Publications

(Publications sorted by publication date in descending order)

2025 (21 articles)

• Khosravi M, Z Jiang, JR Waite, SE Jones, H Torres Pacin, A Singh, B Ganapathysubramanian, AK Singh, S Sarkar (2025) Optimizing navigation and chemical application in precision agriculture with deep reinforcement learning and conditional action tree. Smart Agricultural Technology, 12. doi:10.1016/j.atech.2025.101194 (1 December 2025)
• Kim B, SW Blair, TZ Jubery, S Sarkar, A Singh, AK Singh, B Ganapathysubramanian (2025) Soybean maturity prediction using two-dimensional contour plots from drone-based time series imagery. The Plant Phenome Journal, 8(1): e70036. doi:10.1002/ppj2.70036 (1 December 2025)
• Karki S, M Shadkhah, CH Yang, A Balu, G Scovazzi, A Krishnamurthy, B Ganapathysubramanian (2025) Direct flow simulations with implicit neural representation of complex geometry. Computer Methods in Applied Mechanics and Engineering, 446. doi:10.1016/j.cma.2025.118248 (1 November 2025)
• Hadadi M, M Saraeian, J Godbersen, TZ Jubery, Y Li, L Attigala, A Balu, S Sarkar, PS Schnable, A Krishnamurthy, B Ganapathysubramanian (2025) Procedural generation of 3D maize plant architecture from LiDAR data. Computers and Electronics in Agriculture, 236. doi:10.1016/j.compag.2025.110382 (1 September 2025)
• Biswas A, J Rade, N Masud, MHH Hasib, A Balu, J Zhang, S Sarkar, A Krishnamurthy, J Ren, A Sarkar (2025) Conversational LLM-Based Decision Support for Defect Classification in AFM Images. IEEE Open Journal of Instrumentation and Measurement, 4. doi:10.1109/OJIM.2025.3592284 (24 July 2025)
• Messina C, J Garcia-Abadillo, O Powell, S Tomura, A Zare, B Ganapathysubramanian, M Cooper (2025) Toward a general framework for AI-enabled prediction in crop improvement. Theoretical and Applied Genetics, 138(7): 151. doi:10.1007/s00122-025-04928-6 (12 June 2025)
• Mangal H, K Linders, J Turkus, N Shrestha, B Long, E Cebert, X Kuang, JV Torres-Rodriguez, JC Schnable (2025) Genes and pathways determining flowering time variation in temperate-adapted sorghum. The Plant Journal, 122(5): e70250. doi:10.1111/tpj.70250 (1 June 2025)
• Shadkhah M, CH Yang, S Karki, B Ganapathysubramanian (2025) Octree-Based Shifted Boundary Method: Evaluating the impact of hanging-node removal on convergence and solver performance for linear PDEs. Advances in Computational Science and Engineering, 4. doi:10.3934/acse.2025014 (1 June 2025)
• Yang CH, G Scovazzi, A Krishnamurthy, B Ganapathysubramanian (2025) Octree-based adaptive mesh refinement and the shifted boundary method for efficient fluid dynamics simulations. Advances in Computational Science and Engineering, 4. doi:10.3934/acse.2025012 (1 June 2025)
• Jones SE, S Dutta, TT Ayanlade, B Ganapathysubramanian, S Sarkar, B Fallen, AK Singh (2025) Assessing phenotypic diversity and sensor-based metrics for drought response in soybean. Crop Science, 65(3): e70098. doi:10.1002/csc2.70098 (1 May 2025)
• Davis JM, LM Coffey, J Turkus, L López-Corona, K Linders, C Ullagaddi, DK Santra, PS Schnable, JC Schnable (2025) Assessing the Impact of Yield Plasticity on Hybrid Performance in Maize. Physiologia Plantarum, 177(3): e70278. doi:10.1111/ppl.70278 (1 May 2025)
• Mathivanan RK, C Pedersen, J Turkus, N Shrestha, W Ali, JV Torres-Rodriguez, RV Mural, T Obata, JC Schnable (2025) Transcripts and genomic intervals associated with variation in metabolite abundance in maize leaves under field conditions. BMC Genomics, 26(1): 434. doi:10.1186/s12864-025-11580-3 (1 May 2025)
• Yang HJ, M Khosravi, B Walt, G Krishnan, S Sarkar (2025) Zero-shot sim-to-real transfer for reinforcement learning-based visual servoing of soft continuum arms. arXiv, 2504.16916. doi:10.48550/arXiv.2504.16916 (23 April 2025)
• Feng J, SW Blair, TT Ayanlade, A Balu, B Ganapathysubramanian, A Singh, S Sarkar, AK Singh (2025) Robust soybean seed yield estimation using high-throughput ground robot videos. Frontiers in Plant Science, 16. doi:10.3389/fpls.2025.1554193 (30 March 2025)
• Singh N, Q Zhang, W Xu, SA Whitham, L Dong (2025) A Biohydrogel-Enabled Microneedle Sensor for In Situ Monitoring of Reactive Oxygen Species in Plants. ACS Sensors, 10(3): 1797-1810. doi:10.1021/acssensors.4c02645 (28 March 2025)
• Van DLL, K Parmley, M Saadati, HT Pacin, S Panthulugiri, S Sarkar, B Ganapathysubramanian, A Lorenz, AK Singh (2025) Genomic and phenomic prediction for soybean seed yield, protein, and oil. The Plant Genome, 18(1): e70002. doi:10.1002/tpg2.70002 (1 March 2025)
• Torres-Rodríguez JV, D Li, JC Schnable (2025) Evolving best practices for transcriptome-wide association studies accelerate discovery of gene-phenotype links. Current Opinion in Plant Biology, 83. doi:10.1016/j.pbi.2024.102670 (1 February 2025)
• Ganapathysubramanian B, S Sarkar, A Singh, AK Singh (2025) Digital twins for the plant sciences. Trends in Plant Science, 30(5): 576-577. doi:10.1016/j.tplants.2024.12.013 (9 January 2025)
• Shrestha N, A Powadi, J Davis, TT Ayanlade, H Liu, MC Tross, RK Mathivanan, J Bares, L Lopez-Corona, J Turkus, L Coffey, TZ Jubery, Y Ge, S Sarkar, JC Schnable, B Ganapathysubramanian, PS Schnable (2025) Plot-level satellite imagery can substitute for UAVs in assessing maize phenotypes across multistate field trials. Plants People Planet, 7(4): 1011-1026. doi:10.1002/ppp3.10613 (7 January 2025)
• Singh AK, SE Jones, L Van der Laan, TT Ayanlade, J Raigne, N Saleem, S Joshi, MA Arshad, H ZareMehrjerdi, A Rairdin, J Di Salvo, D Elango, L De Azevedo Peixoto, TZ Jubery, A Krishnamurthy, A Singh, S Sarkar, B Ganapathysubramanian (2025) Use of artificial intelligence in soybean breeding and production. Advances in Agronomy, 190. doi:10.1016/bs.agron.2024.11.003 (1 January 2025)
• Chiranjeevi S, M Saadati, ZK Deng, J Koushik, TZ Jubery, DS Mueller, M O'Neal, N Merchant, A Singh, AK Singh, S Sarkar, A Singh, B Ganapathysubramanian (2025) InsectNet: Real-time identification of insects using an end-to-end machine learning pipeline. PNAS Nexus, 4(1): 575. doi:10.1093/pnasnexus/pgae575 (27 December 2024)

2024 (10 articles)

• Powadi A, TZ Jubery, MC Tross, JC Schnable, B Ganapathysubramanian (2024) Disentangling genotype and environment specific latent features for improved trait prediction using a compositional autoencoder. Frontiers in Plant Science, 15. doi:10.3389/fpls.2024.1476070 (15 December 2024)
• Jones SE, TT Ayanlade, B Fallen, TZ Jubery, A Singh, B Ganapathysubramanian, S Sarkar, AK Singh (2024) Multi-sensor and multi-temporal high-throughput phenotyping for monitoring and early detection of water-limiting stress in soybean. The Plant Phenome Journal, 7(1): e70009. doi:10.1002/ppj2.70009 (30 November 2024)
• Fotouhi F, K Menke, A Prestholt, A Gupta, ME Carroll, HJ Yang, EJ Skidmore, M O'Neal, N Merchant, SK Das, P Kyveryga, B Ganapathysubramanian, AK Singh, A Singh, S Sarkar (2024) Persistent monitoring of insect-pests on sticky traps through hierarchical transfer learning and slicing-aided hyper inference. Frontiers in Plant Science, 15. doi:10.3389/fpls.2024.1484587 (21 November 2024)
• Data Lab, Indigenous, J Cummins, SC Russo (2024) Policy Brief 1: Intersection of indigenous data sovereignty and tribal agriculture data needs in the US. Collaboratory for Indigenous Data Governance. doi:10.6084/m9.figshare.26156170.v1 (14 October 2024)
• Ostermann I, B Benes, M Gaillard, B Li, J Davis, R Grove, N Shrestha, MC Tross, JC Schnable (2024) Sorghum segmentation and leaf counting using in silico trained deep neural model. The Plant Phenome Journal, 7(1): e70002. doi:10.1002/ppj2.70002 (13 October 2024)
• Arshad MA, T Jubery, J Afful, A Jignasu, A Balu, B Ganapathysubramanian, S Sarkar, A Krishnamurthy (2024) Evaluating Neural Radiance Fields for 3D Plant Geometry Reconstruction in Field Conditions. Plant Phenomics, 6. doi:10.34133/plantphenomics.0235 (9 September 2024)
• Chung Y, D Malik, J Schneider, Y Li, A Singh (2024) Beyond parameter count: Implicit bias in soft mixture of experts. arXiv, 2409.00879. doi:10.48550/arXiv.2409.00879 (2 September 2024)
• Singh AK, BJ Balabaygloo, B Bekee, SW Blair, S Fey, F Fotouhi, A Gupta, A Jha, JC Martinez-Palomares, K Menke, A Prestholt, VK Tanwar, X Tao, A Vangala, ME Carroll, SK Das, G DePaula, P Kyveryga, S Sarkar, M Segovia, S Silvestri, C Valdivia (2024) Smart connected farms and networked farmers to improve crop production, sustainability and profitability. Frontiers in Agronomy, 6 - 2024. doi:10.3389/fagro.2024.1410829 (7 August 2024)
• Saleem N, A Balu, TZ Jubery, A Singh, AK Singh, S Sarkar, B Ganapathysubramanian (2024) Class-specific data augmentation for plant stress classification. The Plant Phenome Journal, 7(1): e20112. doi:10.1002/ppj2.20112 (12 July 2024)
• Feuer B, A Joshi, M Cho, S Chiranjeevi, ZK Deng, A Balu, AK Singh, S Sarkar, N Merchant, A Singh, B Ganapathysubramanian, C Hegde (2024) Zero-shot insect detection via weak language supervision. The Plant Phenome Journal, 7(1): e20107. doi:10.1002/ppj2.20107 (21 May 2024)