Tom Misteli

This study uses OptoTet to manipulate TAD boundaries and shows that boundary pairing enhances gene activity for ERRFI1 but not MYC.

This study shows that reducing LRRK2 activity improves aging-related defects in HGPS models and aged cells.

The paper identifies DNA replication machinery components as critical for TAD boundary re-establishment during DNA replication.

The paper profiles genome organization changes during breast cancer progression using Micro-C mapping and links these changes to gene expression and enhancer activity.

The paper develops an AMC model to link multiway enhancer-promoter contacts and enhancer activity to gene overexpression in prostate and breast cancer.

The paper investigates the relationship between TAD boundaries and gene activity using single-cell imaging, finding they are largely uncoupled.

The paper identifies molecular regulators of centromere distribution by screening nuclear proteins and shows that mitosis influences interphase genome organization.

This study shows that acute RUNX1 loss reprograms enhancer activity, leading to epithelial destabilization and cancer hallmark activation in human mammary epithelial cells.

OptoLoop enables light-induced manipulation of chromatin contacts to study genome organization's role in gene regulation, showing looping-mediated repression of TERT.

This study identifies primary target pathways of progerin in HGPS patients through transcriptomic analysis, revealing mTORC1, UPR, UV response, apoptosis, and TNF signaling as key affected pathways.

The paper introduces CRASP-Seq, a method to identify gene regulators of alternative splicing, and finds ZNF207 regulates LMNA splicing in progeria by interacting with U1 snRNP.

The paper develops a framework to quantitatively analyze spatial centromere distribution patterns using clustering metrics and modeling techniques, identifying Ripleys K Score as the most accurate metric.

This study identifies acetylation of the Integrator complex as a key determinant of gene-specific transcriptional bursting patterns through high-throughput imaging screens.

The paper develops high-throughput DNA/RNA FISH methods to visualize allele-level chromatin features and gene activity across cell populations.

HiTIPS provides a flexible, open-source platform for high-throughput image analysis in cell biology, supporting customization and integration of new algorithms for tasks like segmentation, tracking, and quantification.

RefCell analyzes image-based HTS data by identifying typical cells in reference states to assess deviations from typical behavior in perturbations or samples.

The paper investigates how primary RNA sequence and secondary structure influence 5' splice site selection in vivo using a model of Hutchinson-Gilford Progeria Syndrome.

This paper introduces HiHiMap, a high-throughput imaging technique to quantify histone and PTM levels across the cell cycle at the single-cell level, revealing differences in PTM behavior between normal, immortalized, and transformed cells.

This study investigates cell-to-cell and cell-intrinsic variability in genome organization using Hi-C and genome imaging in human fibroblasts, revealing extensive heterogeneity in chromatin conformations.

This paper reviews recent findings on the mechanisms and functional consequences of nuclear gene positioning in yeast, plants, and mammals.

This study compares 2D and 3D distance measurements for analyzing spatial genome organization, finding 3D more accurate but noisier, and 2D preferable for comparative cell analyses.