William Raymond

MicroLive: An Image Processing Toolkit for Quantifying Live-cell Single-Molecule Microscopy

MicroLive is an open-source image processing tool for live-cell single-molecule microscopy that provides GUI-based quantification of key imaging tasks.

Identification of potential riboswitch elements in Homo Sapiens mRNA 5'UTR sequences using Positive-Unlabeled Machine learning

The paper uses positive-unlabeled machine learning to identify potential riboswitch elements in human mRNA 5'UTR sequences by comparing them to known riboswitch sequences.

Using mechanistic models and machine learning to design single-color multiplexed Nascent Chain Tracking experiments

This paper proposes a hybrid computational pipeline combining mechanistic models and machine learning to design single-color multiplexed Nascent Chain Tracking experiments capable of resolving multiple mRNA species.

Live-cell imaging reveals the spatiotemporal organization of endogenous RNA polymerase II phosphorylation at a single gene

The paper uses live-cell imaging to study RNA polymerase II phosphorylation dynamics at a single gene, revealing spatial and temporal organization of phosphorylation clusters during transcription.

Computational design and interpretation of live-cell, single-RNA translation experiments

The paper develops a computational model to simulate single-RNA translation dynamics and evaluates experimental assays for estimating elongation kinetics.

Identification of Gene Regulation Models from Single-Cell Data

The paper illustrates how different computational approaches and models can yield varying results when analyzing single-cell gene regulation data, using simulated data and software tools.