| Biocompatibility implications of polypyrrole synthesis techniques JM Fonner, L Forciniti, H Nguyen, JD Byrne, YF Kou, J Syeda-Nawaz, ... Biomedical materials 3 (3), 034124, 2008 | 245 | 2008 |
| VDJServer: a cloud-based analysis portal and data commons for immune repertoire sequences and rearrangements S Christley, W Scarborough, E Salinas, WH Rounds, IT Toby, JM Fonner, ... Frontiers in immunology 9, 348868, 2018 | 71 | 2018 |
| Identification of a novel inhibitor of dengue virus protease through use of a virtual screening drug discovery Web portal U Viswanathan, SM Tomlinson, JM Fonner, SA Mock, SJ Watowich Journal of chemical information and modeling 54 (10), 2816-2825, 2014 | 57 | 2014 |
| A combined molecular dynamics and experimental study of doped polypyrrole JM Fonner, CE Schmidt, P Ren Polymer 51 (21), 4985-4993, 2010 | 50 | 2010 |
| The Agave Platform: An open, science-as-a-service platform for digital science R Dooley, SR Brandt, J Fonner Proceedings of the Practice and Experience on Advanced Research Computing …, 2018 | 39 | 2018 |
| Launcher: a shell-based framework for rapid development of parallel parametric studies LA Wilson, JM Fonner Proceedings of the 2014 annual conference on extreme science and engineering …, 2014 | 21 | 2014 |
| CyVerse: cyberinfrastructure for open science TL Swetnam, PB Antin, R Bartelme, A Bucksch, D Camhy, G Chism, I Choi, ... PLoS computational biology 20 (2), e1011270, 2024 | 18 | 2024 |
| VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data S Christley, MK Levin, IT Toby, JM Fonner, NL Monson, WH Rounds, ... BMC bioinformatics 18, 1-5, 2017 | 17 | 2017 |
| Leveraging the national cyberinfrastructure for biomedical research R LeDuc, M Vaughn, JM Fonner, M Sullivan, JG Williams, PD Blood, ... Journal of the American Medical Informatics Association 21 (2), 195-199, 2014 | 15 | 2014 |
| Prediction of whole-cell transcriptional response with machine learning M Eslami, AE Borujeni, H Eramian, M Weston, G Zheng, J Urrutia, ... Bioinformatics 38 (2), 404-409, 2022 | 13 | 2022 |
| Launcher: A simple tool for executing high throughput computing workloads. LA Wilson, JM Fonner, J Allison, O Esteban, H Kenya, M Lerner J. Open Source Softw. 2 (16), 289, 2017 | 13 | 2017 |
| VDJML: a file format with tools for capturing the results of inferring immune receptor rearrangements IT Toby, MK Levin, EA Salinas, S Christley, S Bhattacharya, F Breden, ... BMC bioinformatics 17, 5-14, 2016 | 13 | 2016 |
| Integrating jupyter into research computing ecosystems: Challenges and successes in architecting jupyterhub for collaborative research computing ecosystems J Stubbs, J Looney, M Poindexter, E Chalhoub, GJ Zynda, ES Ferlanti, ... Practice and Experience in Advanced Research Computing 2020: Catch the Wave …, 2020 | 12 | 2020 |
| Containerization on petascale hpc clusters A Ruhela, M Vaughn, SL Harrell, GJ Zynda, J Fonner, RT Evans, ... State of Practice talk in International Conference for High Performance …, 2020 | 9 | 2020 |
| Building science gateway infrastructure in the middle of the pacific and beyond: experiences using the agave deployer and agave platform to build science gateways SB Cleveland, R Dooley, D Perry, J Stubbs, JM Fonner, GA Jacobs Proceedings of the Practice and Experience on Advanced Research Computing …, 2018 | 8 | 2018 |
| Characterizing containerized HPC applications performance at petascale on CPU and GPU architectures A Ruhela, SL Harrell, RT Evans, GJ Zynda, J Fonner, M Vaughn, ... High Performance Computing: 36th International Conference, ISC High …, 2021 | 6 | 2021 |
| RollingGantryCrane: Automation for unpacking containers into HPC environments GJ Zynda, S Gopaulakrishnan, J Fonner 2021 3rd International Workshop on Containers and New Orchestration …, 2021 | 4 | 2021 |
| VDJServer: a web-accessible analysis portal for immune repertoire sequence data (HUM1P. 317) L Cowell, J Fonner, C Jordan, M Levin, S Mock, N Monson, W Rounds, ... The Journal of Immunology 194 (1_Supplement), 52.42-52.42, 2015 | 4 | 2015 |
| Perspectives and experiences supporting containers for research computing at the texas advanced computing center E Ferlanti, WJ Allen, EABF Lima, Y Wang, JM Fonner Proceedings of the SC'23 Workshops of the International Conference on High …, 2023 | 2 | 2023 |
| Scalable and reproducible virtual screening through an API-integrated workflow T Huff, A Darrow, J Medina, E Ferlanti, J Carson, J Fonner, S Tijerina, ... Practice and Experience in Advanced Research Computing 2023: Computing for …, 2023 | 2 | 2023 |
