82 citations · 503 across the 19 of their papers we have counts for
19 papers
Rare Events Analysis and Computation for Stochastic Evolution of Bacterial Populations
Yingxue Su, Brett Geiger, Ilya Timofeyev +2
In this paper, we develop a computational approach for computing most likely trajectories describing rare events that correspond to the emergence of non-dominant genotypes. This wo…
An Operator-Splitting Approach for Variational Optimal Control Formulations for Diffeomorphic Shape Matching
Andreas Mang, Jiwen He, Robert Azencott
We present formulations and numerical algorithms for solving diffeomorphic shape matching problems. We formulate shape matching as a variational problem governed by a dynamical sys…
Automatic classification of deformable shapes
Hossein Dabirian, Radmir Sultamuratov, James Herring +4
Let be a dataset of smooth 3D-surfaces, partitioned into disjoint classes , . We show how optimized diffeomorphic registration applied…
CLAIRE -- Parallelized Diffeomorphic Image Registration for Large-Scale Biomedical Imaging Applications
Naveen Himthani, Malte Brunn, Jae-Youn Kim +3
We study the performance of CLAIRE -- a diffeomorphic multi-node, multi-GPU image-registration algorithm, and software -- in large-scale biomedical imaging applications with billio…
Stochastic Neural Networks for Automatic Cell Tracking in Microscopy Image Sequences of Bacterial Colonies
Sorena Sarmadi, James J. Winkle, Razan N. Alnahhas +4
Our work targets automated analysis to quantify the growth dynamics of a population of bacilliform bacteria. We propose an innovative approach to frame-sequence tracking of deforma…
Diffeomorphic Shape Matching by Operator Splitting in 3D Cardiology Imaging
Peng Zhang, Andreas Mang, Jiwen He +3
We develop an operator splitting approach to solve diffeomorphic matching problems for sequences of surfaces in three-dimensional space. The goal is to smoothly match, at a very fa…
Multi-Node Multi-GPU Diffeomorphic Image Registration for Large-Scale Imaging Problems
Malte Brunn, Naveen Himthani, George Biros +2
We present a Gauss-Newton-Krylov solver for large deformation diffeomorphic image registration. We extend the publicly available CLAIRE library to multi-node multi-graphics process…
Fast GPU 3D Diffeomorphic Image Registration
Malte Brunn, Naveen Himthani, George Biros +2
3D image registration is one of the most fundamental and computationally expensive operations in medical image analysis. Here, we present a mixed-precision, Gauss--Newton--Krylov s…
Integrated Biophysical Modeling and Image Analysis: Application to Neuro-Oncology
Andreas Mang, Spyridon Bakas, Shashank Subramanian +2
Central nervous system (CNS) tumors come with the vastly heterogeneous histologic, molecular and radiographic landscape, rendering their precise characterization challenging. The r…
Image-Driven Biophysical Tumor Growth Model Calibration
Klaudius Scheufele, Shashank Subramanian, Andreas Mang +2
We present a novel formulation for the calibration of a biophysical tumor growth model from a single-time snapshot, MRI scan of a glioblastoma patient. Tumor growth models are typi…
CLAIRE: A distributed-memory solver for constrained large deformation diffeomorphic image registration
Andreas Mang, Amir Gholami, Christos Davatzikos +1
With this work, we release CLAIRE, a distributed-memory implementation of an effective solver for constrained large deformation diffeomorphic image registration problems in three d…
PDE-constrained optimization in medical image analysis
Andreas Mang, Amir Gholami, Christos Davatzikos +1
PDE-constrained optimization problems find many applications in medical image analysis, for example, neuroimaging, cardiovascular imaging, and oncological imaging. We review relate…
Coupling Brain-Tumor Biophysical Models and Diffeomorphic Image Registration
Klaudius Scheufele, Andreas Mang, Amir Gholami +3
We present the SIBIA (Scalable Integrated Biophysics-based Image Analysis) framework for joint image registration and biophysical inversion and we apply it to analyse MR images of…
A Lagrangian Gauss-Newton-Krylov Solver for Mass- and Intensity-Preserving Diffeomorphic Image Registration
Andreas Mang, Lars Ruthotto
We present an efficient solver for diffeomorphic image registration problems in the framework of Large Deformations Diffeomorphic Metric Mappings (LDDMM). We use an optimal control…
Distributed-memory large deformation diffeomorphic 3D image registration
Andreas Mang, Amir Gholami, George Biros
We present a parallel distributed-memory algorithm for large deformation diffeomorphic registration of volumetric images that produces large isochoric deformations (locally volume…
A Semi-Lagrangian two-level preconditioned Newton-Krylov solver for constrained diffeomorphic image registration
Andreas Mang, George Biros
We propose an efficient numerical algorithm for the solution of diffeomorphic image registration problems. We use a variational formulation constrained by a partial differential eq…
Constrained -regularization schemes for diffeomorphic image registration
Andreas Mang, George Biros
We propose regularization schemes for deformable registration and efficient algorithms for their numerical approximation. We treat image registration as a variational optimal contr…
An inexact Newton-Krylov algorithm for constrained diffeomorphic image registration
Andreas Mang, George Biros
We propose numerical algorithms for solving large deformation diffeomorphic image registration problems. We formulate the nonrigid image registration problem as a problem of optima…
An inverse problem formulation for parameter estimation of a reaction diffusion model of low grade gliomas
Amir Gholami, Andreas Mang, George Biros
We present a numerical scheme for solving a parameter estimation problem for a model of low-grade glioma growth. Our goal is to estimate the spatial distribution of tumor concentra…