Bernie Marcus Early-Career Professor
Bioimaging, Biodynamics and Biocomputation: Multiplexed, Spatially resolved Single Cell Analysis and Subcellular Networks; Tumor Microenvironment and Pediatric Diseases; Machine Learning; BioArt, 3DVisualBio,BioEMediaLab & Demonstration-based Learning
Ahmet Coskun is a systems biotechnologist and bioengineer, working at the nexus of multiplex imaging and quantitative cell biology.
Single Cell Biotechnology Lab is strategically positioned for imaging one cell at a time for spatial context. We are multi-disciplinary researchers interested in photons, ions, and electrons and their interactions with cells and tissues. Using large-scale experiments and computational analysis, we address fundamental challenges in cancers, immunology, and pediatric diseases. Variability of single cell profiles can be used to understand differences in therapeutic response, as well as satisfy our curiosity on understanding how cells are spatially organized in nature.
Our lab aims to deliver biotechnologies for spatial multi-omics profiling vision at the single cell level.
- Spatial genomics: Our lab was part of an early efforts to demonstrate spatially resolved RNA profiling in single cells using a sequential FISH method. We will continue leveraging seqFISH and correlation FISH (another computational RNA imaging method) for exploring spatial dynamics of cellular societies, particularly in stem cell biology for regenerative medicine.
- Spatial proteomics: Our lab develops expertise on antibody-oligonucleotide based barcoding for multiplex protein imaging using CODEX technology. We combine CODEX with super-resolution and 3D imaging to visualize and quantify subcellular epigenetic states of immune and cancer cells.
- Spatial metabolomics: Our lab works on computational and isotope barcoding approaches for small molecule profiling using MIBI (Multiplexed ion beam imaging) and 3D Spatially Resolved Metabolic Profiling (3D-SMF). 3D and subcellular metabolic state of individual cells are used to model functional modes of cellular decision making in health and disease. (published in Science Advances 2021 and Nature Communications 2021)
We also develop machine learning and deep learning algorithms to make sense of imaging based single cell big data.
In a nutshell, we create image-based ‘omic technologies to reveal spatial nature of biological systems. We benefit from enabler tools: Super-resolution bioimaging, barcoded biochemical reagents, advanced algorithms and automated microfludics. Topical interests include Spatial Biology, Liquid Biopsy, and Global Oncology.
As a complementary effort, we have initiated Bioengineering Media Lab (bioemedialab.org) at Georgia Tech. The mission of this interactive studio lab is to integrate emerging digital technologies with cellular imaging and analysis tools for unconventional scientific explorations and innovative educational teaching platforms. The interactive bio-engineering projects will enhance collaboration among interdisciplinary scientists. Digital visualizations will enhance sensitivity and specificity of molecular and cellular analysis in patient samples. The experimental datasets and resources are based on scientific research endeavors in the Coskun Laboratory at Georgia Tech. Some of our projects include:
- Digital posters for interactive cellular media and bioengineering education (published in Communications Biology, 2019)
- Virtual reality for cellular omics datasets in 3D for interactive analysis in pathology and oncology
Ahmet Coskun trained at Stanford (Postdoc/Instructor with Garry Nolan), Caltech (Postdoc with Long Cai) and UCLA (PhD with Aydogan Ozcan). His lab is currently funded by NIH K25, BWF CASI, Georgia Tech & Emory.