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Journal Papers:

1. Fundamental diagram constrained dynamic optimal transport via proximal splitting methods             (2025)

    Anqi Dong, Karl H. Johansson, and Johan Karlsson 

2. Controllability and Observability of Temporal Hypergraphs                                                                     (2024)

    Anqi Dong, Xin Mao, and Can Chen  (Control Systems Letters) 

3. Data Assimilation for Sign-indefinite Priors: A generalization of Sinkhorn's algorithm                        (2024)

    Anqi Dong, Tryphon T. Georgiou, and Allen Tannenbaum.   (AUTOMATICA, Editor’s Choice for July, 2025) 

4. Negative Probabilities and the Sinkhorn Algorithm: Promotion/Inhibition Interactions in Networks   (2023)

   Anqi Dong, Tryphon T. Georgiou, and Allen Tannenbaum. 

 （Geometry, Topology, and Control System Design, AIMS on Applied Mathematics）                                                   

5. Monge-Kantorovich Optimal Transport Through Constrictions and Flow-rate Constraints                  (2023)

   Anqi Dong,  Arthur Stephanovitch,  and Tryphon T. Georgiou.     (AUTOMATICA)                                  

6. Optimal transport through a toll                                                                                                  (2022)

    Arthur Stephanovitch,  Anqi Dong*,  and Tryphon T. Georgiou.   (European Journal of Applied Mathematics)
 

7. A lasso-alternative to Dijkstra algorithm for identifying short paths in networks                                   (2021)

    Anqi Dong,  Amirhossein Taghvaei, and Tryphon T. Georgiou.

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Conference Papers:

1. Task Allocation for Multi-agent Systems via Unequal-dimensional Optimal Transport                       (2025)

    Anqi Dong, Karl H. Johansson and Johan Karlsson 

2. Network Learning with Directional Sign Patterns                                                                                  (2024)

   Anqi Dong, Can Chen, and Tryphon T. Georgiou.

    Proceedings of the 63rd IEEE Conference on Decision and Control (CDC)

3. Stability Analysis of Higher-order Ecological Networks through Tensor Decompositions                   (2024)

   Anqi Dong and Can Chen. 

   Proceedings of the 22nd European Control Conference (ECC)

4. Lasso formulation of the shortest path problem                                                                                      (2020)

   Anqi Dong,  Amirhossein Taghvaei, and Tryphon T. Georgiou.         

    Proceedings of the 59th IEEE Conference on Decision and Control (CDC)

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Papers on Learning

1. OAT-FM: Optimal Acceleration Transport for Improved Flow Matching                                             (2025)

    Angxiao Yue, Anqi Dong, Hongteng Xu (co-first author)

   arXiv:2509.24936

2. Federated Flow Matching                                                                                                                        (2025)

    Zifan Wang, Anqi Dong, Mahmoud Selim, Michael M Zavlanos, Karl H Johansson

   arXiv:2509.21250

3. VSNet: Vessel Structure-aware Network for Hepatic and Portal Vein Segmentation                           (2024)

    Jichen Xu, Anqi Dong, et al.  (co-first author)

   Medical Image Analysis