no code implementations • 16 May 2024 • Joshua Pickard, Cooper Stansbury, Amit Surana, Anthony Bloch, Indika Rajapakse
Our methods, Dynamic Sensor Selection (DSS) and Structure-Guided Sensor Selection (SGSS), utilize temporal models and experimental data, offering a template for applying observability theory to unconventional data obtained from biological systems.
no code implementations • 21 Nov 2022 • Joshua Pickard, Can Chen, Rahmy Salman, Cooper Stansbury, Sion Kim, Amit Surana, Anthony Bloch, Indika Rajapakse
Recent advances in biological technologies, such as multi-way chromosome conformation capture (3C), require development of methods for analysis of multi-way interactions.
1 code implementation • 27 Jun 2021 • Ren Wang, Tianqi Chen, Stephen Lindsly, Cooper Stansbury, Alnawaz Rehemtulla, Indika Rajapakse, Alfred Hero
Initializing a population of exemplars that is balanced across classes, RAILS starts from a uniform label distribution that encourages diversity and uses an evolutionary optimization process to adaptively adjust the predictive label distribution in a manner that emulates the way the natural immune system recognizes novel pathogens.
no code implementations • 27 Jun 2021 • Ren Wang, Tianqi Chen, Stephen Lindsly, Cooper Stansbury, Indika Rajapakse, Alfred Hero
This immuno-mimetic model leads to a new computational biology framework for robustification of deep neural networks against adversarial attacks.
1 code implementation • 27 Jun 2021 • Ren Wang, Tianqi Chen, Philip Yao, Sijia Liu, Indika Rajapakse, Alfred Hero
K-Nearest Neighbor (kNN)-based deep learning methods have been applied to many applications due to their simplicity and geometric interpretability.
no code implementations • 15 Jun 2021 • Amit Surana, Can Chen, Indika Rajapakse
In this paper, we propose two novel approaches for hypergraph comparison.
no code implementations • 18 Dec 2020 • Ren Wang, Tianqi Chen, Stephen Lindsly, Alnawaz Rehemtulla, Alfred Hero, Indika Rajapakse
RAILS incorporates an Adaptive Immune System Emulation (AISE), which emulates in silico the biological mechanisms that are used to defend the host against attacks by pathogens.
no code implementations • 9 Dec 2020 • Stephen Lindsly, Maya Gupta, Cooper Stansbury, Indika Rajapakse
However, memory B cells appear to be purposely selected earlier in the affinity maturation process and have lower affinity.
no code implementations • 25 May 2020 • Can Chen, Amit Surana, Anthony Bloch, Indika Rajapakse
In this paper, we develop a notion of controllability for hypergraphs via tensor algebra and polynomial control theory.
no code implementations • 20 Dec 2019 • Can Chen, Indika Rajapakse
In this paper, we develop the notion of entropy for uniform hypergraphs via tensor theory.
no code implementations • 16 Jun 2018 • Hafiz Tiomoko Ali, Sijia Liu, Yasin Yilmaz, Romain Couillet, Indika Rajapakse, Alfred Hero
We propose a method for simultaneously detecting shared and unshared communities in heterogeneous multilayer weighted and undirected networks.
1 code implementation • 30 May 2018 • Pin-Yu Chen, Lingfei Wu, Sijia Liu, Indika Rajapakse
The von Neumann graph entropy (VNGE) facilitates measurement of information divergence and distance between graphs in a graph sequence.