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Seminars |
Cell detection by functional inverse diffusion and non-negative group sparsity07 May 2019
Image-based immunoassays are designed to estimate the proportion of biological cells in a sample that generate a specific kind of particles. These assays are instrumental in biochemical, pharmacological and medical research, and have applications in disease diagnosis. In this talk, I describe the model, inverse problem, functional optimization framework, and algorithmic solution to analyze image-based immunoassays that we presented in [1] and [2]. In particular, I will delve into 1) the radiation-diffusion-adsorption-desorption partial differential equation and a re-parametrization of its solution in terms of convolutional operators, 2) the set up, analysis and algorithmic solution of an optimization problem in Hilbert spaces to recover spatio-temporal information from a single image observation, and 3) the derivation of the proximal operator in function spaces for the non-negative group-sparsity regularizer. After discretization, our work results in a convergent, high-performing algorithm with 25 million optimization variables that requires the entire engineering toolbox of tips and tricks, and was recently incorporated in a commercial product [3]. If time allows, I will introduce our work in [4], in which we use the structure of our algorithm to learn a faster, approximated solver for our optimization problem. [1]: Pol del Aguila Pla and Joakim Jaldén, "Cell detection by functional inverse diffusion and non-negative group sparsity—Part I: Modeling and Inverse Problems", IEEE Transactions on Signal Processing, vol. 66, no. 20, pp. 5407–5421, 2018. Access at: https://doi.org/10.1109/TSP.2018.2868258 [2]: Pol del Aguila Pla and Joakim Jaldén, "Cell detection by functional inverse diffusion and non-negative group sparsity—Part II: Proximal optimization and Performance Evaluation", IEEE Transactions on Signal Processing, vol. 66, no. 20, pp. 5422–5437, 2018. Access at: https://doi.org/10.1109/TSP.2018.2868256 [3]: Mabtech Iris reader. See product page: https://www.mabtech.com/iris [4]: Pol del Aguila Pla, Vidit Saxena, and Joakim Jaldén, "SpotNet – Learned iterations for cell detection in image-based immunoassays", 2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019). Access at: https://arxiv.org/abs/1810.06132
Measure Digital, Reconstruct Analog16 Apr 2019
Deep Learning for Non-Linear Inverse Problems02 Apr 2019
Numerical Investigation of Continuous-Domain Lp-norm Regularization in Generalized Interpolation19 Feb 2019
Inner-Loop-Free ADMM for Cryo-EM15 Jan 2019
Fast PET reconstruction: the home stretch11 Dec 2018
Self-Supervised Deep Active Accelerated MRI27 Nov 2018
Minimum Support Multi-Splines20 Nov 2018
Sparse Coding with Projected Gradient Descent for Inverse Problems 23 Oct 2018
Adversarially-Sandwiched VAEs for Inverse Problems02 Oct 2018
PSF-Extractor: from fluorescent beads measurements to continuous PSF model11 Sep 2018
Analysis of Planar Shapes through Shape Dictionary Learning with an Extension to Splines28 Aug 2018
Complex-order scale-invariant operators and self-similar processes21 Aug 2018
Variational Framework for Continuous Angular Refinement and Reconstruction in Cryo-EM14 Aug 2018
Looking beyond Pixels: Theory, Algorithms and Applications of Continuous Sparse Recovery07 Aug 2018
A L1 representer theorem of vector-valued learning17 Jul 2018
Computational Super-Sectioning for Single-Slice Structured-Illumination Microscopy 19 Jun 2018
Theoretical and Numerical Analysis of Super-Resolution without Grid19 Jun 2018
Fast rotational dictionary learning using steerability 08 May 2018
Hybrid spline dictionaries for continuous-domain inverse problems24 Apr 2018
Fast Multiresolution Reconstruction for Cryo-EM17 Apr 2018
Direct Reconstruction of Clipped Peaks in Bandlimited OFDM Signals13 Mar 2018
Sparsity-based techniques for diffraction tomography27 Feb 2018
Structured Illumination and the Analysis of Single Molecules in Cells09 Feb 2018
Periodic Splines and Gaussian Processes for the Resolution of Linear Inverse Problems30 Jan 2018
Fast Piecewise-Affine Motion Estimation Without Segmentation19 Dec 2017
Continuous Representations in Bioimage Analysis: a Bridge from Pixels to the Real World12 Dec 2017
Steer&Detect on Images 14 Nov 2017
Fundamental computational barriers in inverse problems and the mathematics of information27 Oct 2017
Variational use of B-splines and Kernel Based Functions27 Oct 2017