iSBatch: a batch-processing platform for data analysis and exploration of live-cell single-molecule microscopy images and other hierarchical datasets

changepoint: AnRPackage for Changepoint Analysis

(2015) Rebecca Killick et al.   Journal of Statistical Software

DNA replication at the single-molecule level

(2014) S. A. Stratmann et al.   CHEMICAL SOCIETY REVIEWS

Single molecule dynamics in a virtual cell: a three-dimensional model that produces simulated fluorescence video-imaging data

(2014) G. I. Mashanov   Journal of the Royal Society Interface

Imaging Live Cells at the Nanometer-Scale with Single-Molecule Microscopy: Obstacles and Achievements in Experiment Optimization for Microbiology

(2014) Beth Haas et al.   MOLECULES

FindFoci: A Focus Detection Algorithm with Automated Parameter Training That Closely Matches Human Assignments, Reduces Human Inconsistencies and Increases Speed of Analysis

(2014) Alex D. Herbert et al.   PLoS One

Single-Molecule Fluorescence Imaging in Living Cells

(2013) Tie Xia et al.   Annual Review of Physical Chemistry

MosaicIA: an ImageJ/Fiji plugin for spatial pattern and interaction analysis

(2013) Arun Shivanandan et al.   BMC BIOINFORMATICS

Bacterial replication, transcription and translation: mechanistic insights from single-molecule biochemical studies

(2013) Andrew Robinson et al.   NATURE REVIEWS MICROBIOLOGY

A call for bioimaging software usability

(2012) Anne E Carpenter et al.   NATURE METHODS

Faster STORM using compressed sensing

(2012) Lei Zhu et al.   NATURE METHODS

Current challenges in open-source bioimage informatics

(2012) Albert Cardona et al.   NATURE METHODS

Biological imaging software tools

(2012) Kevin W Eliceiri et al.   NATURE METHODS

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Experimental approaches for addressing fundamental biological questions in living, functioning cells with single molecule precision

(2012) T. Lenn et al.   Open Biology

Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software

(2011) Lee Kamentsky et al.   BIOINFORMATICS

PALM and STORM: Unlocking live-cell super-resolution

(2011) Ricardo Henriques et al.   BIOPOLYMERS

High-throughput, subpixel precision analysis of bacterial morphogenesis and intracellular spatio-temporal dynamics

(2011) Oleksii Sliusarenko et al.   MOLECULAR MICROBIOLOGY

Fluorescence and single molecule analysis in cell biology

(2010) Rudolf Rigler   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Stoichiometry and Architecture of Active DNA Replication Machinery in Escherichia coli

(2010) R. Reyes-Lamothe et al.   SCIENCE

Quantitative Time-Lapse Fluorescence Microscopy in Single Cells

(2009) Dale Muzzey et al.   Annual Review of Cell and Developmental Biology

Far-red fluorescent tags for protein imaging in living tissues

(2009) Dmitry Shcherbo et al.   BIOCHEMICAL JOURNAL

Online image analysis software for photoactivation localization microscopy

(2009) Per Niklas Hedde et al.   NATURE METHODS

CellProfiler Analyst: data exploration and analysis software for complex image-based screens

(2008) Thouis R Jones et al.   BMC BIOINFORMATICS

Localization of a fluorescent source without numerical fitting

(2008) Sean Andersson   OPTICS EXPRESS