Format

Send to

Choose Destination
Nucleic Acids Res. 2014 Jan;42(Database issue):D574-80. doi: 10.1093/nar/gkt1131. Epub 2013 Nov 15.

DEG 10, an update of the database of essential genes that includes both protein-coding genes and noncoding genomic elements.

Author information

1
Department of Physics, Tianjin University, Tianjin 300072, People's Republic of China and Center for Molecular Medicine and Genetics, School of Medicine, Wayne State University, Detroit 48201, USA.

Abstract

The combination of high-density transposon-mediated mutagenesis and high-throughput sequencing has led to significant advancements in research on essential genes, resulting in a dramatic increase in the number of identified prokaryotic essential genes under diverse conditions and a revised essential-gene concept that includes all essential genomic elements, rather than focusing on protein-coding genes only. DEG 10, a new release of the Database of Essential Genes (available at http://www.essentialgene.org), has been developed to accommodate these quantitative and qualitative advancements. In addition to increasing the number of bacterial and archaeal essential genes determined by genome-wide gene essentiality screens, DEG 10 also harbors essential noncoding RNAs, promoters, regulatory sequences and replication origins. These essential genomic elements are determined not only in vitro, but also in vivo, under diverse conditions including those for survival, pathogenesis and antibiotic resistance. We have developed customizable BLAST tools that allow users to perform species- and experiment-specific BLAST searches for a single gene, a list of genes, annotated or unannotated genomes. Therefore, DEG 10 includes essential genomic elements under different conditions in three domains of life, with customizable BLAST tools.

PMID:
24243843
PMCID:
PMC3965060
DOI:
10.1093/nar/gkt1131
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center