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J Biotechnol. 2017 Nov 10;261:63-69. doi: 10.1016/j.jbiotec.2017.06.008. Epub 2017 Jun 16.

Phenotype databases for genetic screens in human cells.

Author information

1
Division of Signaling and Functional Genomics, German Cancer Research Center (DKFZ) and Heidelberg University, 69120 Heidelberg, Germany.
2
Division of Signaling and Functional Genomics, German Cancer Research Center (DKFZ) and Heidelberg University, 69120 Heidelberg, Germany. Electronic address: m.boutros@dkfz.de.

Abstract

Genetic screens are powerful tools to identify components that make up biological systems. Perturbations introduced by methods such as RNA interference (RNAi) or CRISPR/Cas9-mediated genome editing lead to biological phenotypes that can be examined to understand the molecular function of genes in the cell. Over the years, many of such experiments have been conducted providing a wealth of knowledge about genotype-to-phenotype relationships. These data are a rich source of information and it is in a common interest to make them available in a simplified and integrated format. Thus, an important challenge is that genetic screening data can be stored in databases in standardized ways, allowing users to gain new biological insights through data mining and integrated analyses. Here, we provide an overview of available phenotype databases for human cells. We review in detail two databases for high-throughput screens, GenomeRNAi and GenomeCRISPR, and describe how these resources are integrated into the German Network for Bioinformatics Infrastructure de.NBI as part of the European infrastructure for life-science information ELIXIR.

KEYWORDS:

Database; ELIXIR; Functional genomics; High-throughput biology; Phenotype; de.NBI

PMID:
28625679
DOI:
10.1016/j.jbiotec.2017.06.008
[Indexed for MEDLINE]
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