José McFaline

Postdoctoral Fellow
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I am a post-doctoral fellow in the Trapnell lab. I received my B.S. in Chemistry at the University of Puerto Rico at Mayagüez. I then went on to complete my Ph.D. in Biology at MIT with a focus on Cancer Systems Biology in the laboratories of Professor Leona Samson and Professor Forest White. As a member of the Samson and White labs I worked on identifying mechanisms of chemoresistance in glioblastoma, the most common and malignant brain cancer. Using a variety of molecular biology and proteomic approaches I identified alterations in DNA repair and mitogenic signaling networks that modulate the response of glioblastoma cells to the main chemotherapeutic used in the treatment of the disease, temozolomide.


Massively multiplex chemical transcriptomics at single cell resolution

A pooled single-cell genetic screen identifies regulatory checkpoints in the continuum of the epithelial-to-mesenchymal transition

Thyroid hormone regulates distinct paths to maturation in pigment cell lineages

A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens

Dynamics of gene expression in single root cells of A. thaliana

Towards inferring causal gene regulatory networks from single cell expression measurements

Joint profiling of chromatin accessibility and gene expression in thousands of single cells

Cicero predicts cis-regulatory DNA interactions from single-cell chromatin accessibility data

On the design of CRISPR-based single-cell molecular screens