We are an interdisciplinary research group that combines expertise from physics, genomics, molecular biology and materials science to study complex biological systems with single cell resolution, at very high throughput, and in context of their native environments. We are jointly affiliated with the department of Medicine at UChicago and Center for Nanoscale Systems at ANL.
We develop and apply key technologies that allow single-cell epi-genomic and transcriptomic profiling of as many as 104-105 cells, including mammalian and microbial cells such as bacteria and yeasts, using microfluidics and next-gen sequencing, with applications in basic and translational research.
We also develop tools to study inter-cellular interactions in complex biological systems in context of environment, as well as physical and chemical techniques to systematically perturb them.
We expect our work will help create better taxonomy of cells in complex tissues, relate epi-genomics to transcription at a single cell level, and decipher inter-cellular interactions in healthy and diseased systems. This will help us understand systems-level cellular organization and function as part of complex biological environments.
Harvard University, Broad Institute
Cambridge, MA
Post-doc - Applied Physics, Genomics
2016
University of Pennsylvania
Philadelphia, PA
PhD - Physics
2012
University of Arkansas
Fayetteville, AR
BS - Physics; Computer Engineering
2004
Bile acid fitness determinants of a Bacteroides fragilis isolate from a human pouchitis patient.
Bile acid fitness determinants of a Bacteroides fragilis isolate from a human pouchitis patient. bioRxiv. 2023 Oct 17.
PMID: 37214927
Single-cell genomics improves the discovery of risk variants and genes of atrial fibrillation.
Single-cell genomics improves the discovery of risk variants and genes of atrial fibrillation. Nat Commun. 2023 08 17; 14(1):4999.
PMID: 37591828
Ribonucleotide reductase regulatory subunit M2 drives glioblastoma TMZ resistance through modulation of dNTP production.
Ribonucleotide reductase regulatory subunit M2 drives glioblastoma TMZ resistance through modulation of dNTP production. Sci Adv. 2023 05 19; 9(20):eade7236.
PMID: 37196077
Integration of silicon chip microstructures for in-line microbial cell lysis in soft microfluidics.
Integration of silicon chip microstructures for in-line microbial cell lysis in soft microfluidics. Lab Chip. 2023 05 02; 23(9):2327-2340.
PMID: 37083052
A molecular atlas of the human postmenopausal fallopian tube and ovary from single-cell RNA and ATAC sequencing.
A molecular atlas of the human postmenopausal fallopian tube and ovary from single-cell RNA and ATAC sequencing. Cell Rep. 2022 12 20; 41(12):111838.
PMID: 36543131
Engineered exosomes targeting MYC reverse the proneural-mesenchymal transition and extend survival of glioblastoma.
Engineered exosomes targeting MYC reverse the proneural-mesenchymal transition and extend survival of glioblastoma. Extracell Vesicle. 2022 Dec; 1.
PMID: 37503329
Creating patient-specific vein models to characterize wall shear stress in hemodialysis population.
Creating patient-specific vein models to characterize wall shear stress in hemodialysis population. Comput Struct Biotechnol J. 2022; 20:5729-5739.
PMID: 36382195
Hedgehog signaling activates a mammalian heterochronic gene regulatory network controlling differentiation timing across lineages.
Hedgehog signaling activates a mammalian heterochronic gene regulatory network controlling differentiation timing across lineages. Dev Cell. 2022 09 26; 57(18):2181-2203.e9.
PMID: 36108627
mDrop-Seq: Massively Parallel Single-Cell RNA-Seq of Saccharomyces cerevisiae and Candida albicans.
mDrop-Seq: Massively Parallel Single-Cell RNA-Seq of Saccharomyces cerevisiae and Candida albicans. Vaccines (Basel). 2021 Dec 27; 10(1).
PMID: 35062691
High-throughput RNA sequencing of paraformaldehyde-fixed single cells.
High-throughput RNA sequencing of paraformaldehyde-fixed single cells. Nat Commun. 2021 09 24; 12(1):5636.
PMID: 34561439