On the Strengthening of Topological Signals in Persistent Homology through Vector Bundle Based Maps. - Eric M. Hanson; Francis C. Motta; Chris Peterson 001; Lori Ziegelmeier (CCCG, 2012)

Persistence Images: An Alternative Persistent Homology Representation. - Sofya Chepushtanova; Tegan Emerson; Eric M. Hanson; Michael Kirby; Francis C. Motta; Rachel Neville; Chris Peterson 001; Patrick D. Shipman; Lori Ziegelmeier (CoRR, 2015)

A Point of Tangency Between Combinatorics and Differential Geometry. - Francis C. Motta; Patrick D. Shipman; Bethany Springer (Am. Math. Mon., 2015)

Optimally Topologically Transitive Orbits in Discrete Dynamical Systems. - Francis C. Motta; Patrick D. Shipman; Bethany Springer (Am. Math. Mon., 2016)

Random cyclic dynamical systems. - Michal Adamaszek; Henry Adams; Francis C. Motta (Adv. Appl. Math., 2017)

An Unoriented Variation on de Bruijn Sequences. - Christie S. Burris; Francis C. Motta; Patrick D. Shipman (Graphs Comb., 2017)

Persistence Images: A Stable Vector Representation of Persistent Homology. - Henry Adams; Tegan Emerson; Michael Kirby; Rachel Neville; Chris Peterson 001; Patrick D. Shipman; Sofya Chepushtanova; Eric M. Hanson; Francis C. Motta; Lori Ziegelmeier (J. Mach. Learn. Res., 2017)

Hyperparameter Optimization of Topological Features for Machine Learning Applications. - Francis C. Motta; John Harer; Nick Leiby; Franco Marinozzi; Scott Novotney; Gabe Rocklin; Jed Singer; Devin Strickland; Matt Vaughn; Christopher J. Tralie; Rossella Bedini; Fabiano Bini; et al. (ICMLA, 2019)

Improved datasets and evaluation methods for the automatic prediction of DNA-binding proteins. - Alexander Zaitzeff; Nick Leiby; Francis C. Motta; Steven B. Haase; Jed Singer (Bioinform., 2021)

Conservation of dynamic characteristics of transcriptional regulatory elements in periodic biological processes. - Francis C. Motta; Robert C. Moseley; Bree Cummins; Anastasia Deckard; Steven B. Haase (BMC Bioinform., 2022)

Experimental guidance for discovering genetic networks through hypothesis reduction on time series. - Breschine Cummins; Francis C. Motta; Robert C. Moseley; Anastasia Deckard; Sophia Campione; Marcio Gameiro; Tomás Gedeon; Konstantin Mischaikow; Steven B. Haase (PLoS Comput. Biol., 2022)

Poster: Computing the Persistent Homology of Encrypted Data. - Dominic Gold; Koray Karabina; Francis C. Motta (CCS, 2023)

Stability and machine learning applications of persistent homology using the Delaunay-Rips complex. - Amish Mishra; Francis C. Motta (Frontiers Appl. Math. Stat., 2023)

An Algorithm for Persistent Homology Computation Using Homomorphic Encryption. - Dominic Gold; Koray Karabina; Francis C. Motta (IACR Cryptol. ePrint Arch., 2023)

A Pipeline for Data-Driven Learning of Topological Features with Applications to Protein Stability Prediction. - Amish Mishra; Francis C. Motta (CoRR, 2024)

State Dependent Delay Maps: Numerical Algorithms and Dynamics of Projections. - Jason D. Mireles-James; Francis C. Motta; Vincent Naudot (Exp. Math., 2025)