Chris Bakal

Pheno-MYCN links slide-level MYCN prediction to interpretable morphological sub-populations in neuroblastoma, revealing a continuous gradient of MYCN-associated features.

This study assesses the reproducibility of a 3D spheroid-based assay across four institutes using dual-view oblique plane microscopy and finds high consistency in treatment effects with low technical noise.

This paper identifies PARP inhibitors as sensitizers for oncolytic reovirus by enhancing DISC-mediated apoptosis and NF-kappa B-driven immune responses.

The paper identifies molecular determinants for phosphotyrosine recognition in tyrosine kinases and shows their roles in tumor promotion and suppression.

This study evaluates the biocompatibility of Si3N4-coated CMOS-based Lab-on-Chip sensors for cancer cell culture, showing reduced cell adhesion and altered mechano-responsiveness compared to standard plastic.

The paper identifies actin nucleators as essential for protecting replication forks by modulating RPA activity and preventing ssDNA degradation during replicative stress.

This study investigates neurodegeneration in Xeroderma pigmentosum using stem cell-derived neurons, identifying endoplasmic reticulum stress and UPS dysfunction as key factors and developing an early detection assay.

The paper uses multi-omic data to show how protein and mRNA scaling with cell size regulates proliferation in melanoma cells, revealing mechanisms of growth and division coupling.

The paper uses geometric deep learning to analyze 3D cell shapes from melanoma cells, identifying morphological signatures and predicting small molecule mechanisms.

The paper integrates gene expression and cell shape imaging data to identify phenotype-specific gene networks and signaling pathways involved in breast cancer cell morphology.

The paper shows that epithelial-mesenchymal plasticity is regulated by inflammatory signalling networks linked to cell morphology through changes in microtubule and nuclear organization.

This study characterizes membrane voltage fluctuations in human breast cancer and non-cancerous cells, identifying distinct dynamic patterns linked to cellular transformation.

The paper identifies DOCK5 as a regulator of YAP/TAZ localization and cell shape during migration, showing its role in maintaining polarity through interactions with CDC42, RAC, and RHOA.

The paper identifies Brca1, Bard1, and Wdr5 as factors linking DNA damage response to MET during reprogramming, using siRNA screening and colony morphology analysis.

This study compares the off-target effects of RNAi, antisense oligonucleotides, and CRISPRi in transcriptomic analyses, showing that all methods have non-negligible off-target effects and recommend using multiple LOF methods for functional validation.