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
Multiomic analysis reveals cellular, transcriptomic and epigenetic changes in intestinal pouches of ulcerative colitis patients.
Multiomic analysis reveals cellular, transcriptomic and epigenetic changes in intestinal pouches of ulcerative colitis patients. Nat Commun. 2025 Jan 21; 16(1):904.
PMID: 39837850
Multiomic analysis reveals cellular, transcriptomic and epigenetic changes in intestinal pouches of ulcerative colitis patients.
Multiomic analysis reveals cellular, transcriptomic and epigenetic changes in intestinal pouches of ulcerative colitis patients. medRxiv. 2025 Jan 09.
PMID: 38014192
A cell atlas of the human fallopian tube throughout the menstrual cycle and menopause.
A cell atlas of the human fallopian tube throughout the menstrual cycle and menopause. Nat Commun. 2025 Jan 03; 16(1):372.
PMID: 39753552
Cell-type-resolved chromatin accessibility in the human intestine identifies complex regulatory programs and clarifies genetic associations in Crohn's disease.
Cell-type-resolved chromatin accessibility in the human intestine identifies complex regulatory programs and clarifies genetic associations in Crohn's disease. medRxiv. 2024 Dec 11.
PMID: 39711713
Exploring the tumor micro-environment in primary and metastatic tumors of different ovarian cancer histotypes.
Exploring the tumor micro-environment in primary and metastatic tumors of different ovarian cancer histotypes. Front Cell Dev Biol. 2023; 11:1297219.
PMID: 38328306
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. mBio. 2024 Jan 16; 15(1):e0283023.
PMID: 38063424
Multiomic analysis reveals cellular and epigenetic plasticity in intestinal pouches of ulcerative colitis patients.
Multiomic analysis reveals cellular and epigenetic plasticity in intestinal pouches of ulcerative colitis patients. medRxiv. 2023 Nov 13.
PMID: 38014192
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