Publications

Preprints

Journal Articles

1. K.L. Ho. FLAM: Fast linear algebra in MATLAB – Algorithms for hierarchical matrices. J. Open Source Softw. 5 (51): 1906, 2020. doi:10.21105/joss.01906.
2. Z. Chen, J. Zhang, K.L. Ho, H. Yang. Multidimensional phase recovery and interpolative decomposition butterfly factorization. J. Comput. Phys. 412: 109427, 2020. doi:10.1016/j.jcp.2020.109427.
3. Q. Pang, K.L. Ho, H. Yang. Interpolative decomposition butterfly factorization. SIAM J. Sci. Comput. 42 (2): A1097–A1115, 2020. doi:10.1137/19M1294873.
4. J. Feliu-Fabà, K.L. Ho, L. Ying. Recursively preconditioned hierarchical interpolative factorization for elliptic partial differential equations. Commun. Math. Sci. 18 (1): 91–108, 2020. doi:10.4310/CMS.2020.v18.n1.a4.
5. H.A. Harrington, K.L. Ho, N. Meshkat. A parameter-free model comparison test using differential algebra. Complexity 2019: 6041981, 2019. doi:10.1155/2019/6041981.
6. V. Minden, A. Damle, K.L. Ho, L. Ying. Fast spatial Gaussian process maximum likelihood estimation via skeletonization factorizations. Multiscale Model. Simul. 15 (4): 1584–1611, 2017. doi:10.1137/17M1116477.
7. F. Fang, K.L. Ho., L. Ristroph, M.J. Shelley. A computational model of the flight dynamics and aerodynamics of a jellyfish-like flying machine. J. Fluid Mech. 819: 621–655, 2017. doi:10.1017/jfm.2017.150.
   • Supplementary movies available on journal website
8. V. Minden, K.L. Ho, A. Damle, L. Ying. A recursive skeletonization factorization based on strong admissibility. Multiscale Model. Simul. 15 (2): 768–796, 2017. doi:10.1137/16M1095949.
9. E. Gross, B. Davis, K.L. Ho, D.J. Bates, H.A. Harrington. Numerical algebraic geometry for model selection and its applications to the life sciences. J. R. Soc. Interface 13 (123): 20160256, 2016. doi:10.1098/rsif.2016.0256. PMID:27733697.
   • Supplementary material (doi:10.6084/m9.figshare.c.3491538)
10. K.L. Ho, L. Ying. Hierarchical interpolative factorization for elliptic operators: differential equations. Comm. Pure Appl. Math. 69 (8): 1415–1451, 2016. doi:10.1002/cpa.21582.
11. K.L. Ho, L. Ying. Hierarchical interpolative factorization for elliptic operators: integral equations. Comm. Pure Appl. Math. 69 (7): 1314–1353, 2016. doi:10.1002/cpa.21577.
12. V. Minden, A. Damle, K.L. Ho, L. Ying. A technique for updating hierarchical skeletonization-based factorizations of integral operators. Multiscale Model. Simul. 14 (1): 42–64, 2016. doi:10.1137/15M1024500.
13. Y. Li, H. Yang, E.R. Martin, K.L. Ho, L. Ying. Butterfly factorization. Multiscale Model. Simul. 13 (2): 714–732, 2015. doi:10.1137/15M1007173.
14. K.L. Ho, L. Greengard. A fast semidirect least squares algorithm for hierarchically block separable matrices. SIAM J. Matrix Anal. Appl. 35 (2): 725–748, 2014. doi:10.1137/120902677.
15. L. Greengard, K.L. Ho, J.-Y. Lee. A fast direct solver for scattering from periodic structures with multiple material interfaces in two dimensions. J. Comput. Phys. 258: 738–751, 2014. doi:10.1016/j.jcp.2013.11.011.
16. H.A. Harrington, K.L. Ho, T. Thorne, M.P.H. Stumpf. Parameter-free model discrimination criterion based on steady-state coplanarity. Proc. Natl. Acad. Sci. U.S.A. 109 (39): 15746–15751, 2012. doi:10.1073/pnas.1117073109. PMID:22967512.
    • Sage worksheet
17. K.L. Ho, L. Greengard. A fast direct solver for structured linear systems by recursive skeletonization. SIAM J. Sci. Comput. 34 (5): A2507–A2532, 2012. doi:10.1137/120866683.
18. J.A. Bell, K.L. Ho, R. Farid. Significant reduction in errors associated with nonbonded contacts in protein crystal structures: automated all-atom refinement with PrimeX. Acta Cryst. D68 (8): 935–952, 2012. doi:10.1107/S0907444912017453. PMID:22868759.
    • Supplementary material (doi:10.1107/S0907444912017453/rr5017sup1.pdf)
19. K.L. Ho, H.A. Harrington. Bistability in apoptosis by receptor clustering. PLoS Comput. Biol. 6 (10): e1000956, 2010. doi:10.1371/journal.pcbi.1000956. PMID:20976242.
    • Protocol S1 (doi:10.1371/journal.pcbi.1000956.s001)
20. H.A. Harrington, K.L. Ho, S. Ghosh, KC Tung. Construction and analysis of a modular model of caspase activation in apoptosis. Theor. Biol. Med. Model. 5: 26, 2008. doi:10.1186/1742-4682-5-26. PMID:19077196.

Theses

1. K.L. Ho. Fast direct methods for molecular electrostatics. Ph.D. thesis, New York Univ., 2012. UMI:3524158.

Patents

9. K.L.K. Ho, C.-J. Lai, K. Yamazoe, X. Zhou, D. Peng. Multi-component kernels for vector optical image simulation. U.S. patents 11,435,670, 2022; 11,754,930, 2023. Google: US11435670.
7. K.L.K. Ho. Litho-aware source sampling and resampling. U.S. patent 11,256,176, 2022. Google: US11256176.
6. K.L.K. Ho. Method and apparatus for computing feature kernels for optical model simulation. U.S. patents 10,809,629, 2020; 11,003,092, 2021. Google: US10809629.
4. D. Beylkin, K.L. Ho, S.V. Trivedi, F. Xu, J. Lei, D. Peng. Synchronized parallel tile computation for large area lithography simulation. U.S. patents 10,671,052, 2020; 10,915,090, 2021; 11,340,584, 2022; 11,747,786, 2023. Google: US10671052.