Prediction of protein essentiality by the improved particle swarm optimization
Sign Up to like & getrecommendations! Published in 2018 at "Soft Computing"
DOI: 10.1007/s00500-017-2964-1
Abstract: The essential protein is very important for understanding cellular critical activities and development. With the development of high throughput technology, how to identify the essential proteins from the protein interaction network has become a hot… read more here.
Keywords: protein; improved particle; network; topology ... See more keywords
Putting gene essentiality into context
Sign Up to like & getrecommendations! Published in 2017 at "Nature Reviews Genetics"
DOI: 10.1038/nrg.2017.141
Abstract: been to characterize genes that are essential for cellular or organismal viability. Such sets of genes — which are deemed the most important for survival — have numerous applications, including to design and engineer streamlined… read more here.
Keywords: gene essentiality; essential genes; drug; essential gene ... See more keywords
Human gene essentiality
Sign Up to like & getrecommendations! Published in 2018 at "Nature Reviews Genetics"
DOI: 10.1038/nrg.2017.75
Abstract: A gene can be defined as essential when loss of its function compromises viability of the individual (for example, embryonic lethality) or results in profound loss of fitness. At the population level, identification of essential… read more here.
Keywords: gene essentiality; human gene; genetics; gene ... See more keywords
Transposon insertional mutagenesis of diverse yeast strains suggests coordinated gene essentiality polymorphisms.
Sign Up to like & getrecommendations! Published in 2022 at "Nature communications"
DOI: 10.1038/s41467-022-29228-1
Abstract: Due to epistasis, the same mutation can have drastically different phenotypic consequences in different individuals. This phenomenon is pertinent to precision medicine as well as antimicrobial drug development, but its general characteristics are largely unknown.… read more here.
Keywords: insertional mutagenesis; essentiality; transposon insertional; gene essentiality ... See more keywords
Complex modifier landscape underlying genetic background effects
Sign Up to like & getrecommendations! Published in 2019 at "Proceedings of the National Academy of Sciences of the United States of America"
DOI: 10.1073/pnas.1820915116
Abstract: Significance Genetic background impacts the phenotypic outcome of a mutation in different individuals; however, the underlying molecular mechanisms are often unclear. We characterized genes exhibiting conditional essentiality when mutated in two genetically distinct yeast strains.… read more here.
Keywords: complex modifier; genetic background; conditional essentiality; gene ... See more keywords
Gradients in gene essentiality reshape antibacterial research.
Sign Up to like & getrecommendations! Published in 2022 at "FEMS microbiology reviews"
DOI: 10.1093/femsre/fuac005
Abstract: Essential genes encode the processes that are necessary for life. Until recently, commonly applied binary classifications left no space between essential and non-essential genes. In this review, we frame bacterial gene essentiality in the context… read more here.
Keywords: reshape antibacterial; essentiality reshape; essentiality; gradients gene ... See more keywords
The Transposable Element Environment of Human Genes Differs According to Their Duplication Status and Essentiality
Sign Up to like & getrecommendations! Published in 2021 at "Genome Biology and Evolution"
DOI: 10.1093/gbe/evab062
Abstract: Abstract Transposable elements (TEs) are major components of eukaryotic genomes and represent approximately 45% of the human genome. TEs can be important sources of novelty in genomes and there is increasing evidence that TEs contribute… read more here.
Keywords: duplication; nuclear elements; duplicated genes; interspersed nuclear ... See more keywords
PICKLES: the database of pooled in-vitro CRISPR knockout library essentiality screens
Sign Up to like & getrecommendations! Published in 2018 at "Nucleic Acids Research"
DOI: 10.1093/nar/gkx993
Abstract: Abstract The adaptation of CRISPR/Cas9 systems for pooled library genetic knockout screens in mammalian cells has substantially advanced the state of the art in human functional genomics. Screening panels of cell lines for genes whose… read more here.
Keywords: crispr; pickles database; database pooled; essentiality ... See more keywords
Temporal-Spatial Analysis of the Essentiality of Hub Proteins in Protein-Protein Interaction Networks
Sign Up to like & getrecommendations! Published in 2022 at "IEEE Transactions on Network Science and Engineering"
DOI: 10.1109/tnse.2022.3185717
Abstract: Hubs are generally defined as nodes with a high degree centrality, and they are important for maintaining the stability of complex networks. Previous studies have shown that hub proteins tend to be essential in protein-protein… read more here.
Keywords: hub proteins; ppi networks; essentiality; analysis ... See more keywords
DELEAT: gene essentiality prediction and deletion design for bacterial genome reduction
Sign Up to like & getrecommendations! Published in 2021 at "BMC Bioinformatics"
DOI: 10.1186/s12859-021-04348-5
Abstract: Background The study of gene essentiality is fundamental to understand the basic principles of life, as well as for applications in many fields. In recent decades, dozens of sets of essential genes have been determined… read more here.
Keywords: gene essentiality; bacterial genome; gene; essentiality ... See more keywords
Peptide Deformylase (def) is essential in Mycobacterium smegmatis, but the essentiality is compensated by inactivation of methionine formylation
Sign Up to like & getrecommendations! Published in 2019 at "BMC Microbiology"
DOI: 10.1186/s12866-019-1611-7
Abstract: BackgroundCo-translational processes in bacteria are attractive drug targets, but while some processes are essential, others are not. The essentiality of Peptide Deformylase (PDF, def) for vitality of mycobacteria was speculated, but never unequivocally proven.ResultsHere we… read more here.
Keywords: peptide deformylase; def; inactivation; smegmatis ... See more keywords