1Click1View: interactive visualization methodology for RNAi cell-based microscopic screening

Strategies and Solutions to Maintain and Retain Data from High Content Imaging, Analysis, and Screening Assays

Data analysis and management in high content screening (HCS) has progressed significantly in the past 10 years. The analysis of the large volume of data generated in HCS experiments represents a significant challenge and is currently a bottleneck in many screening projects. In most screening laboratories, HCS has become a standard technology applied routinely to various applications from target identification to hit identification to lead optimization. An HCS data management and analysis infrastructure shared by several research groups can allow efficient use of existing IT resources and ensures company-wide standards for data quality and result generation. This chapter outlines typical HCS workflows and presents IT infrastructure requirements for multi-well plate-based HCS.

Genome-wide RNAi screens in S2 cells to identify centrosome components

Centrosomes act as the major microtubule organizing centers in animal cells. To fully understand how the centrosome functions, a detailed analysis of its principal structural components and regulators is needed. Genome-wide RNA interference (RNAi) allows for comprehensive screening of all components. Drosophila tissue culture cells provide an attractive model for such screens. First, Drosophila centrosomes are similar to their human counterparts, but less complex. Thus, all major centrosome components are conserved and fewer redundancies apply. Second, RNAi is highly efficient in Drosophila tissue culture cells and, compared to RNAi in human cells, it is cost-effective. Finally, the availability of comprehensive libraries permits easy genome-wide screening of most of Drosophila's 14,000 protein coding genes. In this paper, we present detailed instructions for designing, performing, and analyzing a genome-wide screen in Drosophila tissue culture cells to identify centrosome components using a microscopy-based approach.

Light microscopy applications in systems biology: opportunities and challenges

Biological systems present multiple scales of complexity, ranging from molecules to entire populations. Light microscopy is one of the least invasive techniques used to access information from various biological scales in living cells. The combination of molecular biology and imaging provides a bottom-up tool for direct insight into how molecular processes work on a cellular scale. However, imaging can also be used as a top-down approach to study the behavior of a system without detailed prior knowledge about its underlying molecular mechanisms. In this review, we highlight the recent developments on microscopy-based systems analyses and discuss the complementary opportunities and different challenges with high-content screening and high-throughput imaging. Furthermore, we provide a comprehensive overview of the available platforms that can be used for image analysis, which enable community-driven efforts in the development of image-based systems biology.