Paweł Trzaskoma

Highly Constrained Kinetic Models for Single-Cell Gene Expression Analysis

This study introduces a kinetic model that integrates scRNA-seq and imaging data to simulate gene transcription dynamics and identifies conserved quantities and improved models for transcription factor mechanisms.

Neuronal activation affects the organization and protein composition of the nuclear speckles

This study shows neuronal activation remodels nuclear speckles' organization and protein composition in rat hippocampal neurons without causing stress or cell death, and these changes depend on transcription and splicing.

PartSeg, a Tool for Quantitative Feature Extraction From 3D Microscopy Images for Dummies

PartSeg is a tool for automated segmentation and reconstruction of 3D microscopy images, designed for cell nucleus analysis with a user-friendly interface and bulk processing capabilities.

Ultrastructural Visualization of 3D Chromatin Folding Using Serial Block-Face Scanning Electron Microscopy and In Situ Hybridization (3D-EMISH)

This paper develops a new electron microscopy method to visualize 3D chromatin folding at ultra-resolution in human cells and finds high heterogeneity in chromatin structures.