Dynamic distribution decomposition for single-cell snapshot time series identifies subpopulations and trajectories during iPSC reprogramming

Data-Driven Model Reduction and Transfer Operator Approximation

(2018) Stefan Klus et al.   JOURNAL OF NONLINEAR SCIENCE

Opportunities and obstacles for deep learning in biology and medicine

(2018) Travers Ching et al.   Journal of the Royal Society Interface

Comparative Analysis of Single-Cell RNA Sequencing Methods

(2017) Christoph Ziegenhain et al.   MOLECULAR CELL

Influence of node abundance on signaling network state and dynamics analyzed by mass cytometry

(2017) Xiao-Kang Lun et al.   NATURE BIOTECHNOLOGY

Mass Cytometry: Single Cells, Many Features

(2016) Matthew H. Spitzer et al.   CELL

Computational methods for trajectory inference from single-cell transcriptomics

(2016) Robrecht Cannoodt et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Extracting spatial–temporal coherent patterns in large-scale neural recordings using dynamic mode decomposition

(2016) Bingni W. Brunton et al.   JOURNAL OF NEUROSCIENCE METHODS

Wishbone identifies bifurcating developmental trajectories from single-cell data

(2016) Manu Setty et al.   NATURE BIOTECHNOLOGY

Dynamic Mode Decomposition with Control

(2016) Joshua L. Proctor et al.   SIAM JOURNAL ON APPLIED DYNAMICAL SYSTEMS

Sparse Regression Based Structure Learning of Stochastic Reaction Networks from Single Cell Snapshot Time Series

(2016) Anna Klimovskaia et al.   PLoS Computational Biology

A Continuous Molecular Roadmap to iPSC Reprogramming through Progression Analysis of Single-Cell Mass Cytometry

(2015) Eli R. Zunder et al.   Cell Stem Cell

A Data–Driven Approximation of the Koopman Operator: Extending Dynamic Mode Decomposition

(2015) Matthew O. Williams et al.   JOURNAL OF NONLINEAR SCIENCE

Discovering dynamic patterns from infectious disease data using dynamic mode decomposition

(2015) Joshua L. Proctor et al.   International Health

viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia

(2013) El-ad David Amir et al.   NATURE BIOTECHNOLOGY

Moment-based inference predicts bimodality in transient gene expression

(2012) C. Zechner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Kernel density estimation via diffusion

(2010) Z. I. Botev et al.   ANNALS OF STATISTICS

Dynamic mode decomposition of numerical and experimental data

(2010) PETER J. SCHMID   JOURNAL OF FLUID MECHANICS