An automated Bayesian pipeline for rapid analysis of single-molecule binding data

The Single-Molecule Centroid Localization Algorithm Improves the Accuracy of Fluorescence Binding Assays

(2018) Boyang Hua et al.   BIOCHEMISTRY

Variational Algorithms for Analyzing Noisy Multistate Diffusion Trajectories

(2018) Martin Lindén et al.   BIOPHYSICAL JOURNAL

Autonomous Generation and Loading of DNA Guides by Bacterial Argonaute

(2017) Daan C. Swarts et al.   MOLECULAR CELL

Single-Molecule Analysis of Lipid–Protein Interactions in Crude Cell Lysates

(2016) Edwin Arauz et al.   ANALYTICAL CHEMISTRY

Single-Molecule Imaging Reveals that Argonaute Reshapes the Binding Properties of Its Nucleic Acid Guides

(2015) William E. Salomon et al.   CELL

A Dynamic Search Process Underlies MicroRNA Targeting

(2015) Stanley D. Chandradoss et al.   CELL

Nuclear accessibility of β-actin mRNA is measured by 3D single-molecule real-time tracking

(2015) Carlas S. Smith et al.   JOURNAL OF CELL BIOLOGY

Multi-wavelength single-molecule fluorescence analysis of transcription mechanisms

(2015) Larry J. Friedman et al.   METHODS

Single-Molecule Analysis of the Target Cleavage Reaction by the Drosophila RNAi Enzyme Complex

(2015) Chunyan Yao et al.   MOLECULAR CELL

Human Argonaute 2 Has Diverse Reaction Pathways on Target RNAs

(2015) Myung Hyun Jo et al.   MOLECULAR CELL

Single Molecule Cluster Analysis dissects splicing pathway conformational dynamics

(2015) Mario R Blanco et al.   NATURE METHODS

Inferring transient particle transport dynamics in live cells

(2015) Nilah Monnier et al.   NATURE METHODS

Water-mediated recognition of t1-adenosine anchors Argonaute2 to microRNA targets

(2015) Nicole T Schirle et al.   eLife

Empirical Bayes Methods Enable Advanced Population-Level Analyses of Single-Molecule FRET Experiments

(2014) Jan-Willem van de Meent et al.   BIOPHYSICAL JOURNAL

The Initial Uridine of Primary piRNAs Does Not Create the Tenth Adenine that Is the Hallmark of Secondary piRNAs

(2014) Wei Wang et al.   MOLECULAR CELL

DNA-guided DNA interference by a prokaryotic Argonaute

(2014) Daan C. Swarts et al.   NATURE

Multiple LacI-mediated loops revealed by Bayesian statistics and tethered particle motion

(2014) Stephanie Johnson et al.   NUCLEIC ACIDS RESEARCH

The Jeffreys–Lindley paradox and discovery criteria in high energy physics

(2014) Robert D. Cousins   SYNTHESE

Dynamic Anchoring of the 3′-End of the Guide Strand Controls the Target Dissociation of Argonaute–Guide Complex

(2013) Seung-Ryoung Jung et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Extracting intracellular diffusive states and transition rates from single-molecule tracking data

(2013) Fredrik Persson et al.   NATURE METHODS

Structure-based cleavage mechanism of Thermus thermophilus Argonaute DNA guide strand-mediated DNA target cleavage

(2013) G. Sheng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Real-time single-molecule co-immunoprecipitation analyses reveal cancer-specific Ras signalling dynamics

(2013) Hong-Won Lee et al.   Nature Communications

Alternative Spliceosome Assembly Pathways Revealed by Single-Molecule Fluorescence Microscopy

(2013) Inna Shcherbakova et al.   Cell Reports

Variational Bayes Analysis of a Photon-Based Hidden Markov Model for Single-Molecule FRET Trajectories

(2012) Kenji Okamoto et al.   BIOPHYSICAL JOURNAL

Mechanism of Transcription Initiation at an Activator-Dependent Promoter Defined by Single-Molecule Observation

(2012) Larry J. Friedman et al.   CELL

Single Molecule Analysis Research Tool (SMART): An Integrated Approach for Analyzing Single Molecule Data

(2012) Max Greenfeld et al.   PLoS One

ErbB1 dimerization is promoted by domain co-confinement and stabilized by ligand binding

(2011) Shalini T Low-Nam et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Argonaute protein identity and pairing geometry determine cooperativity in mammalian RNA silencing

(2011) J. A. Broderick et al.   RNA

Ordered and Dynamic Assembly of Single Spliceosomes

(2011) A. A. Hoskins et al.   SCIENCE

Minimum variance unbiased subpixel centroid estimation of point image limited by photon shot noise

(2010) Hui Jia et al.   JOURNAL OF THE OPTICAL SOCIETY OF AMERICA A-OPTICS IMAGE SCIENCE AND VISION

Fast, single-molecule localization that achieves theoretically minimum uncertainty

(2010) Carlas S Smith et al.   NATURE METHODS

Mitigating Unwanted Photophysical Processes for Improved Single-Molecule Fluorescence Imaging

(2009) Richa Dave et al.   BIOPHYSICAL JOURNAL

Learning Rates and States from Biophysical Time Series: A Bayesian Approach to Model Selection and Single-Molecule FRET Data

(2009) Jonathan E. Bronson et al.   BIOPHYSICAL JOURNAL

Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes

(2009) Yanli Wang et al.   NATURE

Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex

(2008) Yanli Wang et al.   NATURE

Structure of the guide-strand-containing argonaute silencing complex

(2008) Yanli Wang et al.   NATURE

High-density mapping of single-molecule trajectories with photoactivated localization microscopy

(2008) Suliana Manley et al.   NATURE METHODS

An Oxygen Scavenging System for Improvement of Dye Stability in Single-Molecule Fluorescence Experiments

(2007) Colin Echeverría Aitken et al.   BIOPHYSICAL JOURNAL