [c3]Zhihao Hu, Dustin Machi, Madhav V. Marathe, S. S. Ravi, Yihui Ren, Vanessa Cedeno-Mieles, Saliya Ekanayake, Xinwei Deng, Brian J. Goode, Naren Ramakrishnan, Parang Saraf, Nathan Self, Abhijin Adiga, Gizem Korkmaz, Chris J. Kuhlman:
On the Modeling and Agent-Based Simulation of a Cooperative Group Anagram Game. WSC 2019: 169-180 - 2018
- [c2]Yihui Ren, Vanessa Cedeno-Mieles, Zhihao Hu, Xinwei Deng, Abhijin Adiga, Christopher L. Barrett, Saliya Ekanayake, Brian J. Goode, Gizem Korkmaz, Chris J. Kuhlman, Dustin Machi, Madhav V. Marathe, Naren Ramakrishnan, S. S. Ravi, Parang Saraf, Nathan Self, Noshir Contractor, Joshua M. Epstein, Michael W. Macy:
Generative Modeling of Human Behavior and Social Interactions Using Abductive Analysis. ASONAM 2018: 413-420 - [c1]Vanessa Cedeno-Mieles, Yihui Ren, Saliya Ekanayake, Brian J. Goode, Chris J. Kuhlman, Dustin Machi, Madhav V. Marathe, Henning S. Mortveit, Zhihao Hu, Xinwei Deng, Naren Ramakrishnan, Parang Saraf, Nathan Self, Noshir Contractor, Joshua M. Epstein, Michael W. Macy:
Pipelines and their Compositions for Modeling and Analysis of controlled Online Networked Social Science Experiments. WSC 2018: 774-785 - 2017
- [j3]Alice R. Wattam, James J. Davis, Rida Assaf, Sébastien Boisvert, Thomas S. Brettin, Christopher Bun, Neal Conrad, Emily M. Dietrich, Terry Disz, Joseph L. Gabbard, Svetlana Gerdes, Christopher S. Henry, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Eric K. Nordberg, Gary J. Olsen, Daniel E. Murphy-Olson, Robert Olson, Ross A. Overbeek, Bruce D. Parrello, Gordon D. Pusch, Maulik Shukla, Veronika Vonstein, Andrew S. Warren, Fangfang Xia, Hyun Seung Yoo, Rick L. Stevens:
Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center. Nucleic Acids Res. 45(Database-Issue): D535-D542 (2017) - 2015
- [j2]Andrew S. Warren, Cristina Aurrecoechea, Brian P. Brunk, Prerak Desai, Scott J. Emrich, Gloria I. Giraldo-Calderón, Omar S. Harb, Deborah Hix, Daniel Lawson, Dustin Machi, Chunhong Mao, Michael McClelland, Eric K. Nordberg, Maulik Shukla, Leslie B. Vosshall, Alice R. Wattam, Rebecca Will, Hyun Seung Yoo, Bruno W. S. Sobral:
RNA-Rocket: an RNA-Seq analysis resource for infectious disease research. Bioinform. 31(9): 1496-1498 (2015) - 2014
- [j1]Alice R. Wattam, David Abraham, Oral Dalay, Terry Disz, Timothy Driscoll, Joseph L. Gabbard, Joseph J. Gillespie, Roger Gough, Deborah Hix, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Eric K. Nordberg, Robert Olson, Ross A. Overbeek, Gordon D. Pusch, Maulik Shukla, Julie Schulman, Rick L. Stevens, Daniel E. Sullivan, Veronika Vonstein, Andrew S. Warren, Rebecca Will, Meredith J. C. Wilson, Hyun Seung Yoo, Chengdong Zhang, Yan Zhang, Bruno W. S. Sobral:
PATRIC, the bacterial bioinformatics database and analysis resource. Nucleic Acids Res. 42(Database-Issue): 581-591 (2014)
Coauthor Index
aka: Madhav Vinayak Marathe
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