Abstract
High-throughput screening (HTS) uses technologies such as RNA interference to generate loss-of-function phenotypes on a genomic scale. As these technologies become more popular, many research institutes have established core facilities of expertise to deal with the challenges of large-scale HTS experiments. As the efforts of core facility screening projects come to fruition, focus has shifted towards managing the results of these experiments and making them available in a useful format that can be further mined for phenotypic discovery. The HTS-DB database provides a public view of data from screening projects undertaken by the HTS core facility at the CRUK London Research Institute. All projects and screens are described with comprehensive assay protocols, and datasets are provided with complete descriptions of analysis techniques. This format allows users to browse and search data from large-scale studies in an informative and intuitive way. It also provides a repository for additional measurements obtained from screens that were not the focus of the project, such as cell viability, and groups these data so that it can provide a gene-centric summary across several different cell lines and conditions. All datasets from our screens that can be made available can be viewed interactively and mined for further hit lists. We believe that in this format, the database provides researchers with rapid access to results of large-scale experiments that might facilitate their understanding of genes/compounds identified in their own research.Database URL: http://hts.cancerresearchuk.org/db/public
Highlights
RNA interference (RNAi) is a natural mechanism for gene silencing that is widely used in large-scale lossof-function screening campaigns in the form of smallinterfering RNA libraries that can be used to knock down genes in a high-throughput manner
To overcome these challenges and make genome-wide RNAi screening accessible to diverse research groups, many research institutes have established core–high-throughput screening (HTS) facilities that can use and perfect the specialist machinery, protocols and analysis required to operate efficiently on such a large scale
Such core screening facilities may work on straightforward screening projects with routine assays or readouts, or, as in our case, may be required to conduct many diverse projects simultaneously using a wide variety of assays and cell lines
Summary
RNA interference (RNAi) is a natural mechanism for gene silencing that is widely used in large-scale lossof-function screening campaigns in the form of smallinterfering RNA (siRNA) libraries that can be used to knock down genes in a high-throughput manner. These repositories often provide the data within a gene-centric view, allowing diverse research groups to find out whether a wide variety of screens have identified a gene of interest as a hit or not.
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