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).

National Institute of Health (NIH)
National Institute of General Medical Sciences (NIGMS)
Specialized Center (P50)
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Special Emphasis Panel (ZGM1-CBCB-3)
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Institute for Systems Biology
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Lee, Joon-Yong; Choi, Hyungwon; Colangelo, Christopher M et al. (2018) ABRF Proteome Informatics Research Group (iPRG) 2016 Study: Inferring Proteoforms from Bottom-up Proteomics Data. J Biomol Tech 29:39-45
Tuttle, Lisa M; Pacheco, Derek; Warfield, Linda et al. (2018) Gcn4-Mediator Specificity Is Mediated by a Large and Dynamic Fuzzy Protein-Protein Complex. Cell Rep 22:3251-3264
Maixner, Frank; Turaev, Dmitrij; Cazenave-Gassiot, Amaury et al. (2018) The Iceman's Last Meal Consisted of Fat, Wild Meat, and Cereals. Curr Biol 28:2348-2355.e9
Holden, Jennifer M; Koreny, Ludek; Obado, Samson et al. (2018) Involvement in surface antigen expression by a moonlighting FG-repeat nucleoporin in trypanosomes. Mol Biol Cell 29:1100-1110
Hoopmann, Michael R; Winget, Jason M; Mendoza, Luis et al. (2018) StPeter: Seamless Label-Free Quantification with the Trans-Proteomic Pipeline. J Proteome Res 17:1314-1320
Slama, Patrick; Hoopmann, Michael R; Moritz, Robert L et al. (2018) Robust determination of differential abundance in shotgun proteomics using nonparametric statistics. Mol Omics 14:424-436
Jabbari, Neda; Glusman, Gustavo; Joesch-Cohen, Lena M et al. (2018) Whole genome sequence and comparative analysis of Borrelia burgdorferi MM1. PLoS One 13:e0198135
Trachana, Kalliopi; Bargaje, Rhishikesh; Glusman, Gustavo et al. (2018) Taking Systems Medicine to Heart. Circ Res 122:1276-1289
Shao, Wenguang; Pedrioli, Patrick G A; Wolski, Witold et al. (2018) The SysteMHC Atlas project. Nucleic Acids Res 46:D1237-D1247
Kazantsev, Fedor; Akberdin, Ilya; Lashin, Sergey et al. (2018) MAMMOTh: A new database for curated mathematical models of biomolecular systems. J Bioinform Comput Biol 16:1740010

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