Imaging Cytometry and Microfluidics (ICM) core I (Ozinsky) Overview. The core was established by the Center to provide the resources for automated high-throughput imaging experiments on live cells along with cell purification and analysis. We have contributed to research resulting in 13 publications and two patent applications involving the analysis of cells across bacterial, yeast and mammalian systems. This has included projects for the purification and analysis of single cells, large-scale imaging screens, analysis of subcellular dynamics, and the development of new methods devices and computational tools. The core is staffed by a director, full-time manager,and a full-time technician, and has open access to state-of-the-art microscopy, cytometry, and microfluidics (see Resources). The core provides comprehensive training for users to operate equipment independently, and maintains a website with manuals and protocols to ensure standardized procedures. The ICM core has integrated control of microscopes, fluidics, image acquisition and analysis under Lab-VIEW (National Instruments) and MatLab (MathWorks). Three cell culture incubators are available to enable time-lapse/live-cell imaging on these workstations. Our dedicated clean room has a variety of soft lithography equipment including: a PDMS pre polymer mixer, a spin-coater, a dissection microscope for PDMS device layer alignment, a vacuum dessicator, PDMS punches, and a dedicated 80?C convection oven. Further, we have established an annual three-day Microfluidics course to teach the fundamental skills for PDMS design, fabrication, and operation (see Education and Training Plan).

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Special Emphasis Panel (ZGM1)
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Institute for Systems Biology
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Wurtmann, Elisabeth J; Ratushny, Alexander V; Pan, Min et al. (2014) An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation. Mol Microbiol 92:369-82
Sangar, Vineet; Funk, Cory C; Kusebauch, Ulrike et al. (2014) Quantitative proteomic analysis reveals effects of epidermal growth factor receptor (EGFR) on invasion-promoting proteins secreted by glioblastoma cells. Mol Cell Proteomics 13:2618-31
Tyler, Anna L; Crawford, Dana C; Pendergrass, Sarah A (2014) Detecting and Characterizing Pleiotropy: New Methods for Uncovering the Connection Between the Complexity of Genomic Architecture and Multiple phenotypes. Pac Symp Biocomput :183-187
Mohamadlou, Hamid; Shope, Joseph C; Flann, Nicholas S (2014) Maximizing Kolmogorov Complexity for accurate and robust bright field cell segmentation. BMC Bioinformatics 15:32
Ashworth, Justin; Plaisier, Christopher L; Lo, Fang Yin et al. (2014) Inference of expanded Lrp-like feast/famine transcription factor targets in a non-model organism using protein structure-based prediction. PLoS One 9:e107863
Carpp, Lindsay N; Rogers, Richard S; Moritz, Robert L et al. (2014) Quantitative proteomic analysis of host-virus interactions reveals a role for Golgi brefeldin A resistance factor 1 (GBF1) in dengue infection. Mol Cell Proteomics 13:2836-54
Kusebauch, Ulrike; Deutsch, Eric W; Campbell, David S et al. (2014) Using PeptideAtlas, SRMAtlas, and PASSEL: Comprehensive Resources for Discovery and Targeted Proteomics. Curr Protoc Bioinformatics 46:13.25.1-13.25.28
Schoggins, John W; MacDuff, Donna A; Imanaka, Naoko et al. (2014) Pan-viral specificity of IFN-induced genes reveals new roles for cGAS in innate immunity. Nature 505:691-5
Vialas, Vital; Sun, Zhi; Loureiro y Penha, Carla Veronica et al. (2014) A Candida albicans PeptideAtlas. J Proteomics 97:62-8
Kusebauch, Ulrike; Ortega, Corrie; Ollodart, Anja et al. (2014) Mycobacterium tuberculosis supports protein tyrosine phosphorylation. Proc Natl Acad Sci U S A 111:9265-70

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