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DEG: a database of essential genes

https://doi.org/10.1093/nar/gkh024
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Outgoing claims: the papers this work cites, builds on, or argues with.

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An estimation of minimal genome size required for life
inferredcites →https://doi.org/10.1038/77305openalex-snapshot
TnAraOut, A transposon-based approach to identify and characterize essential bacterial genes
inferredcites →https://doi.org/10.1073/pnas.012602299openalex-snapshot
A genome-scale analysis for identification of genes required for growth or survival of Haemophilus influenzae
inferredcites →https://doi.org/10.1073/pnas.0730515100openalex-snapshot
Essential Bacillus subtilis genes
inferredcites →https://doi.org/10.1073/pnas.93.19.10268openalex-snapshot
A minimal gene set for cellular life derived by comparison of complete bacterial genomes.
inferredcites →https://doi.org/10.1093/nar/28.1.37openalex-snapshot
MIPS: a database for genomes and protein sequences
inferredcites →https://doi.org/10.1093/nar/30.1.31openalex-snapshot
MIPS: a database for genomes and protein sequences
inferredcites →https://doi.org/10.1126/science.1063566openalex-snapshot
Identification of Critical Staphylococcal Genes Using Conditional Phenotypes Generated by Antisense RNA
inferredcites →https://doi.org/10.1126/science.274.5295.2069openalex-snapshot
Functional Analysis of the Genes of Yeast Chromosome V by Genetic Footprinting
inferredcites →https://doi.org/10.1126/science.286.5447.2165openalex-snapshot
Global Transposon Mutagenesis and a Minimal Mycoplasma Genome
inferredcites →https://doi.org/10.1186/gb-2001-2-2-comment2002openalex-snapshot
The complexity of simplicity.

What points at this work

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Strand-Biased Gene Distribution in Bacteria Is Related to both Horizontal Gene Transfer and Strand-Biased Nucleotide Composition
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Pantothenate kinase: A promising therapeutic target against pathogenic Clostridium species
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Identifying influential genes in protein–protein interaction networks
inferred← citeshttps://doi.org/10.1016/j.jbiotec.2017.04.004openalex-snapshot
Genome-scale metabolic modelling common cofactors metabolism in microorganisms
inferred← citeshttps://doi.org/10.1016/j.jgeb.2024.100353openalex-snapshot
Subtractive genomics study of Xanthomonas oryzae pv. Oryzae reveals repurposable drug candidate for the treatment of bacterial leaf blight in rice
inferred← citeshttps://doi.org/10.1016/j.jgeb.2026.100772openalex-snapshot
Integrated immunoinformatics for the design of novel multi-epitope vaccine and identification of new drug targets against Stenotrophomonas maltophilia, a multidrug-resistant superbug
inferred← citeshttps://doi.org/10.1016/j.jmgm.2018.01.010openalex-snapshot
Immuno-informatics driven proteome-wide investigation revealed novel peptide-based vaccine targets against emerging multiple drug resistant Providencia stuartii
inferred← citeshttps://doi.org/10.1016/j.jmgm.2018.04.005openalex-snapshot
Comparative subtractive proteomics based ranking for antibiotic targets against the dirtiest superbug: Acinetobacter baumannii
inferred← citeshttps://doi.org/10.1016/j.jmgm.2019.107477openalex-snapshot
In silico screening of antigenic B-cell derived T-cell epitopes and designing of a multi-epitope peptide vaccine for Acinetobacter nosocomialis
inferred← citeshttps://doi.org/10.1016/j.jtbi.2009.09.029openalex-snapshot
Protein interaction network analysis—Approach for potential drug target identification in Mycobacterium tuberculosis
inferred← citeshttps://doi.org/10.1016/j.jtbi.2010.02.006openalex-snapshot
Essential molecular functions associated with the circular code evolution
inferred← citeshttps://doi.org/10.1016/j.jtbi.2015.01.022openalex-snapshot
Comparative genomics study of Salmonella Typhimurium LT2 for the identification of putative therapeutic candidates
inferred← citeshttps://doi.org/10.1016/j.jtbi.2015.08.028openalex-snapshot
Homology modeling, functional annotation and comparative genomics of outer membrane protein H of Pasteurella multocida
inferred← citeshttps://doi.org/10.1016/j.jtbi.2018.03.029openalex-snapshot
Identifying essential proteins based on sub-network partition and prioritization by integrating subcellular localization information
inferred← citeshttps://doi.org/10.1016/j.knosys.2019.02.011openalex-snapshot
Moth–flame optimization-based algorithm with synthetic dynamic PPI networks for discovering protein complexes
inferred← citeshttps://doi.org/10.1016/j.meegid.2011.10.017openalex-snapshot
Mycoplasma genitalium: A comparative genomics study of metabolic pathways for the identification of drug and vaccine targets
inferred← citeshttps://doi.org/10.1016/j.meegid.2020.104315openalex-snapshot
Identification of novel therapeutic target and epitopes through proteome mining from essential hypothetical proteins in Salmonella strains: An In silico approach towards antivirulence therapy and vaccine development
inferred← citeshttps://doi.org/10.1016/j.meegid.2020.104551openalex-snapshot
Subtractive proteomics and immunoinformatics approaches to explore Bartonella bacilliformis proteome (virulence factors) to design B and T cell multi-epitope subunit vaccine
inferred← citeshttps://doi.org/10.1016/j.meegid.2021.104755openalex-snapshot
Screening Balanites aegyptiaca for inhibitors against putative drug targets in Microsporum gypseum – Subtractive proteome, docking and simulation approach
inferred← citeshttps://doi.org/10.1016/j.mehy.2013.12.023openalex-snapshot
Exploring apposite therapeutic target for apoptosis in filarial parasite: A plausible hypothesis
inferred← citeshttps://doi.org/10.1016/j.mgene.2018.09.004openalex-snapshot
Identification of potential antibiotic targets in the proteome of multi-drug resistant Proteus mirabilis
inferred← citeshttps://doi.org/10.1016/j.micinf.2005.11.019openalex-snapshot
The impact of comparative genomics on infectious disease research
inferred← citeshttps://doi.org/10.1016/j.micpath.2017.12.063openalex-snapshot
Subtractive genome analysis for in silico identification and characterization of novel drug targets in Streptococcus pneumonia strain JJA
inferred← citeshttps://doi.org/10.1016/j.micpath.2018.05.037openalex-snapshot
An in silico study: Novel targets for potential drug and vaccine design against drug resistant H. pylori
inferred← citeshttps://doi.org/10.1016/j.micpath.2018.09.042openalex-snapshot
Subtractive proteomics and immunoinformatics revealed novel B-cell derived T-cell epitopes against Yersinia enterocolitica: An etiological agent of Yersiniosis
inferred← citeshttps://doi.org/10.1016/j.micpath.2020.104275openalex-snapshot
Interest of bacterial pangenome analyses in clinical microbiology
inferred← citeshttps://doi.org/10.1016/j.micpath.2020.104293openalex-snapshot
Identification and qualitative characterization of new therapeutic targets in Stenotrophomonas maltophilia through in silico proteome exploration
inferred← citeshttps://doi.org/10.1016/j.micpath.2021.104771openalex-snapshot
Proteome wide vaccine targets prioritization and designing of antigenic vaccine candidate to trigger the host immune response against the Mycoplasma genitalium infection
inferred← citeshttps://doi.org/10.1016/j.micpath.2021.105059openalex-snapshot
Network topology analysis of essential genes interactome of Helicobacter pylori to explore novel therapeutic targets
inferred← citeshttps://doi.org/10.1016/j.microb.2024.100166openalex-snapshot
Comparative analysis of genetic landscape of carbapenem-resistant Acinetobacter baumannii in India: A computational whole-genome study
inferred← citeshttps://doi.org/10.1016/j.mimet.2014.03.009openalex-snapshot
Comparative genomics study for the identification of drug and vaccine targets in Staphylococcus aureus: MurA ligase enzyme as a proposed candidate
inferred← citeshttps://doi.org/10.1016/j.molliq.2018.06.013openalex-snapshot
From phylogeny to protein dynamics: A computational hierarchical quest for potent drug identification against an emerging enteropathogen “Yersinia enterocolitica”
inferred← citeshttps://doi.org/10.1016/j.molliq.2018.08.072openalex-snapshot
Targeting isoprenoid biosynthesis pathway in Staphylococcus lugdunensis: Comparative docking and simulation studies of conventional and allosteric sites
inferred← citeshttps://doi.org/10.1016/j.molliq.2020.113904openalex-snapshot
From pan-genome to protein dynamics: A computational hierarchical quest to identify drug target in multi-drug resistant Burkholderia cepacia
inferred← citeshttps://doi.org/10.1016/j.nexres.2025.100282openalex-snapshot
Function assignment and identification of potential lead compounds for the putative protein AXA72_03280 of Mycoplasmoides pneumoniae
inferred← citeshttps://doi.org/10.1016/j.omtn.2026.103023openalex-snapshot
Antisense peptide nucleic acids targeting ribosomal protein genes: A novel strategy against carbapenem-resistant Acinetobacter baumannii
inferred← citeshttps://doi.org/10.1016/j.parint.2018.11.006openalex-snapshot
An in silico approach in identification of drug targets in Leishmania: A subtractive genomic and metabolic simulation analysis
inferred← citeshttps://doi.org/10.1016/j.physa.2023.129043openalex-snapshot
DNA visibility graphs
inferred← citeshttps://doi.org/10.1016/j.physa.2025.130436openalex-snapshot
Applied DNA visibility graphs: Understanding DNA structure-function relationship in genomics
inferred← citeshttps://doi.org/10.1016/j.procbio.2023.04.016openalex-snapshot
Identification of novel drug targets in Porphyromonas gingivalis and proposing inhibitors against acetate kinase using structure-based virtual screening
inferred← citeshttps://doi.org/10.1016/j.tibtech.2012.08.002openalex-snapshot
Essential genes as antimicrobial targets and cornerstones of synthetic biology
inferred← citeshttps://doi.org/10.1016/j.tube.2015.01.006openalex-snapshot
Structural and functional features of enzymes of Mycobacterium tuberculosis peptidoglycan biosynthesis as targets for drug development
inferred← citeshttps://doi.org/10.1016/j.vetpar.2018.11.015openalex-snapshot
Annotating the ‘hypothetical’ in hypothetical proteins: In-silico analysis of uncharacterised proteins for the Apicomplexan parasite, Neospora caninum
inferred← citeshttps://doi.org/10.1016/j.ygeno.2013.04.011openalex-snapshot
Putative drug and vaccine target protein identification using comparative genomic analysis of KEGG annotated metabolic pathways of Mycoplasma hyopneumoniae
inferred← citeshttps://doi.org/10.1016/j.ygeno.2013.12.002openalex-snapshot
Comparative genomics study for identification of drug and vaccine targets in Vibrio cholerae: MurA ligase as a case study
inferred← citeshttps://doi.org/10.1016/j.ygeno.2014.05.002openalex-snapshot
Prioritizing drug targets in Clostridium botulinum with a computational systems biology approach
inferred← citeshttps://doi.org/10.1016/j.ygeno.2016.11.005openalex-snapshot
TiD: Standalone software for mining putative drug targets from bacterial proteome
inferred← citeshttps://doi.org/10.1016/j.ygeno.2020.12.015openalex-snapshot
Pan-genomics, drug candidate mining and ADMET profiling of natural product inhibitors screened against Yersinia pseudotuberculosis
inferred← citeshttps://doi.org/10.1016/j.ygeno.2021.06.011openalex-snapshot
Computational identification of putative common genomic drug and vaccine targets in Mycoplasma genitalium
inferred← citeshttps://doi.org/10.1016/j.ymben.2021.01.007openalex-snapshot
Transportome-wide engineering of Saccharomyces cerevisiae
inferred← citeshttps://doi.org/10.1016/s1016-8478(23)13181-5openalex-snapshot
Identification of Essential Genes in Streptococcus pneumoniae by Allelic Replacement Mutagenesis
inferred← citeshttps://doi.org/10.1021/acs.jcim.1c00967openalex-snapshot
TRIOMPHE: Transcriptome-Based Inference and Generation of Molecules with Desired Phenotypes by Machine Learning
inferred← citeshttps://doi.org/10.1021/acs.jmedchem.6b00483openalex-snapshot
Targeting the Motion of Shikimate Kinase: Development of Competitive Inhibitors that Stabilize an Inactive Open Conformation of the Enzyme
inferred← citeshttps://doi.org/10.1021/acs.jmedchem.8b01044openalex-snapshot
Pathway-Based Drug Repositioning for Cancers: Computational Prediction and Experimental Validation
inferred← citeshttps://doi.org/10.1021/acsinfecdis.6c00521openalex-snapshot
Artificial Intelligence-Integrated Proteome-Wide Target Prioritization for Drug Discovery against Multidrug-Resistant Neisseria gonorrhoeae
inferred← citeshttps://doi.org/10.1021/acsomega.5c13414openalex-snapshot
Molecular Mimicry Inference, Therapeutic Target Identification, and Natural Product Inhibition Study in Cardiobacterium valvarum through Bioinformatics Approach
inferred← citeshttps://doi.org/10.1021/bi100780topenalex-snapshot
Functional Analysis, Overexpression, and Kinetic Characterization of Pyruvate Kinase from Methicillin-ResistantStaphylococcus aureus
inferred← citeshttps://doi.org/10.1021/ja405853popenalex-snapshot
Mycobacterium tuberculosis Shikimate Kinase Inhibitors: Design and Simulation Studies of the Catalytic Turnover
inferred← citeshttps://doi.org/10.1021/jm2006063openalex-snapshot
A Prodrug Approach for Improving Antituberculosis Activity of Potent Mycobacterium tuberculosis Type II Dehydroquinase Inhibitors
inferred← citeshttps://doi.org/10.1021/jm9010466openalex-snapshot
Synthesis and Biological Evaluation of New Nanomolar Competitive Inhibitors of Helicobacter pylori Type II Dehydroquinase. Structural Details of the Role of the Aromatic Moieties with Essential Residues
inferred← citeshttps://doi.org/10.1038/nbt.1672openalex-snapshot
High-throughput generation, optimization and analysis of genome-scale metabolic models
inferred← citeshttps://doi.org/10.1038/nbt1268openalex-snapshot
Riboswitches as antibacterial drug targets
inferred← citeshttps://doi.org/10.1038/nchembio842openalex-snapshot
Antibacterial lysine analogs that target lysine riboswitches
inferred← citeshttps://doi.org/10.1038/nprot.2013.105openalex-snapshot
Design and use of synthetic regulatory small RNAs to control gene expression in Escherichia coli
inferred← citeshttps://doi.org/10.1038/s41420-018-0093-yopenalex-snapshot
An analysis of aging-related genes derived from the Genotype-Tissue Expression project (GTEx)
inferred← citeshttps://doi.org/10.1038/s41467-020-19990-5openalex-snapshot
A substrate binding model for the KEOPS tRNA modifying complex
inferred← citeshttps://doi.org/10.1038/s41467-023-43648-7openalex-snapshot
The protein interactome of the citrus Huanglongbing pathogen Candidatus Liberibacter asiaticus
inferred← citeshttps://doi.org/10.1038/s41564-024-01791-xopenalex-snapshot
Protein interactions in human pathogens revealed through deep learning
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